Citrus Sinensis ID: 048737

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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----
Protein Sequence
GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRSMRDRFDSLERRWKTSQM
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHHHHHccccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccHHHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHccHHHHHHHHHHHHccccccc
Coil and Loop (DISEMBL)
GWEKEGNVVEANKTFGEMVErfewnpehVLAYETFLITLIRGKQVDEALKFLRVMkgencfptlKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLcnnndvdnVFRFFDQmvfhgafpdsltYNMIFECLIKNKKVHEVENFFHEMiknewqptplNCATAITMlldadepeFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRSMRDRFDSLERRWKTSQM
Flexible Loop (DISEMBL)
gwekegnvveanKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMiknewqptPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAfynesrsmrdrfdslerrwktsqm
Low Complexity Region (SEG)
GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCnnndvdnvfrffdQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASAnvllvglrnlgrlSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRSMRDRFDSLERRWKTSQM
Disordered region (IsUnstruct)
***********NKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFY**********************
Disordered Region (DISOPRED)
GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRSMRDRFDSLERRWKT***
Disordered Region (DISEMBL)
GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRSMRDRFDSLERRWKTSQM
Disordered Region (DISPRO)
*WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRSMRDRFDSLERRWKTSQ*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRSMRDRFDSLERRWKTSQM
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	274	2.2.26 [Sep-21-2011]
Q9LZP3	599	Pentatricopeptide repeat-	yes	no	0.970	0.444	0.235	3e-19
Q9FVX2	517	Pentatricopeptide repeat-	no	no	0.916	0.485	0.273	3e-19
Q9LEQ7	598	Pentatricopeptide repeat-	yes	no	0.970	0.444	0.235	1e-18
Q3EAF8	599	Pentatricopeptide repeat-	yes	no	0.970	0.444	0.235	1e-18
Q9SSR6	523	Pentatricopeptide repeat-	no	no	0.890	0.466	0.265	2e-18
Q9C9A2	510	Pentatricopeptide repeat-	no	no	0.894	0.480	0.265	3e-17
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.886	0.392	0.254	2e-16
O04491	607	Putative pentatricopeptid	no	no	0.890	0.401	0.262	8e-16
Q9FNL2	472	Pentatricopeptide repeat-	no	no	0.722	0.419	0.274	2e-15
Q3EDF8	598	Pentatricopeptide repeat-	no	no	0.810	0.371	0.235	2e-15

>sp|Q9LZP3|PP293_ARATH Pentatricopeptide repeat-containing protein At3g62470, mitochondrial OS=Arabidopsis thaliana GN=At3g62470 PE=2 SV=1

 Score = 95.9 bits (237), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 64/272 (23%), Positives = 127/272 (46%), Gaps = 6/272 (2%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
           GW +  N++EA + + +M+++    P+ ++A+   L  L+R ++  +A+K   VMK +  
Sbjct: 307 GWCRVRNLIEAARIWNDMIDQ-GLKPD-IVAHNVMLEGLLRSRKKSDAIKLFHVMKSKGP 364

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
            P ++ ++  +    K +     ++ +D MV  G  L P+  +Y  ++        +D V
Sbjct: 365 CPNVRSYTIMIRDFCKQSSMETAIEYFDDMVDSG--LQPDAAVYTCLITGFGTQKKLDTV 422

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
           +    +M   G  PD  TYN + + +   K        +++MI+NE +P+       +  
Sbjct: 423 YELLKEMQEKGHPPDGKTYNALIKLMANQKMPEHATRIYNKMIQNEIEPSIHTFNMIMKS 482

Query: 181 LLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY 240
              A   E    +W  +++ GI P + S  VL+ GL   G+  +  R+ EEML++ +   
Sbjct: 483 YFMARNYEMGRAVWEEMIKKGICPDDNSYTVLIRGLIGEGKSREACRYLEEMLDKGMKTP 542

Query: 241 DVTMQKLKKAFYNESRSMRDRFDSLERRWKTS 272
            +   K    F+   +   + F+ L +R K S
Sbjct: 543 LIDYNKFAADFHRGGQP--EIFEELAQRAKFS 572

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FVX2|PP129_ARATH Pentatricopeptide repeat-containing protein At1g77360, mitochondrial OS=Arabidopsis thaliana GN=At1g77360 PE=2 SV=2

 Score = 95.9 bits (237), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 70/256 (27%), Positives = 118/256 (46%), Gaps = 5/256 (1%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
           GW KE N+ +A + F EM++    +P+ ++ Y   +  L +  +VDEAL  +R M    C
Sbjct: 246 GWGKEPNLPKAREVFREMIDA-GCHPD-IVTYSIMVDILCKAGRVDEALGIVRSMDPSIC 303

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
            PT   +S  +      N     V  +  M   G  +  ++ ++N+++G  C  N + NV
Sbjct: 304 KPTTFIYSVLVHTYGTENRLEEAVDTFLEMERSG--MKADVAVFNSLIGAFCKANRMKNV 361

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
           +R   +M   G  P+S + N+I   LI+  +  E  + F +MIK   +P        I M
Sbjct: 362 YRVLKEMKSKGVTPNSKSCNIILRHLIERGEKDEAFDVFRKMIK-VCEPDADTYTMVIKM 420

Query: 181 LLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY 240
             +  E E A ++W Y+ + G+ P   + +VL+ GL             EEM+   I   
Sbjct: 421 FCEKKEMETADKVWKYMRKKGVFPSMHTFSVLINGLCEERTTQKACVLLEEMIEMGIRPS 480

Query: 241 DVTMQKLKKAFYNESR 256
            VT  +L++    E R
Sbjct: 481 GVTFGRLRQLLIKEER 496

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LEQ7|PP382_ARATH Pentatricopeptide repeat-containing protein At5g14820, mitochondrial OS=Arabidopsis thaliana GN=At5g14820 PE=2 SV=1

 Score = 94.0 bits (232), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 64/272 (23%), Positives = 127/272 (46%), Gaps = 6/272 (2%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
           GW +  N++EA + + +M++     P+ ++A+   L  L+R  +  +A+K   VMK +  
Sbjct: 306 GWCRVRNLIEAARIWNDMIDH-GLKPD-IVAHNVMLEGLLRSMKKSDAIKLFHVMKSKGP 363

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
            P ++ ++  +    K +     ++ +D MV  G  L P+  +Y  ++        +D V
Sbjct: 364 CPNVRSYTIMIRDFCKQSSMETAIEYFDDMVDSG--LQPDAAVYTCLITGFGTQKKLDTV 421

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
           +    +M   G  PD  TYN + + +   K        +++MI+NE +P+       +  
Sbjct: 422 YELLKEMQEKGHPPDGKTYNALIKLMANQKMPEHGTRIYNKMIQNEIEPSIHTFNMIMKS 481

Query: 181 LLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY 240
              A   E    +W+ +++ GI P + S  VL+ GL + G+  +  R+ EEML++ +   
Sbjct: 482 YFVARNYEMGRAVWDEMIKKGICPDDNSYTVLIRGLISEGKSREACRYLEEMLDKGMKTP 541

Query: 241 DVTMQKLKKAFYNESRSMRDRFDSLERRWKTS 272
            +   K    F+   +   + F+ L +R K S
Sbjct: 542 LIDYNKFAADFHRGGQP--EIFEELAQRAKFS 571

Arabidopsis thaliana (taxid: 3702)

>sp|Q3EAF8|PP294_ARATH Pentatricopeptide repeat-containing protein At3g62540, mitochondrial OS=Arabidopsis thaliana GN=At3g62540 PE=2 SV=1

 Score = 93.6 bits (231), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 64/272 (23%), Positives = 127/272 (46%), Gaps = 6/272 (2%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
           GW +  N++EA + + +M++     P+ ++A+   L  L+R  +  +A+K   VMK +  
Sbjct: 307 GWCRVRNLIEAARIWNDMIDH-GLKPD-IVAHNVMLEGLLRSMKKSDAIKLFHVMKSKGP 364

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
            P ++ ++  +    K +     ++ +D MV  G  L P+  +Y  ++        +D V
Sbjct: 365 CPNVRSYTIMIRDFCKQSSMETAIEYFDDMVDSG--LQPDAAVYTCLITGFGTQKKLDTV 422

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
           +    +M   G  PD  TYN + + +   K        +++MI+NE +P+       +  
Sbjct: 423 YELLKEMQEKGHPPDGKTYNALIKLMANQKMPEHGTRIYNKMIQNEIEPSIHTFNMIMKS 482

Query: 181 LLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY 240
              A   E    +W+ +++ GI P + S  VL+ GL + G+  +  R+ EEML++ +   
Sbjct: 483 YFVARNYEMGRAVWDEMIKKGICPDDNSYTVLIRGLISEGKSREACRYLEEMLDKGMKTP 542

Query: 241 DVTMQKLKKAFYNESRSMRDRFDSLERRWKTS 272
            +   K    F+   +   + F+ L +R K S
Sbjct: 543 LIDYNKFAADFHRGGQP--EIFEELAQRAKFS 572

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SSR6|PPR78_ARATH Pentatricopeptide repeat-containing protein At1g52640, mitochondrial OS=Arabidopsis thaliana GN=At1g52640 PE=2 SV=1

 Score = 93.6 bits (231), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 66/249 (26%), Positives = 109/249 (43%), Gaps = 5/249 (2%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
           GW +  +   A K F EM+ER       +LAY   L  L +   VD   K  + M     
Sbjct: 217 GWARIRDASGARKVFDEMLERN--CVVDLLAYNALLDALCKSGDVDGGYKMFQEMGNLGL 274

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
            P    F+  +       D     ++ D M    ++L+PN+  +N ++  LC N  VD+ 
Sbjct: 275 KPDAYSFAIFIHAYCDAGDVHSAYKVLDRMKR--YDLVPNVYTFNHIIKTLCKNEKVDDA 332

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
           +   D+M+  GA PD+ TYN I      + +V+        M + +  P        + +
Sbjct: 333 YLLLDEMIQKGANPDTWTYNSIMAYHCDHCEVNRATKLLSRMDRTKCLPDRHTYNMVLKL 392

Query: 181 LLDADEPEFAIEIWNYILENGILPLEASANVLLVGL-RNLGRLSDVRRFAEEMLNRRILI 239
           L+     + A EIW  + E    P  A+  V++ GL R  G+L +  R+ E M++  I  
Sbjct: 393 LIRIGRFDRATEIWEGMSERKFYPTVATYTVMIHGLVRKKGKLEEACRYFEMMIDEGIPP 452

Query: 240 YDVTMQKLK 248
           Y  T++ L+
Sbjct: 453 YSTTVEMLR 461

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C9A2|PP112_ARATH Pentatricopeptide repeat-containing protein At1g71060, mitochondrial OS=Arabidopsis thaliana GN=At1g71060 PE=2 SV=1

 Score = 89.4 bits (220), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 69/260 (26%), Positives = 124/260 (47%), Gaps = 15/260 (5%)

Query: 1   GWEKEGNVVEANKTFGEMV-ERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGEN 59
           GW +E N++  ++   EM  E FE  P+ V+AY   +    + K+ +EA++F   M+  N
Sbjct: 241 GWGQELNLLRVDEVNREMKDEGFE--PD-VVAYGIIINAHCKAKKYEEAIRFFNEMEQRN 297

Query: 60  CFPTLKFFS---NALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNND 116
           C P+   F    N L    KLND+   ++ ++     GF L      YNA+VG  C +  
Sbjct: 298 CKPSPHIFCSLINGLGSEKKLNDA---LEFFERSKSSGFPL--EAPTYNALVGAYCWSQR 352

Query: 117 VDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCAT 176
           +++ ++  D+M   G  P++ TY++I   LI+ ++  E    +  M     +PT      
Sbjct: 353 MEDAYKTVDEMRLKGVGPNARTYDIILHHLIRMQRSKEAYEVYQTM---SCEPTVSTYEI 409

Query: 177 AITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRR 236
            + M  + +  + AI+IW+ +   G+LP     + L+  L +  +L +   +  EML+  
Sbjct: 410 MVRMFCNKERLDMAIKIWDEMKGKGVLPGMHMFSSLITALCHENKLDEACEYFNEMLDVG 469

Query: 237 ILIYDVTMQKLKKAFYNESR 256
           I        +LK+   +E R
Sbjct: 470 IRPPGHMFSRLKQTLLDEGR 489

Arabidopsis thaliana (taxid: 3702)

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

 Score = 86.3 bits (212), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 64/251 (25%), Positives = 112/251 (44%), Gaps = 8/251 (3%)

Query: 4   KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT 63
           K+G+  +A   F EM    +     V+ Y + +  L    + D+  K LR M G N  P 
Sbjct: 257 KDGSFDDALSLFNEM--EMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPD 314

Query: 64  LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRF 123
           +  FS  +D+ VK        +L++ M+  G  + P+ I YN+++   C  N +    + 
Sbjct: 315 VVTFSALIDVFVKEGKLLEAKELYNEMITRG--IAPDTITYNSLIDGFCKENCLHEANQM 372

Query: 124 FDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLD 183
           FD MV  G  PD +TY+++     K K+V +    F E+      P  +   T +     
Sbjct: 373 FDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQ 432

Query: 184 ADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRR----ILI 239
           + +   A E++  ++  G+ P   +  +LL GL + G L+      E+M   R    I I
Sbjct: 433 SGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGI 492

Query: 240 YDVTMQKLKKA 250
           Y++ +  +  A
Sbjct: 493 YNIIIHGMCNA 503

Arabidopsis thaliana (taxid: 3702)

>sp|O04491|PPR26_ARATH Putative pentatricopeptide repeat-containing protein At1g09680 OS=Arabidopsis thaliana GN=At1g09680 PE=3 SV=1

 Score = 84.3 bits (207), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 65/248 (26%), Positives = 109/248 (43%), Gaps = 4/248 (1%)

Query: 4   KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT 63
           KEGN+ +A K F E+ +R    P  V+++ T +    +   +DE  +    M+     P 
Sbjct: 252 KEGNISDAQKVFDEITKR-SLQPT-VVSFNTLINGYCKVGNLDEGFRLKHQMEKSRTRPD 309

Query: 64  LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRF 123
           +  +S  ++ L K N       L+D M   G  L+PN +++  ++     N ++D +   
Sbjct: 310 VFTYSALINALCKENKMDGAHGLFDEMCKRG--LIPNDVIFTTLIHGHSRNGEIDLMKES 367

Query: 124 FDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLD 183
           + +M+  G  PD + YN +     KN  +    N    MI+   +P  +   T I     
Sbjct: 368 YQKMLSKGLQPDIVLYNTLVNGFCKNGDLVAARNIVDGMIRRGLRPDKITYTTLIDGFCR 427

Query: 184 ADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVT 243
             + E A+EI   + +NGI       + L+ G+   GR+ D  R   EML   I   DVT
Sbjct: 428 GGDVETALEIRKEMDQNGIELDRVGFSALVCGMCKEGRVIDAERALREMLRAGIKPDDVT 487

Query: 244 MQKLKKAF 251
              +  AF
Sbjct: 488 YTMMMDAF 495

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FNL2|PP418_ARATH Pentatricopeptide repeat-containing protein At5g46100 OS=Arabidopsis thaliana GN=At5g46100 PE=2 SV=1

 Score = 83.6 bits (205), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 57/208 (27%), Positives = 92/208 (44%), Gaps = 10/208 (4%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
           G  + G + EA K F EMVE+ +  P  V+ Y + +  L   K VDEA+++L  MK +  
Sbjct: 201 GLCRFGRIDEAKKLFTEMVEK-DCAPT-VVTYTSLINGLCGSKNVDEAMRYLEEMKSKGI 258

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
            P +  +S+ +D L K   S   ++L+++M+  G    PN++ Y  ++  LC    +   
Sbjct: 259 EPNVFTYSSLMDGLCKDGRSLQAMELFEMMMARGCR--PNMVTYTTLITGLCKEQKIQEA 316

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLN------C 174
               D+M   G  PD+  Y  +        K  E  NF  EMI     P  L        
Sbjct: 317 VELLDRMNLQGLKPDAGLYGKVISGFCAISKFREAANFLDEMILGGITPNRLTWNIHVKT 376

Query: 175 ATAITMLLDADEPEFAIEIWNYILENGI 202
           +  +   L A+ P  A  ++  +   GI
Sbjct: 377 SNEVVRGLCANYPSRAFTLYLSMRSRGI 404

Arabidopsis thaliana (taxid: 3702)

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

 Score = 82.8 bits (203), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 54/229 (23%), Positives = 100/229 (43%), Gaps = 7/229 (3%)

Query: 15  FGEMVERFEWNPEH-----VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSN 69
            G  ++  E  P+H      L+Y   L    + K++D A+++L  M    C+P +  ++ 
Sbjct: 360 LGRAIDILEKMPQHGCQPNSLSYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNT 419

Query: 70  ALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVF 129
            L  L K       V++ + +   G +  P LI YN V+  L          +  D+M  
Sbjct: 420 MLTALCKDGKVEDAVEILNQLSSKGCS--PVLITYNTVIDGLAKAGKTGKAIKLLDEMRA 477

Query: 130 HGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEF 189
               PD++TY+ +   L +  KV E   FFHE  +   +P  +   + +  L  + + + 
Sbjct: 478 KDLKPDTITYSSLVGGLSREGKVDEAIKFFHEFERMGIRPNAVTFNSIMLGLCKSRQTDR 537

Query: 190 AIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRIL 238
           AI+   +++  G  P E S  +L+ GL   G   +      E+ N+ ++
Sbjct: 538 AIDFLVFMINRGCKPNETSYTILIEGLAYEGMAKEALELLNELCNKGLM 586

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	274
224070746	472	predicted protein [Populus trichocarpa]	0.981	0.569	0.660	1e-104
255557793	481	pentatricopeptide repeat-containing prot	0.985	0.561	0.632	1e-99
357517439	543	Pentatricopeptide repeat-containing prot	0.981	0.495	0.626	9e-99
359474755	464	PREDICTED: pentatricopeptide repeat-cont	0.989	0.584	0.611	1e-98
147859123	493	hypothetical protein VITISV_005814 [Viti	0.978	0.543	0.611	4e-97
356560843	488	PREDICTED: pentatricopeptide repeat-cont	0.981	0.551	0.608	5e-97
449519571	503	PREDICTED: pentatricopeptide repeat-cont	0.992	0.540	0.569	2e-88
449466215	487	PREDICTED: pentatricopeptide repeat-cont	0.992	0.558	0.569	3e-88
226494576	467	uncharacterized protein LOC100276413 [Ze	0.974	0.571	0.425	4e-61
223950475	468	unknown [Zea mays] gi|414586333|tpg|DAA3	0.974	0.570	0.422	2e-60

>gi|224070746|ref|XP_002303222.1| predicted protein [Populus trichocarpa] gi|222840654|gb|EEE78201.1| predicted protein [Populus trichocarpa]

 Score =  383 bits (983), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 179/271 (66%), Positives = 216/271 (79%), Gaps = 2/271 (0%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
           GWEKEG+V +A  TFGEMV +  W+PE++ AY++FL TL+RG Q DEA+KFLRVMKG+NC
Sbjct: 203 GWEKEGDVAKAKTTFGEMVIKVGWSPENMSAYDSFLTTLVRGSQADEAVKFLRVMKGKNC 262

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
            P LKFFSNALD+LVK NDSTH + LWDIMVG G  L+PNLIMYNA++GL CNNNDVDN 
Sbjct: 263 LPGLKFFSNALDMLVKQNDSTHAIPLWDIMVGSG--LLPNLIMYNAMIGLHCNNNDVDNA 320

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
           FR  D+MVF+GAFPD LT+N+IF CLIKNKKVH V  FF+EMIKNE  PT  +C+ AI  
Sbjct: 321 FRLLDEMVFNGAFPDFLTFNIIFRCLIKNKKVHRVGKFFYEMIKNESPPTHFDCSAAIMT 380

Query: 181 LLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY 240
           L+D  +PE AIEIWNYI+EN +LPL+ SAN LL+G  NLGR+S VRRFAE+ML+RRI IY
Sbjct: 381 LIDGGDPEMAIEIWNYIVENHVLPLDGSANALLIGFCNLGRMSQVRRFAEDMLDRRINIY 440

Query: 241 DVTMQKLKKAFYNESRSMRDRFDSLERRWKT 271
           + TM+KLK +F    R  RD++D L RRWK 
Sbjct: 441 ESTMKKLKDSFDKTGRHGRDKYDCLIRRWKA 471

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255557793|ref|XP_002519926.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223540972|gb|EEF42530.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  368 bits (945), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 172/272 (63%), Positives = 208/272 (76%), Gaps = 2/272 (0%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
           GWEKEGN  +A   FGEMV    W+PE++ AY  FL  L+R  Q D+A  FLR+MK + C
Sbjct: 212 GWEKEGNAAKAKNIFGEMVIHVGWSPENMPAYNAFLNLLVRESQTDDAFDFLRLMKEKGC 271

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
            P LKF+S+ALD+L+K ND  H V +WDIMV  G  LMPNL+MYN+++GLLCNNND+DN 
Sbjct: 272 LPGLKFYSDALDMLLKRNDVLHAVPMWDIMVDTG--LMPNLLMYNSMIGLLCNNNDIDNA 329

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
           FR FD MVFHGAFPD LTY MIF CL+KNKKV +  +FFHEMIKNE  PT L+CA AITM
Sbjct: 330 FRLFDDMVFHGAFPDFLTYKMIFRCLVKNKKVSQAASFFHEMIKNENPPTHLDCAAAITM 389

Query: 181 LLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY 240
            +  D+PE AIEIWNY++++  LPL+ SAN LLVGL NLGRLS+V RFAE+ML+RRI I+
Sbjct: 390 FMGGDDPEMAIEIWNYMVDDQELPLDESANALLVGLGNLGRLSEVSRFAEDMLDRRINIH 449

Query: 241 DVTMQKLKKAFYNESRSMRDRFDSLERRWKTS 272
           + TM KLK +FY E RS RDRFDSL R+WK S
Sbjct: 450 ESTMAKLKASFYKEGRSSRDRFDSLSRKWKAS 481

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357517439|ref|XP_003629008.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355523030|gb|AET03484.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  365 bits (938), Expect = 9e-99,   Method: Compositional matrix adjust.
 Identities = 171/273 (62%), Positives = 214/273 (78%), Gaps = 4/273 (1%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
           GWEKEGN  +A  TFGEMV R  W+ ++V AY+ FL+TL+R  Q DE + FL+VMK  +C
Sbjct: 232 GWEKEGNATKAKTTFGEMVIRVGWSQDNVAAYDAFLMTLLRALQFDEVVGFLKVMKDHDC 291

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
           FP LKFF+NALD+LVK ND+ H + LWD+MV  G  L+PNLIMYNA++GLLCNN+++D+ 
Sbjct: 292 FPGLKFFTNALDVLVKRNDAAHAIPLWDVMVVSG--LLPNLIMYNAMIGLLCNNDEIDHA 349

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
           FR  D+MV HGAFPDSLTYNMIFECL+KNKKV E E FF EMIKNEW PT  NCA AI M
Sbjct: 350 FRLLDEMVLHGAFPDSLTYNMIFECLVKNKKVRETERFFAEMIKNEWLPTTSNCAVAIEM 409

Query: 181 LLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY 240
           L + D+P+ A+EIW+Y++E  +  L+ SAN++L+GL  L RLS+VRRFAEEML++RI IY
Sbjct: 410 LFNCDDPDAALEIWSYMVETRVRVLDVSANMVLIGLCKLKRLSEVRRFAEEMLDKRISIY 469

Query: 241 DVTMQKLKKAFYNESR--SMRDRFDSLERRWKT 271
           D TM KLK+AFY ESR  S RD+FD++ RRWK 
Sbjct: 470 DSTMNKLKEAFYKESRSSSARDKFDAIYRRWKA 502

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359474755|ref|XP_002269803.2| PREDICTED: pentatricopeptide repeat-containing protein At1g77360, mitochondrial-like [Vitis vinifera] gi|296085476|emb|CBI29208.3| unnamed protein product [Vitis vinifera]

 Score =  365 bits (937), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 167/273 (61%), Positives = 210/273 (76%), Gaps = 2/273 (0%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
           GWE+EGNV +A  TFGEMV R  W+P++++AY + L+TL+RG +V+EA+KFL VMKG+ C
Sbjct: 190 GWEREGNVTKAKSTFGEMVVRLGWSPQNMVAYNSVLMTLVRGMEVEEAIKFLLVMKGKGC 249

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
            P LKFFSNALD+L+K NDSTH + LWDIM+  GF  MPNL+MYN ++G+LCN  D DN 
Sbjct: 250 LPGLKFFSNALDVLLKQNDSTHAIALWDIMLDGGF--MPNLMMYNTIIGILCNAGDADNA 307

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
           FRF D+MVF+G F DS TYNMIF+CL+K+KKVHE   FF EMIKNE  P P NCA AI M
Sbjct: 308 FRFLDEMVFYGVFADSFTYNMIFQCLVKHKKVHEAGKFFIEMIKNECPPMPSNCAAAIAM 367

Query: 181 LLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY 240
             D D+PE AIEIW+Y++EN + P++ SAN LL+GL NL R SD RRFAE+ML+ +I I+
Sbjct: 368 CFDGDDPEMAIEIWSYMIENSLSPVDESANALLIGLCNLRRFSDYRRFAEDMLDMKIKIH 427

Query: 241 DVTMQKLKKAFYNESRSMRDRFDSLERRWKTSQ 273
           + TM+KLK A Y + RS RD  DSL +RWK SQ
Sbjct: 428 ESTMEKLKNARYKDGRSARDTCDSLWKRWKVSQ 460

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147859123|emb|CAN82548.1| hypothetical protein VITISV_005814 [Vitis vinifera]

 Score =  360 bits (924), Expect = 4e-97,   Method: Compositional matrix adjust.
 Identities = 165/270 (61%), Positives = 208/270 (77%), Gaps = 2/270 (0%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
           GWE+EGNV +A  TFGEMV R  W+P++++AY + L+TL+RG +V+EA+KFL VMKG+ C
Sbjct: 190 GWEREGNVTKAKSTFGEMVVRLGWSPQNMVAYNSVLMTLVRGMEVEEAIKFLLVMKGKGC 249

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
            P LKFFSNALD+L+K NDSTH + LWDIM+  GF  MPNL+MYN ++G+LCN  D DN 
Sbjct: 250 LPGLKFFSNALDVLLKQNDSTHAIALWDIMLDGGF--MPNLMMYNTIIGILCNAGDADNA 307

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
           FRF D+MVF+G F DS TYNMIF+CL+K+KKVHE   FF EMIKNE  P P NCA AI M
Sbjct: 308 FRFLDEMVFYGVFADSFTYNMIFQCLVKHKKVHEAGKFFIEMIKNECPPMPSNCAAAIAM 367

Query: 181 LLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY 240
             D D+PE AIEIW+Y++EN + P++ SAN LL+GL NL R SD RRFAE+ML+ +I I+
Sbjct: 368 CFDGDDPEMAIEIWSYMIENSLSPVDESANALLIGLCNLRRFSDYRRFAEDMLDMKIKIH 427

Query: 241 DVTMQKLKKAFYNESRSMRDRFDSLERRWK 270
           + TM+KLK A Y + RS RD  DSL +RWK
Sbjct: 428 ESTMEKLKNARYKDGRSARDTCDSLWKRWK 457

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356560843|ref|XP_003548696.1| PREDICTED: pentatricopeptide repeat-containing protein At1g77360, mitochondrial-like [Glycine max]

 Score =  360 bits (923), Expect = 5e-97,   Method: Compositional matrix adjust.
 Identities = 165/271 (60%), Positives = 204/271 (75%), Gaps = 2/271 (0%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
           GWEKEGN  +A  TFG+MV    WN ++V AY+ FL+TL+R   +D+ ++FL+VMK  +C
Sbjct: 216 GWEKEGNAAKAKTTFGDMVAHIGWNKDNVAAYDAFLMTLLRAGLMDDVVRFLQVMKDHDC 275

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
           FP LKFF+ ALD LVK ND+ H V +WD+MV     L+PNLIMYNA++GLLCNN  VD+ 
Sbjct: 276 FPGLKFFTTALDFLVKQNDADHAVPVWDVMVS--GELVPNLIMYNAMIGLLCNNAAVDHA 333

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
           FR  D+M FHGAFPDSLTYNMIFECL+KNKK  E E FF EM+KNEW PT  NCA AI M
Sbjct: 334 FRLLDEMAFHGAFPDSLTYNMIFECLVKNKKARETERFFAEMVKNEWPPTGSNCAAAIAM 393

Query: 181 LLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY 240
           L D D+PE A EIW+Y++EN + PL+ SAN LL+GL N+ R ++V+RFAE++L+RRI IY
Sbjct: 394 LFDCDDPEAAHEIWSYVVENRVKPLDESANALLIGLCNMSRFTEVKRFAEDILDRRINIY 453

Query: 241 DVTMQKLKKAFYNESRSMRDRFDSLERRWKT 271
             TM  LK AFY E RS RDR+DSL RRWK 
Sbjct: 454 QSTMSILKDAFYKEGRSARDRYDSLYRRWKA 484

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449519571|ref|XP_004166808.1| PREDICTED: pentatricopeptide repeat-containing protein At1g77360, mitochondrial-like [Cucumis sativus]

 Score =  331 bits (849), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 156/274 (56%), Positives = 204/274 (74%), Gaps = 2/274 (0%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
           GWEKEGNV +A  TF EMV+R  WNPE+V +Y+ FLITL+RG + ++A+K L  +K   C
Sbjct: 231 GWEKEGNVEKAKVTFDEMVKRVGWNPENVSSYDAFLITLVRGGRSEDAIKVLLKLKKNRC 290

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
            P LKF SNALD L++ ND+ H + LWDI+VG G  L+PNLI+YNA++GLL  N+ +D+ 
Sbjct: 291 LPGLKFLSNALDSLIQQNDANHAILLWDIVVGSG--LVPNLIVYNAIIGLLSENSKIDDS 348

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
           FR  D MVFHGAFP+SLTYN+IF  LIKNKKV EV  FF EM+KNE  PTP +CA AITM
Sbjct: 349 FRLLDSMVFHGAFPNSLTYNLIFSSLIKNKKVKEVSQFFREMVKNECPPTPSSCAAAITM 408

Query: 181 LLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY 240
           L D  +PE AI+IWNY+ EN I P++ SAN LL+GL NL RL++VRRFA++M+++RI I 
Sbjct: 409 LFDGYDPETAIDIWNYMDENHIEPMDTSANALLIGLCNLNRLTEVRRFADDMIDQRIDIL 468

Query: 241 DVTMQKLKKAFYNESRSMRDRFDSLERRWKTSQM 274
           + TM+ LK  FY +  + R+ +D L RRW+ S +
Sbjct: 469 ESTMKLLKNCFYQQRGNFRENYDGLLRRWRASSI 502

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449466215|ref|XP_004150822.1| PREDICTED: pentatricopeptide repeat-containing protein At1g77360, mitochondrial-like [Cucumis sativus]

 Score =  330 bits (847), Expect = 3e-88,   Method: Compositional matrix adjust.
 Identities = 156/274 (56%), Positives = 204/274 (74%), Gaps = 2/274 (0%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
           GWEKEGNV +A  TF EMV+R  WNPE+V +Y+ FLITL+RG + ++A+K L  +K   C
Sbjct: 215 GWEKEGNVEKAKVTFDEMVKRVGWNPENVSSYDAFLITLVRGGRSEDAIKVLLKLKKNRC 274

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
            P LKF SNALD L++ ND+ H + LWDI+VG G  L+PNLI+YNA++GLL  N+ +D+ 
Sbjct: 275 LPGLKFLSNALDSLIQQNDANHAILLWDIVVGSG--LVPNLIVYNAIIGLLSENSKIDDS 332

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
           FR  D MVFHGAFP+SLTYN+IF  LIKNKKV EV  FF EM+KNE  PTP +CA AITM
Sbjct: 333 FRLLDSMVFHGAFPNSLTYNLIFSSLIKNKKVKEVSQFFREMVKNECPPTPSSCAAAITM 392

Query: 181 LLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY 240
           L D  +PE AI+IWNY+ EN I P++ SAN LL+GL NL RL++VRRFA++M+++RI I 
Sbjct: 393 LFDGYDPETAIDIWNYMDENHIEPMDTSANALLIGLCNLNRLTEVRRFADDMIDQRIDIL 452

Query: 241 DVTMQKLKKAFYNESRSMRDRFDSLERRWKTSQM 274
           + TM+ LK  FY +  + R+ +D L RRW+ S +
Sbjct: 453 ESTMKLLKNCFYQQRGNFRENYDGLLRRWRASSI 486

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226494576|ref|NP_001143685.1| uncharacterized protein LOC100276413 [Zea mays] gi|195624570|gb|ACG34115.1| hypothetical protein [Zea mays]

 Score =  240 bits (613), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 115/270 (42%), Positives = 167/270 (61%), Gaps = 3/270 (1%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
            WEKEGN V A   FGEMV R  W+  +V AY++FL TL+RG  +DEA KFL+VM+ + C
Sbjct: 199 AWEKEGNAVRAKSVFGEMVVRIGWDAANVSAYDSFLSTLVRGGLLDEAFKFLQVMRSKGC 258

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
            P + FFS A+D++V+  D  + V +W +MV     L+PN  MY+A++GL CN   +D+ 
Sbjct: 259 LPGINFFSTAVDLVVRKGDYLNAVAIWHMMVSEA-GLVPNFSMYSAMIGLHCNAGSIDDA 317

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
               D+M  +G F +S+TYN I E  IK++K  E E+F  EM KNE  PT  NCA AI++
Sbjct: 318 LGLLDEMPLNGVFANSVTYNTILEGFIKHRKAREAESFLTEMSKNEQLPTASNCAAAISL 377

Query: 181 LLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY 240
                 P  AI++W  I+E+ I P E SA  L+ GL + GR ++V + A+EM++ R+ + 
Sbjct: 378 FFKEFNPSAAIDVWRCIVEHNITPAEDSAKELIAGLLDFGRFTEVTKRADEMIDMRVELS 437

Query: 241 DVTMQKLKKAFYNESRSMRDRFDSLERRWK 270
             TM+ +K+AF    R     +D++ RR K
Sbjct: 438 RSTMENMKRAFAKAGR--HQSYDNIARRLK 465

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|223950475|gb|ACN29321.1| unknown [Zea mays] gi|414586333|tpg|DAA36904.1| TPA: hypothetical protein ZEAMMB73_204717 [Zea mays]

 Score =  238 bits (607), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 114/270 (42%), Positives = 165/270 (61%), Gaps = 3/270 (1%)

Query: 1   GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
            WEKEGN V A   FGEMV R  W+  +V AY++FL TL+RG  +DEA KFL+VM+ + C
Sbjct: 200 AWEKEGNAVRAKSVFGEMVVRIGWDAANVSAYDSFLSTLVRGGLLDEAFKFLQVMRSKGC 259

Query: 61  FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV 120
            P + FFS A+D++V+  D  + V +W +MV     L+PN  MY+A++GL CN   +D+ 
Sbjct: 260 LPGINFFSTAVDLVVRKGDYLNAVAIWHMMVSEA-GLVPNFSMYSAMIGLHCNAGSIDDA 318

Query: 121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
               D+M  +G F +S+TYN I E  IK++K  E E+F  EM KNE  PT  NCA AI++
Sbjct: 319 LGLLDEMPLNGVFANSVTYNTILEGFIKHRKAREAESFLTEMSKNEQLPTASNCAAAISL 378

Query: 181 LLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY 240
                 P  AI++W  I+E+ I P E SA  L+ GL   GR ++V + A+EM++ R+ + 
Sbjct: 379 FFKEFNPSAAIDVWRCIVEHNITPAEDSAKELIAGLLEFGRFTEVTKRADEMIDMRVELS 438

Query: 241 DVTMQKLKKAFYNESRSMRDRFDSLERRWK 270
             TM+ +K+ F    R     +D++ RR K
Sbjct: 439 RSTMENMKRGFAKAGR--HQSYDNIARRLK 466

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	274
TAIR|locus:2096099	599	AT3G62470 "AT3G62470" [Arabido	0.970	0.444	0.209	5.5e-14
TAIR|locus:2026346	510	AT1G71060 [Arabidopsis thalian	0.948	0.509	0.249	6.8e-14
TAIR|locus:2185455	598	AT5G14820 "AT5G14820" [Arabido	0.970	0.444	0.209	1.9e-13
TAIR|locus:2096074	599	AT3G62540 "AT3G62540" [Arabido	0.970	0.444	0.209	1.9e-13
TAIR|locus:2116772	1112	PGR3 "AT4G31850" [Arabidopsis	0.708	0.174	0.301	9.9e-13
TAIR|locus:2161408	472	AT5G46100 "AT5G46100" [Arabido	0.594	0.345	0.293	4.2e-12
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.722	0.331	0.247	1.3e-10
TAIR|locus:2084978	602	AT3G04760 [Arabidopsis thalian	0.886	0.403	0.205	3.5e-10
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.718	0.318	0.238	1.3e-09
TAIR|locus:2031301	577	AT1G63400 [Arabidopsis thalian	0.718	0.341	0.233	2.7e-09

TAIR|locus:2096099 AT3G62470 "AT3G62470" [Arabidopsis thaliana (taxid:3702)]

 Score = 190 (71.9 bits), Expect = 5.5e-14, P = 5.5e-14
 Identities = 57/272 (20%), Positives = 116/272 (42%)

Query:     1 GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
             GW +  N++EA + + +M+++    P+ ++A+   L  L+R ++  +A+K   VMK +  
Sbjct:   307 GWCRVRNLIEAARIWNDMIDQ-GLKPD-IVAHNVMLEGLLRSRKKSDAIKLFHVMKSKGP 364

Query:    61 FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCXXXXXXXX 120
              P ++ ++  +    K +     ++ +D MV  G  L P+  +Y  ++            
Sbjct:   365 CPNVRSYTIMIRDFCKQSSMETAIEYFDDMVDSG--LQPDAAVYTCLITGFGTQKKLDTV 422

Query:   121 XXXXXQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
                  +M   G  PD  TYN + + +   K        +++MI+NE +P+       +  
Sbjct:   423 YELLKEMQEKGHPPDGKTYNALIKLMANQKMPEHATRIYNKMIQNEIEPSIHTFNMIMKS 482

Query:   181 LLDADEPEFAIEIWNYILENGILPLEASAXXXXXXXXXXXXXSDVRRFAEEMLNRRILIY 240
                A   E    +W  +++ GI P + S               +  R+ EEML++ +   
Sbjct:   483 YFMARNYEMGRAVWEEMIKKGICPDDNSYTVLIRGLIGEGKSREACRYLEEMLDKGMKTP 542

Query:   241 DVTMQKLKKAFYNESRSMRDRFDSLERRWKTS 272
              +   K    F+   +   + F+ L +R K S
Sbjct:   543 LIDYNKFAADFHRGGQP--EIFEELAQRAKFS 572

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2026346 AT1G71060 [Arabidopsis thaliana (taxid:3702)]

 Score = 188 (71.2 bits), Expect = 6.8e-14, P = 6.8e-14
 Identities = 69/277 (24%), Positives = 117/277 (42%)

Query:     1 GWEKEGNVVEANKTFGEMV-ERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGEN 59
             GW +E N++  ++   EM  E FE  P+ V+AY   +    + K+ +EA++F   M+  N
Sbjct:   241 GWGQELNLLRVDEVNREMKDEGFE--PD-VVAYGIIINAHCKAKKYEEAIRFFNEMEQRN 297

Query:    60 CFPTLKFFS---NALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCXXXX 116
             C P+   F    N L    KLND+   ++ ++     GF L      YNA+VG  C    
Sbjct:   298 CKPSPHIFCSLINGLGSEKKLNDA---LEFFERSKSSGFPL--EAPTYNALVGAYCWSQR 352

Query:   117 XXXXXXXXXQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCAT 176
                      +M   G  P++ TY++I   LI+ ++  E    +  M     +PT      
Sbjct:   353 MEDAYKTVDEMRLKGVGPNARTYDIILHHLIRMQRSKEAYEVYQTM---SCEPTVSTYEI 409

Query:   177 AITMLLDADEPEFAIEIWNYILENGILPLEASAXXXXXXXXXXXXXSDVRRFAEEMLNRR 236
              + M  + +  + AI+IW+ +   G+LP                   +   +  EML+  
Sbjct:   410 MVRMFCNKERLDMAIKIWDEMKGKGVLPGMHMFSSLITALCHENKLDEACEYFNEMLDVG 469

Query:   237 ILIYDVTMQKLKKAFYNESRS--MRDRFDSLERRWKT 271
             I        +LK+   +E R   + D    ++R  KT
Sbjct:   470 IRPPGHMFSRLKQTLLDEGRKDKVTDLVVKMDRLRKT 506

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2185455 AT5G14820 "AT5G14820" [Arabidopsis thaliana (taxid:3702)]

 Score = 185 (70.2 bits), Expect = 1.9e-13, P = 1.9e-13
 Identities = 57/272 (20%), Positives = 115/272 (42%)

Query:     1 GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
             GW +  N++EA + + +M++     P+ ++A+   L  L+R  +  +A+K   VMK +  
Sbjct:   306 GWCRVRNLIEAARIWNDMIDH-GLKPD-IVAHNVMLEGLLRSMKKSDAIKLFHVMKSKGP 363

Query:    61 FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCXXXXXXXX 120
              P ++ ++  +    K +     ++ +D MV  G  L P+  +Y  ++            
Sbjct:   364 CPNVRSYTIMIRDFCKQSSMETAIEYFDDMVDSG--LQPDAAVYTCLITGFGTQKKLDTV 421

Query:   121 XXXXXQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
                  +M   G  PD  TYN + + +   K        +++MI+NE +P+       +  
Sbjct:   422 YELLKEMQEKGHPPDGKTYNALIKLMANQKMPEHGTRIYNKMIQNEIEPSIHTFNMIMKS 481

Query:   181 LLDADEPEFAIEIWNYILENGILPLEASAXXXXXXXXXXXXXSDVRRFAEEMLNRRILIY 240
                A   E    +W+ +++ GI P + S               +  R+ EEML++ +   
Sbjct:   482 YFVARNYEMGRAVWDEMIKKGICPDDNSYTVLIRGLISEGKSREACRYLEEMLDKGMKTP 541

Query:   241 DVTMQKLKKAFYNESRSMRDRFDSLERRWKTS 272
              +   K    F+   +   + F+ L +R K S
Sbjct:   542 LIDYNKFAADFHRGGQP--EIFEELAQRAKFS 571

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2096074 AT3G62540 "AT3G62540" [Arabidopsis thaliana (taxid:3702)]

 Score = 185 (70.2 bits), Expect = 1.9e-13, P = 1.9e-13
 Identities = 57/272 (20%), Positives = 115/272 (42%)

Query:     1 GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC 60
             GW +  N++EA + + +M++     P+ ++A+   L  L+R  +  +A+K   VMK +  
Sbjct:   307 GWCRVRNLIEAARIWNDMIDH-GLKPD-IVAHNVMLEGLLRSMKKSDAIKLFHVMKSKGP 364

Query:    61 FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCXXXXXXXX 120
              P ++ ++  +    K +     ++ +D MV  G  L P+  +Y  ++            
Sbjct:   365 CPNVRSYTIMIRDFCKQSSMETAIEYFDDMVDSG--LQPDAAVYTCLITGFGTQKKLDTV 422

Query:   121 XXXXXQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM 180
                  +M   G  PD  TYN + + +   K        +++MI+NE +P+       +  
Sbjct:   423 YELLKEMQEKGHPPDGKTYNALIKLMANQKMPEHGTRIYNKMIQNEIEPSIHTFNMIMKS 482

Query:   181 LLDADEPEFAIEIWNYILENGILPLEASAXXXXXXXXXXXXXSDVRRFAEEMLNRRILIY 240
                A   E    +W+ +++ GI P + S               +  R+ EEML++ +   
Sbjct:   483 YFVARNYEMGRAVWDEMIKKGICPDDNSYTVLIRGLISEGKSREACRYLEEMLDKGMKTP 542

Query:   241 DVTMQKLKKAFYNESRSMRDRFDSLERRWKTS 272
              +   K    F+   +   + F+ L +R K S
Sbjct:   543 LIDYNKFAADFHRGGQP--EIFEELAQRAKFS 572

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 182 (69.1 bits), Expect = 9.9e-13, P = 9.9e-13
 Identities = 60/199 (30%), Positives = 89/199 (44%)

Query:     2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCF 61
             + K G + EA K   EM+E     P+ V+   + + TL +  +VDEA K    MK     
Sbjct:   513 YSKVGEIDEAIKLLSEMMEN-GCEPD-VIVVNSLINTLYKADRVDEAWKMFMRMKEMKLK 570

Query:    62 PTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCXXXXXXXXX 121
             PT+  ++  L  L K       ++L++ MV  G    PN I +N +   LC         
Sbjct:   571 PTVVTYNTLLAGLGKNGKIQEAIELFEGMVQKG--CPPNTITFNTLFDCLCKNDEVTLAL 628

Query:   122 XXXXQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITML 181
                 +M+  G  PD  TYN I   L+KN +V E   FFH+M K  + P  +   T +  +
Sbjct:   629 KMLFKMMDMGCVPDVFTYNTIIFGLVKNGQVKEAMCFFHQMKKLVY-PDFVTLCTLLPGV 687

Query:   182 LDADEPEFAIEIWNYILEN 200
             + A   E A +I    L N
Sbjct:   688 VKASLIEDAYKIITNFLYN 706

GO:0008150 "biological_process" evidence=ND

GO:0000023 "maltose metabolic process" evidence=RCA

GO:0000272 "polysaccharide catabolic process" evidence=RCA

GO:0005982 "starch metabolic process" evidence=RCA

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

GO:0006655 "phosphatidylglycerol biosynthetic process" evidence=RCA

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

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

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

GO:0019252 "starch biosynthetic process" evidence=RCA

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

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0046777 "protein autophosphorylation" evidence=RCA

TAIR|locus:2161408 AT5G46100 "AT5G46100" [Arabidopsis thaliana (taxid:3702)]

 Score = 178 (67.7 bits), Expect = 4.2e-12, P = 4.2e-12
 Identities = 49/167 (29%), Positives = 76/167 (45%)

Query:     6 GNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLK 65
             G + EA K F EMVE+ +  P  V+ Y + +  L   K VDEA+++L  MK +   P + 
Sbjct:   206 GRIDEAKKLFTEMVEK-DCAPT-VVTYTSLINGLCGSKNVDEAMRYLEEMKSKGIEPNVF 263

Query:    66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCXXXXXXXXXXXXX 125
              +S+ +D L K   S   ++L+++M+  G    PN++ Y  ++  LC             
Sbjct:   264 TYSSLMDGLCKDGRSLQAMELFEMMMARGCR--PNMVTYTTLITGLCKEQKIQEAVELLD 321

Query:   126 QMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPL 172
             +M   G  PD+  Y  +        K  E  NF  EMI     P  L
Sbjct:   322 RMNLQGLKPDAGLYGKVISGFCAISKFREAANFLDEMILGGITPNRL 368

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 = 170 (64.9 bits), Expect = 1.3e-10, P = 1.3e-10
 Identities = 50/202 (24%), Positives = 86/202 (42%)

Query:     4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT 63
             ++  V  A K   EM +R    P+ V+ Y   +  + +  ++DEA+KFL  M    C P 
Sbjct:   251 RDSGVGHAMKLLDEMRDR-GCTPD-VVTYNVLVNGICKEGRLDEAIKFLNDMPSSGCQPN 308

Query:    64 LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCXXXXXXXXXXX 123
             +   +  L  +          +L   M+  GF+  P+++ +N ++  LC           
Sbjct:   309 VITHNIILRSMCSTGRWMDAEKLLADMLRKGFS--PSVVTFNILINFLCRKGLLGRAIDI 366

Query:   124 XXQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLD 183
               +M  HG  P+SL+YN +     K KK+     +   M+     P  +   T +T L  
Sbjct:   367 LEKMPQHGCQPNSLSYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCK 426

Query:   184 ADEPEFAIEIWNYILENGILPL 205
               + E A+EI N +   G  P+
Sbjct:   427 DGKVEDAVEILNQLSSKGCSPV 448

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2084978 AT3G04760 [Arabidopsis thaliana (taxid:3702)]

 Score = 167 (63.8 bits), Expect = 3.5e-10, P = 3.5e-10
 Identities = 51/248 (20%), Positives = 101/248 (40%)

Query:     4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT 63
             ++G + EA      M E+    P+   +Y+  +    R  ++D A++FL  M  + C P 
Sbjct:   345 RDGKIEEAMNLLKLMKEK-GLTPD-AYSYDPLIAAFCREGRLDVAIEFLETMISDGCLPD 402

Query:    64 LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCXXXXXXXXXXX 123
             +  ++  L  L K   +   ++++  +  +G +  PN   YN +   L            
Sbjct:   403 IVNYNTVLATLCKNGKADQALEIFGKLGEVGCS--PNSSSYNTMFSALWSSGDKIRALHM 460

Query:   124 XXQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLD 183
               +M+ +G  PD +TYN +  CL +   V E      +M   E+ P+ +     +     
Sbjct:   461 ILEMMSNGIDPDEITYNSMISCLCREGMVDEAFELLVDMRSCEFHPSVVTYNIVLLGFCK 520

Query:   184 ADEPEFAIEIWNYILENGILPLEASAXXXXXXXXXXXXXSDVRRFAEEMLNRRILIYDVT 243
             A   E AI +   ++ NG  P E +              ++    A +++ R   I + +
Sbjct:   521 AHRIEDAINVLESMVGNGCRPNETTYTVLIEGIGFAGYRAEAMELANDLV-RIDAISEYS 579

Query:   244 MQKLKKAF 251
              ++L + F
Sbjct:   580 FKRLHRTF 587

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=IDA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

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

 Score = 163 (62.4 bits), Expect = 1.3e-09, P = 1.3e-09
 Identities = 48/201 (23%), Positives = 85/201 (42%)

Query:     4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT 63
             K+G+  +A   F EM    +     V+ Y + +  L    + D+  K LR M G N  P 
Sbjct:   257 KDGSFDDALSLFNEM--EMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPD 314

Query:    64 LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCXXXXXXXXXXX 123
             +  FS  +D+ VK        +L++ M+  G  + P+ I YN+++   C           
Sbjct:   315 VVTFSALIDVFVKEGKLLEAKELYNEMITRG--IAPDTITYNSLIDGFCKENCLHEANQM 372

Query:   124 XXQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLD 183
                MV  G  PD +TY+++     K K+V +    F E+      P  +   T +     
Sbjct:   373 FDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQ 432

Query:   184 ADEPEFAIEIWNYILENGILP 204
             + +   A E++  ++  G+ P
Sbjct:   433 SGKLNAAKELFQEMVSRGVPP 453

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2031301 AT1G63400 [Arabidopsis thaliana (taxid:3702)]

 Score = 160 (61.4 bits), Expect = 2.7e-09, P = 2.7e-09
 Identities = 47/201 (23%), Positives = 90/201 (44%)

Query:     4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT 63
             KEG +VEA K + EM++R   +P+ +  Y + +       ++DEA     +M  ++CFP 
Sbjct:   342 KEGKLVEAEKLYDEMIKR-SIDPD-IFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPN 399

Query:    64 LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCXXXXXXXXXXX 123
             +  ++  ++   K       V+L+  M   G  L+ N + Y  ++               
Sbjct:   400 VVTYNTLINGFCKAKRIDEGVELFREMSQRG--LVGNTVTYTTLIHGFFQARDCDNAQMV 457

Query:   124 XXQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLD 183
               QMV  G  P+ +TYN + + L KN K+ +    F  + +++ +PT       I  +  
Sbjct:   458 FKQMVSDGVHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCK 517

Query:   184 ADEPEFAIEIWNYILENGILP 204
             A + E   +++  +   G+ P
Sbjct:   518 AGKVEDGWDLFCSLSLKGVKP 538

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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	274
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.003
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.004

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

 Score = 52.0 bits (126), Expect = 2e-09
 Identities = 13/50 (26%), Positives = 27/50 (54%)

Query: 99  PNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK 148
           P+++ YN ++   C    V+   + F++M   G  P+  TY+++ + 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 41.6 bits (99), Expect = 1e-05
 Identities = 14/37 (37%), Positives = 19/37 (51%)

Query: 134 PDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT 170
           PD +TYN + +   K  KV E    F+EM K   +P 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPN 37

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 = 42.9 bits (101), Expect = 1e-04
 Identities = 24/154 (15%), Positives = 59/154 (38%), Gaps = 6/154 (3%)

Query: 33  ETFLITLI----RGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWD 88
           E F   L+        +D+A + L+  + +        +S+ +       +    ++L++
Sbjct: 649 EVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYE 708

Query: 89  IMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK 148
            +  I   L P +   NA++  LC  N +        +M   G  P+++TY+++     +
Sbjct: 709 DIKSIK--LRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASER 766

Query: 149 NKKVHEVENFFHEMIKNEWQPTPLNCATAITMLL 182
                   +   +  ++  +P  + C     + L
Sbjct: 767 KDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCL 800

Length = 1060

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

 Score = 37.7 bits (89), Expect = 1e-04
 Identities = 10/34 (29%), Positives = 16/34 (47%)

Query: 95  FNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMV 128
             L P+++ YN ++  LC    VD      D+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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 37.8 bits (89), Expect = 1e-04
 Identities = 11/33 (33%), Positives = 16/33 (48%)

Query: 138 TYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT 170
           TYN + + L K  +V E    F EM +   +P 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 38.7 bits (90), Expect = 0.003
 Identities = 42/193 (21%), Positives = 87/193 (45%), Gaps = 11/193 (5%)

Query: 26  PEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQ 85
           P+H+      +       QVD A +  +++   N   T + ++ A++   +  D    + 
Sbjct: 577 PDHI-TVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALS 635

Query: 86  LWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYN--MIF 143
           ++D M   G  + P+ + ++A+V +  +  D+D  F         G    +++Y+  M  
Sbjct: 636 IYDDMKKKG--VKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGA 693

Query: 144 ECLIKN-KKVHEVENFFHEMIKN-EWQPTPLNCATAITMLLDADEPEFAIEIWNYILENG 201
               KN KK  E+    +E IK+ + +PT       IT L + ++   A+E+ + +   G
Sbjct: 694 CSNAKNWKKALEL----YEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLG 749

Query: 202 ILPLEASANVLLV 214
           + P   + ++LLV
Sbjct: 750 LCPNTITYSILLV 762

Length = 1060

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

 Score = 34.0 bits (79), Expect = 0.004
 Identities = 10/35 (28%), Positives = 15/35 (42%)

Query: 102 IMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDS 136
           + YN ++  LC    V+     F +M   G  PD 
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	274
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	99.93
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.9
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.88
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.87
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.83
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.81
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.81
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.78
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.77
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.72
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.71
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.7
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.7
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.69
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.69
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.69
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.69
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.68
PRK12370	553	invasion protein regulator; Provisional	99.67
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.66
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.65
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.65
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.63
KOG1126	638	consensus DNA-binding cell division cycle control	99.63
KOG1126	638	consensus DNA-binding cell division cycle control	99.63
PRK14574	822	hmsH outer membrane protein; Provisional	99.62
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.62
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.62
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.61
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.61
PRK12370	553	invasion protein regulator; Provisional	99.6
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.58
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.58
PF13041	50	PPR_2: PPR repeat family	99.56
PF13041	50	PPR_2: PPR repeat family	99.55
PRK14574	822	hmsH outer membrane protein; Provisional	99.55
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.55
KOG1129	478	consensus TPR repeat-containing protein [General f	99.54
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.51
KOG2076	895	consensus RNA polymerase III transcription factor	99.5
PRK11189	296	lipoprotein NlpI; Provisional	99.49
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.48
KOG2003	840	consensus TPR repeat-containing protein [General f	99.47
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.47
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.44
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.43
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.43
KOG1129	478	consensus TPR repeat-containing protein [General f	99.41
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.4
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.39
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.36
PRK11189	296	lipoprotein NlpI; Provisional	99.35
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.34
KOG2076	895	consensus RNA polymerase III transcription factor	99.32
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.32
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.28
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.26
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.26
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.24
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.24
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.24
KOG2003	840	consensus TPR repeat-containing protein [General f	99.23
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.19
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.19
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.17
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.15
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.15
PLN02789	320	farnesyltranstransferase	99.14
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.14
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.13
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	99.09
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.09
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.08
KOG1125	579	consensus TPR repeat-containing protein [General f	99.07
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.07
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	99.02
PF12854	34	PPR_1: PPR repeat	99.02
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.01
PRK14720	906	transcript cleavage factor/unknown domain fusion p	99.01
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.0
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.98
PF12854	34	PPR_1: PPR repeat	98.98
PRK15359	144	type III secretion system chaperone protein SscB;	98.97
PLN02789	320	farnesyltranstransferase	98.97
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.93
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.91
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.9
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.88
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.84
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.83
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.82
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.82
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.81
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.79
PRK15359	144	type III secretion system chaperone protein SscB;	98.79
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.78
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.74
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.74
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.74
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.72
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.72
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.7
KOG1125	579	consensus TPR repeat-containing protein [General f	98.69
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.69
PRK04841	903	transcriptional regulator MalT; Provisional	98.65
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.62
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.61
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.61
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.59
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.58
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.57
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.57
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.57
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.56
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.56
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.56
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.55
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.54
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.53
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.53
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.52
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.51
PRK04841	903	transcriptional regulator MalT; Provisional	98.5
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.49
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.49
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.46
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.41
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.37
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.36
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.36
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.35
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.35
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.33
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.32
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.32
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.32
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.31
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.28
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.28
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.28
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.28
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.28
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.27
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.25
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.24
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.22
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.21
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.2
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.19
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.19
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.18
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.18
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.17
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.16
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.13
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.12
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.09
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.08
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.08
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.07
KOG0553	304	consensus TPR repeat-containing protein [General f	98.06
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.05
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.05
PF12688	120	TPR_5: Tetratrico peptide repeat	98.04
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.03
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.02
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.02
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.0
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.98
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.96
KOG0553	304	consensus TPR repeat-containing protein [General f	97.94
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.93
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.9
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.86
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.86
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.85
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.83
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.8
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.8
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.78
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.77
PF12688	120	TPR_5: Tetratrico peptide repeat	97.77
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.7
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.69
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.67
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.67
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.66
PRK11906	458	transcriptional regulator; Provisional	97.61
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.61
PRK10803	263	tol-pal system protein YbgF; Provisional	97.6
PRK15331	165	chaperone protein SicA; Provisional	97.6
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.56
PF13371	73	TPR_9: Tetratricopeptide repeat	97.54
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.51
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.48
PRK10803	263	tol-pal system protein YbgF; Provisional	97.46
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.45
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.44
PF13371	73	TPR_9: Tetratricopeptide repeat	97.39
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.32
PRK15331	165	chaperone protein SicA; Provisional	97.31
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.3
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.29
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	97.24
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.2
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	97.18
KOG4555	175	consensus TPR repeat-containing protein [Function	97.18
KOG3941	406	consensus Intermediate in Toll signal transduction	97.12
COG3118	304	Thioredoxin domain-containing protein [Posttransla	97.12
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.11
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.11
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.1
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.06
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.0
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.96
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.93
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.91
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.89
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.88
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.69
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.62
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.5
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.46
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.44
PF13431	34	TPR_17: Tetratricopeptide repeat	96.4
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.38
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.38
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.38
KOG3941	406	consensus Intermediate in Toll signal transduction	96.35
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.35
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.34
PF13512	142	TPR_18: Tetratricopeptide repeat	96.34
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.33
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	96.31
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.29
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.26
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.21
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.19
PF13428	44	TPR_14: Tetratricopeptide repeat	96.16
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.11
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.11
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.09
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.08
PF13428	44	TPR_14: Tetratricopeptide repeat	96.05
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.01
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.98
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.92
PRK11906	458	transcriptional regulator; Provisional	95.82
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.82
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	95.81
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.81
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.79
KOG4555	175	consensus TPR repeat-containing protein [Function	95.79
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.71
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.25
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.15
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.08
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.08
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.04
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.97
COG1747	711	Uncharacterized N-terminal domain of the transcrip	94.97
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.97
KOG1550	552	consensus Extracellular protein SEL-1 and related	94.86
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.85
PF13431	34	TPR_17: Tetratricopeptide repeat	94.83
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.79
KOG1585	308	consensus Protein required for fusion of vesicles	94.77
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.75
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	94.72
PF13512	142	TPR_18: Tetratricopeptide repeat	94.71
PF13929	292	mRNA_stabil: mRNA stabilisation	94.64
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.53
KOG1585	308	consensus Protein required for fusion of vesicles	94.27
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.98
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	93.93
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	93.86
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	93.83
KOG1550	552	consensus Extracellular protein SEL-1 and related	93.79
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	93.73
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.63
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.59
COG4455	273	ImpE Protein of avirulence locus involved in tempe	93.43
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.41
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	93.38
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	93.36
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	93.34
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	93.32
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.3
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.21
KOG4648	536	consensus Uncharacterized conserved protein, conta	93.18
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	92.94
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	92.9
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	92.64
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.54
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.49
PF13929	292	mRNA_stabil: mRNA stabilisation	92.32
KOG4234	271	consensus TPR repeat-containing protein [General f	92.22
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	92.17
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.12
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	92.12
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.09
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	91.95
PRK09687	280	putative lyase; Provisional	91.81
KOG0687	393	consensus 26S proteasome regulatory complex, subun	91.79
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	91.74
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	91.63
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.58
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	90.95
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	90.88
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	90.77
PHA02875	413	ankyrin repeat protein; Provisional	90.65
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	90.51
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	90.3
COG0457	291	NrfG FOG: TPR repeat [General function prediction	90.17
KOG4648	536	consensus Uncharacterized conserved protein, conta	89.97
COG4455	273	ImpE Protein of avirulence locus involved in tempe	89.71
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	89.5
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	89.28
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	89.06
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	88.68
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	88.67
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	88.6
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	88.54
KOG1941	518	consensus Acetylcholine receptor-associated protei	88.51
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	88.39
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.11
COG5187	412	RPN7 26S proteasome regulatory complex component,	88.09
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	88.04
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	87.97
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	87.81
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	87.53
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	87.32
PHA02875	413	ankyrin repeat protein; Provisional	87.23
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	87.01
PRK10564	303	maltose regulon periplasmic protein; Provisional	86.98
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	86.64
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	86.59
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	86.37
COG3947	361	Response regulator containing CheY-like receiver a	85.56
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	85.45
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	84.23
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	84.2
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	83.43
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	83.35
PF13762	145	MNE1: Mitochondrial splicing apparatus component	83.19
COG5159	421	RPN6 26S proteasome regulatory complex component [	83.06
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	83.03
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	82.86
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	82.75
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	82.52
COG1747	711	Uncharacterized N-terminal domain of the transcrip	82.32
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	81.21
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	80.54
KOG4234	271	consensus TPR repeat-containing protein [General f	80.09

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.2e-49  Score=348.39  Aligned_cols=264  Identities=16%  Similarity=0.150  Sum_probs=140.6

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |++.|++++|.++|++|.+. |+.| |..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|+++
T Consensus       482 y~k~G~vd~A~~vf~eM~~~-Gv~P-dvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~d  559 (1060)
T PLN03218        482 CAKSGKVDAMFEVFHEMVNA-GVEA-NVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVD  559 (1060)
T ss_pred             HHhCcCHHHHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHH
Confidence            45555555555555555553 5555 555555555555555555555555555555555555555555555555555555


Q ss_pred             hHHHHHHHHHh--cCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHH
Q 048737           82 HTVQLWDIMVG--IGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFF  159 (274)
Q Consensus        82 ~a~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  159 (274)
                      +|.++|++|..  .|  +.||..+|++++.+|++.|++++|.++|+.|.+.|+.|+..+|+.+|.+|++.|++++|.++|
T Consensus       560 eA~~lf~eM~~~~~g--i~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf  637 (1060)
T PLN03218        560 RAFDVLAEMKAETHP--IDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIY  637 (1060)
T ss_pred             HHHHHHHHHHHhcCC--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHH
Confidence            55555555543  23  445555555555555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHhCC-----------------------------------CCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCc
Q 048737          160 HEMIKNE-----------------------------------WQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILP  204 (274)
Q Consensus       160 ~~~~~~~-----------------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  204 (274)
                      ++|.+.|                                   +.||..+|++||.+|++.|++++|.++|++|.+.|+.|
T Consensus       638 ~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~P  717 (1060)
T PLN03218        638 DDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRP  717 (1060)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            5554444                                   44455555555555555555555555555555555555


Q ss_pred             cHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          205 LEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       205 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      |..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||++++.+|++.|+.  |.++|++|.+.+
T Consensus       718 dvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~G  784 (1060)
T PLN03218        718 TVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDG  784 (1060)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            55555555555555555555555555555555555555555555555555544  555555554443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.3e-49  Score=348.21  Aligned_cols=265  Identities=15%  Similarity=0.226  Sum_probs=255.0

Q ss_pred             CcccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCh
Q 048737            1 GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDS   80 (274)
Q Consensus         1 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   80 (274)
                      +|++.|+++.|.++|++|.+. |+.| |..+|+.||.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++
T Consensus       446 a~~k~g~~e~A~~lf~~M~~~-Gl~p-D~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~  523 (1060)
T PLN03218        446 VCASSQDIDGALRVLRLVQEA-GLKA-DCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQV  523 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCH
Confidence            578999999999999999995 9999 89999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHh--cCCCCChhhHHHHHHHHHhcCCHhHHHHH
Q 048737           81 THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVF--HGAFPDSLTYNMIFECLIKNKKVHEVENF  158 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~li~~~~~~~~~~~a~~~  158 (274)
                      ++|.++|++|.+.|  +.||..+|+.++.+|++.|++++|.++|++|..  .|+.||..+|+.+|.+|++.|++++|.++
T Consensus       524 eeAl~lf~~M~~~G--v~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~el  601 (1060)
T PLN03218        524 AKAFGAYGIMRSKN--VKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEV  601 (1060)
T ss_pred             HHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence            99999999999999  999999999999999999999999999999976  67899999999999999999999999999


Q ss_pred             HHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCc
Q 048737          159 FHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRIL  238 (274)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  238 (274)
                      |+.|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.+.|+.
T Consensus       602 f~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~  681 (1060)
T PLN03218        602 YQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIK  681 (1060)
T ss_pred             HHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCHHHHHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          239 IYDVTMQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       239 ~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      ||..+|++||.+|++.|+.  |.++|++|.+.+
T Consensus       682 pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g  714 (1060)
T PLN03218        682 LGTVSYSSLMGACSNAKNWKKALELYEDIKSIK  714 (1060)
T ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC
Confidence            9999999999999999988  999999887643

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

Probab=100.00  E-value=4.8e-45  Score=315.51  Aligned_cols=251  Identities=17%  Similarity=0.174  Sum_probs=234.4

Q ss_pred             CcccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCh
Q 048737            1 GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDS   80 (274)
Q Consensus         1 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   80 (274)
                      +|++.|++++|.++|++|..+      |+.+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++
T Consensus       268 ~y~k~g~~~~A~~vf~~m~~~------~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~  341 (697)
T PLN03081        268 MYSKCGDIEDARCVFDGMPEK------TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALL  341 (697)
T ss_pred             HHHHCCCHHHHHHHHHhCCCC------ChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccch
Confidence            478999999999999999654      88999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHH
Q 048737           81 THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFH  160 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (274)
                      +.|.+++..|.+.|  ++||..+|+.|+++|++.|++++|.++|++|.+    ||..+||.||.+|++.|+.++|.++|+
T Consensus       342 ~~a~~i~~~m~~~g--~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~  415 (697)
T PLN03081        342 EHAKQAHAGLIRTG--FPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFE  415 (697)
T ss_pred             HHHHHHHHHHHHhC--CCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999999  899999999999999999999999999999964    799999999999999999999999999


Q ss_pred             HHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHH-CCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCcc
Q 048737          161 EMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILE-NGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILI  239 (274)
Q Consensus       161 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  239 (274)
                      +|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .|+.|+..+|+.++.+|++.|++++|.+++++|   ++.|
T Consensus       416 ~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p  492 (697)
T PLN03081        416 RMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKP  492 (697)
T ss_pred             HHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCC
Confidence            999999999999999999999999999999999999986 699999999999999999999999999998765   5678


Q ss_pred             CHHHHHHHHHHHHhcChh--HHHHHHHHH
Q 048737          240 YDVTMQKLKKAFYNESRS--MRDRFDSLE  266 (274)
Q Consensus       240 ~~~~~~~l~~~~~~~g~~--a~~~~~~~~  266 (274)
                      +..+|++|+.+|...|+.  |+.+++++.
T Consensus       493 ~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~  521 (697)
T PLN03081        493 TVNMWAALLTACRIHKNLELGRLAAEKLY  521 (697)
T ss_pred             CHHHHHHHHHHHHHcCCcHHHHHHHHHHh
Confidence            999999999998888877  666666554

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

Probab=100.00  E-value=2e-44  Score=311.62  Aligned_cols=251  Identities=16%  Similarity=0.204  Sum_probs=208.0

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHH----------------
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLK----------------   65 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----------------   65 (274)
                      |++.|++++|.++|++|.+     | |..+|+.++.+|++.|++++|+++|++|.+.|+.|+..                
T Consensus       168 y~k~g~~~~A~~lf~~m~~-----~-~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~  241 (697)
T PLN03081        168 HVKCGMLIDARRLFDEMPE-----R-NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSAR  241 (697)
T ss_pred             HhcCCCHHHHHHHHhcCCC-----C-CeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHH
Confidence            6677777777777777754     3 66777777777777777777777777776666555544                


Q ss_pred             -------------------HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHH
Q 048737           66 -------------------FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQ  126 (274)
Q Consensus        66 -------------------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  126 (274)
                                         +|+.|+.+|++.|++++|.++|+.|.      ++|..+||+++.+|++.|++++|.++|++
T Consensus       242 ~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~------~~~~vt~n~li~~y~~~g~~~eA~~lf~~  315 (697)
T PLN03081        242 AGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP------EKTTVAWNSMLAGYALHGYSEEALCLYYE  315 (697)
T ss_pred             HHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC------CCChhHHHHHHHHHHhCCCHHHHHHHHHH
Confidence                               45666777777888888888887773      46788888888888888888888888888


Q ss_pred             HHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccH
Q 048737          127 MVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLE  206 (274)
Q Consensus       127 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  206 (274)
                      |.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.||..+|++|+++|++.|++++|.++|++|.+    ||.
T Consensus       316 M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~  391 (697)
T PLN03081        316 MRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNL  391 (697)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCe
Confidence            8888888888888888888888888888888888888888888888888888888888888888888888753    778


Q ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          207 ASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       207 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                      .+||.+|.+|++.|+.++|.++|++|.+.|+.||..||++++.+|++.|..  |.++|+.|.+.
T Consensus       392 ~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~  455 (697)
T PLN03081        392 ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSEN  455 (697)
T ss_pred             eeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHh
Confidence            899999999999999999999999999999999999999999999999988  99999988764

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=8.2e-43  Score=308.02  Aligned_cols=257  Identities=13%  Similarity=0.184  Sum_probs=215.2

Q ss_pred             CcccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCh
Q 048737            1 GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDS   80 (274)
Q Consensus         1 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   80 (274)
                      +|++.|++++|.++|++|..+      |..+||++|.+|++.|++++|+++|.+|.+.|+.||..||+.++.+|++.|++
T Consensus       231 ~y~k~g~~~~A~~lf~~m~~~------d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~  304 (857)
T PLN03077        231 MYVKCGDVVSARLVFDRMPRR------DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE  304 (857)
T ss_pred             HHhcCCCHHHHHHHHhcCCCC------CcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCCh
Confidence            478889999999999988654      77889999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHH
Q 048737           81 THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFH  160 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (274)
                      +.+.+++..+.+.|  +.||..+||.|+.+|++.|++++|.++|++|.    .||..+|+.+|.+|++.|++++|.++|+
T Consensus       305 ~~a~~l~~~~~~~g--~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~  378 (857)
T PLN03077        305 RLGREMHGYVVKTG--FAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYA  378 (857)
T ss_pred             HHHHHHHHHHHHhC--CccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHH
Confidence            99999999999988  88999999999999999999999999998885    3788889999999999999999999999


Q ss_pred             HHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC-----
Q 048737          161 EMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR-----  235 (274)
Q Consensus       161 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~-----  235 (274)
                      +|.+.|+.||..||+.++.+|++.|+++.|.+++..+.+.|+.|+..+|+.|+.+|++.|++++|.++|++|.+.     
T Consensus       379 ~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~  458 (857)
T PLN03077        379 LMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISW  458 (857)
T ss_pred             HHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeH
Confidence            988888888888888888888888888888888888888888888888888888877777777777777766542     


Q ss_pred             -------------------------CCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          236 -------------------------RILIYDVTMQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       236 -------------------------~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                                               ++.||..||++++.+|++.|..  +++++..+++.+
T Consensus       459 ~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g  519 (857)
T PLN03077        459 TSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTG  519 (857)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhC
Confidence                                     3566666676666666666666  666666666554

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.6e-42  Score=306.20  Aligned_cols=257  Identities=14%  Similarity=0.079  Sum_probs=158.2

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |++.|++++|+++|++|... |+.| |..+|+.++.+|+..++++.+.+++..|.+.|+.||..+++.|+.+|++.|+++
T Consensus       162 ~~~~g~~~~A~~~f~~M~~~-g~~P-d~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~  239 (857)
T PLN03077        162 YAKAGYFDEALCLYHRMLWA-GVRP-DVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVV  239 (857)
T ss_pred             HHhCCCHHHHHHHHHHHHHc-CCCC-ChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHH
Confidence            34444444444444444442 4444 344444444443333333333333333333334444444455555555555555


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHE  161 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (274)
                      .|.++|++|.      .||..+||+++.+|++.|++++|.++|++|...|+.||..||+.++.+|++.|+++.|.+++..
T Consensus       240 ~A~~lf~~m~------~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~  313 (857)
T PLN03077        240 SARLVFDRMP------RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGY  313 (857)
T ss_pred             HHHHHHhcCC------CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHH
Confidence            5555555553      3455666666666666666666666666666666666666666666666666666666666666


Q ss_pred             HHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCH
Q 048737          162 MIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYD  241 (274)
Q Consensus       162 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~  241 (274)
                      |.+.|+.||..+|++|+.+|++.|++++|.++|++|.    .||..+|+.++.+|++.|++++|+++|++|.+.|+.||.
T Consensus       314 ~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~  389 (857)
T PLN03077        314 VVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDE  389 (857)
T ss_pred             HHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCc
Confidence            6666666666666666677777777777777666664    256667777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          242 VTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       242 ~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      .||++++.+|++.|+.  |.++++.+.+.+.
T Consensus       390 ~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~  420 (857)
T PLN03077        390 ITIASVLSACACLGDLDVGVKLHELAERKGL  420 (857)
T ss_pred             eeHHHHHHHHhccchHHHHHHHHHHHHHhCC
Confidence            7777777777777776  7777777766643

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.93  E-value=2.4e-22  Score=163.88  Aligned_cols=256  Identities=13%  Similarity=0.067  Sum_probs=155.9

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC---HHHHHHHHHHHHhCCCh
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT---LKFFSNALDILVKLNDS   80 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~   80 (274)
                      ..|++++|...|.++.+.   .|++..++..+...+...|++++|..+++.+...+..++   ...+..+...+...|++
T Consensus        47 ~~~~~~~A~~~~~~al~~---~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~  123 (389)
T PRK11788         47 LNEQPDKAIDLFIEMLKV---DPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLL  123 (389)
T ss_pred             hcCChHHHHHHHHHHHhc---CcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCH
Confidence            457777777777777654   666666777777777777777777777777766432221   24556667777777777


Q ss_pred             hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCCh----hhHHHHHHHHHhcCCHhHHH
Q 048737           81 THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDS----LTYNMIFECLIKNKKVHEVE  156 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~  156 (274)
                      +.|..+|+++.+..   +++..+++.++.++.+.|++++|.+.++.+.+.+..++.    ..+..+...+...|++++|.
T Consensus       124 ~~A~~~~~~~l~~~---~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  200 (389)
T PRK11788        124 DRAEELFLQLVDEG---DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAAR  200 (389)
T ss_pred             HHHHHHHHHHHcCC---cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHH
Confidence            77777777777653   445666777777777777777777777776654432211    13344555566666666666


Q ss_pred             HHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC
Q 048737          157 NFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  236 (274)
                      ..++++.+.. +.+...+..+...+.+.|++++|.+.++++.+.+......+++.+..+|...|++++|...++++.+. 
T Consensus       201 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~-  278 (389)
T PRK11788        201 ALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE-  278 (389)
T ss_pred             HHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-
Confidence            6666665532 22234555555666666666666666666665432222344555666666666666666666665554 


Q ss_pred             CccCHHHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          237 ILIYDVTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       237 ~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                       .|+...+..+...+.+.|+.  |..+++++++.
T Consensus       279 -~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~  311 (389)
T PRK11788        279 -YPGADLLLALAQLLEEQEGPEAAQALLREQLRR  311 (389)
T ss_pred             -CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence             24444445555566666655  55555555443

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.90  E-value=1e-20  Score=154.28  Aligned_cols=260  Identities=11%  Similarity=0.044  Sum_probs=213.4

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCc--hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCC
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPE--HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLND   79 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   79 (274)
                      |.+.|++++|..+++.+... +..++  ....+..++..|.+.|++++|..+|+++.+.. +++..++..++..+.+.|+
T Consensus        79 ~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~  156 (389)
T PRK11788         79 FRRRGEVDRAIRIHQNLLSR-PDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKD  156 (389)
T ss_pred             HHHcCcHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhch
Confidence            46789999999999998774 22221  13568889999999999999999999998753 4567889999999999999


Q ss_pred             hhhHHHHHHHHHhcCCccCcc----HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHH
Q 048737           80 STHTVQLWDIMVGIGFNLMPN----LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEV  155 (274)
Q Consensus        80 ~~~a~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  155 (274)
                      +++|.+.++.+.+.+  ..++    ...+..+...+.+.|++++|...|+++.+.. +.+...+..+...+.+.|++++|
T Consensus       157 ~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A  233 (389)
T PRK11788        157 WQKAIDVAERLEKLG--GDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAA  233 (389)
T ss_pred             HHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHH
Confidence            999999999999865  2221    2245677888999999999999999998753 23466888899999999999999


Q ss_pred             HHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          156 ENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      .++++++.+.+......++..++.+|...|++++|...++++.+..  |+...+..+...+.+.|++++|..+++++.+.
T Consensus       234 ~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~  311 (389)
T PRK11788        234 IEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY--PGADLLLALAQLLEEQEGPEAAQALLREQLRR  311 (389)
T ss_pred             HHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            9999999875422224568889999999999999999999998864  66667788999999999999999999999876


Q ss_pred             CCccCHHHHHHHHHHHHh---cChh--HHHHHHHHHHHhh
Q 048737          236 RILIYDVTMQKLKKAFYN---ESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       236 ~~~~~~~~~~~l~~~~~~---~g~~--a~~~~~~~~~~~~  270 (274)
                        .|+..++..++..+..   .|+.  +..++++++++.-
T Consensus       312 --~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~  349 (389)
T PRK11788        312 --HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQL  349 (389)
T ss_pred             --CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHH
Confidence              6899999988887774   3344  7788888887654

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

Probab=99.88  E-value=1.1e-19  Score=162.81  Aligned_cols=252  Identities=12%  Similarity=0.088  Sum_probs=137.5

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   82 (274)
                      .+.|++++|...|+++.+.   .|.++..+..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|+++.
T Consensus       612 ~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  687 (899)
T TIGR02917       612 LAAGDLNKAVSSFKKLLAL---QPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTES  687 (899)
T ss_pred             HHcCCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            3445555666665555443   44445555555555555555555555555555432 2234444444455555555555


Q ss_pred             HHHHHHHHHhcCCccCccHHhHHH---------------------------------HHHHHHhcCChhhHHHHHHHHHh
Q 048737           83 TVQLWDIMVGIGFNLMPNLIMYNA---------------------------------VVGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~~~~~~~~~---------------------------------l~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                      |.++++.+.+..   +++...+..                                 +..++.+.|++++|.+.++++.+
T Consensus       688 A~~~~~~~~~~~---~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  764 (899)
T TIGR02917       688 AKKIAKSLQKQH---PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLK  764 (899)
T ss_pred             HHHHHHHHHhhC---cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            555555444443   333444444                                 44445555555555555554444


Q ss_pred             cCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHH
Q 048737          130 HGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASA  209 (274)
Q Consensus       130 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  209 (274)
                      .. +.+...+..+...|...|++++|...|+++.+.. +++...+..+...+...|+ .+|...+++..+... -+..++
T Consensus       765 ~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~-~~~~~~  840 (899)
T TIGR02917       765 TH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAP-NIPAIL  840 (899)
T ss_pred             hC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCC-CCcHHH
Confidence            32 2234455555555555555555555555555433 2344455555555555555 445555555554321 233445


Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHH
Q 048737          210 NVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLE  266 (274)
Q Consensus       210 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~  266 (274)
                      ..+...+...|++++|..+++++.+.+.. +..++..+..++.+.|+.  |.+++++++
T Consensus       841 ~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       841 DTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            55666677777777777777777776543 677777777777777777  777776664

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=99.87  E-value=5.8e-19  Score=158.15  Aligned_cols=251  Identities=9%  Similarity=0.060  Sum_probs=137.8

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhH
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHT   83 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   83 (274)
                      +.|++++|.++++.+...   .|.+...|..+...+...|++++|+..|+++.+.. +.+...+..+..++...|++++|
T Consensus       579 ~~~~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  654 (899)
T TIGR02917       579 GKGQLKKALAILNEAADA---APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKA  654 (899)
T ss_pred             HCCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHH
Confidence            445555555555555443   34445555555555555555555555555555432 23344555555555555666666


Q ss_pred             HHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737           84 VQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      ..+|+++.+..   +.+..++..+...+...|++++|..+++.+...+ +++...+..+...+...|++++|...|+.+.
T Consensus       655 ~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~  730 (899)
T TIGR02917       655 ITSLKRALELK---PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKAL  730 (899)
T ss_pred             HHHHHHHHhcC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            66665555543   3445555555666666666666666666555543 2344555556666666666666666666665


Q ss_pred             hCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHH
Q 048737          164 KNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVT  243 (274)
Q Consensus       164 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  243 (274)
                      ..+  |+..++..+..++.+.|++++|...++++.+.. +.+...+..+...|...|++++|..+|+++.+.. +++...
T Consensus       731 ~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~  806 (899)
T TIGR02917       731 KRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVV  806 (899)
T ss_pred             hhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHH
Confidence            532  444555555666666666666666666655543 2445555666666666666666666666665543 234445


Q ss_pred             HHHHHHHHHhcChh-HHHHHHHHH
Q 048737          244 MQKLKKAFYNESRS-MRDRFDSLE  266 (274)
Q Consensus       244 ~~~l~~~~~~~g~~-a~~~~~~~~  266 (274)
                      +..+...+...|+. |...+++++
T Consensus       807 ~~~l~~~~~~~~~~~A~~~~~~~~  830 (899)
T TIGR02917       807 LNNLAWLYLELKDPRALEYAEKAL  830 (899)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHH
Confidence            55555555554443 444444433

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=99.83  E-value=4.4e-17  Score=140.06  Aligned_cols=253  Identities=10%  Similarity=0.022  Sum_probs=132.0

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhH
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHT   83 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   83 (274)
                      ..|++++|++.|+++...   .|++..++..+...+...|++++|+..++++.+.. +.+...+..+...+...|++++|
T Consensus        88 ~~g~~~~A~~~l~~~l~~---~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA  163 (656)
T PRK15174         88 ASSQPDAVLQVVNKLLAV---NVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQA  163 (656)
T ss_pred             hcCCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHH
Confidence            456677777777766554   66666666666666667777777777776666531 23345555666666666666666


Q ss_pred             HHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC-----------------------------
Q 048737           84 VQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP-----------------------------  134 (274)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------------------------  134 (274)
                      ...++.+....   +.+...+..+ ..+.+.|++++|...++.+.+....+                             
T Consensus       164 ~~~~~~~~~~~---P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al  239 (656)
T PRK15174        164 ISLARTQAQEV---PPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESAL  239 (656)
T ss_pred             HHHHHHHHHhC---CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            66666555433   1222222222 12444455555555544444332112                             


Q ss_pred             -----ChhhHHHHHHHHHhcCCHhH----HHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCcc
Q 048737          135 -----DSLTYNMIFECLIKNKKVHE----VENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPL  205 (274)
Q Consensus       135 -----~~~~~~~li~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  205 (274)
                           +...+..+...+...|++++    |...+++..+.. +.+...+..+...+...|++++|...+++..+... .+
T Consensus       240 ~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P-~~  317 (656)
T PRK15174        240 ARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHP-DL  317 (656)
T ss_pred             hcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CC
Confidence                 23344444445555555543    455555554422 12233455555555556666666666665555432 23


Q ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCH-HHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          206 EASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYD-VTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       206 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                      ...+..+..++.+.|++++|...++.+.+.  .|+. ..+..+..++...|+.  |.+.++.+++.
T Consensus       318 ~~a~~~La~~l~~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        318 PYVRAMYARALRQVGQYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            344455555666666666666666665554  2222 2222234455555655  66666555543

>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=99.81  E-value=3.2e-16  Score=134.73  Aligned_cols=258  Identities=12%  Similarity=0.032  Sum_probs=209.6

Q ss_pred             cchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHH
Q 048737            6 GNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQ   85 (274)
Q Consensus         6 g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   85 (274)
                      +++++|.+.|+...+.....|.....|+.+...+...|++++|+..|++..+.. +-+...|..+...+...|++++|..
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            578999999999887423457677889999999999999999999999998753 3346688888999999999999999


Q ss_pred             HHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC
Q 048737           86 LWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                      .|+++.+..   +.+..+|..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|+..|++.++.
T Consensus       387 ~~~~al~~~---p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  462 (615)
T TIGR00990       387 DFDKALKLN---SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN  462 (615)
T ss_pred             HHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            999999875   5668899999999999999999999999998863 235777888899999999999999999999875


Q ss_pred             CCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccH------HHHHHHHHHHHhcCCcchHHHHHHHHHhCCCcc
Q 048737          166 EWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLE------ASANVLLVGLRNLGRLSDVRRFAEEMLNRRILI  239 (274)
Q Consensus       166 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  239 (274)
                      . +.+...++.+...+...|++++|...|++..+.....+.      ..++.....+...|++++|..++++..+.. +.
T Consensus       463 ~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~-p~  540 (615)
T TIGR00990       463 F-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID-PE  540 (615)
T ss_pred             C-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CC
Confidence            3 334678899999999999999999999998875422111      112222333445799999999999988764 23


Q ss_pred             CHHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          240 YDVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       240 ~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      +...+..+...+.+.|+.  |.+.++++.+..+
T Consensus       541 ~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~  573 (615)
T TIGR00990       541 CDIAVATMAQLLLQQGDVDEALKLFERAAELAR  573 (615)
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhc
Confidence            455788899999999998  8888988876544

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.81  E-value=3.6e-16  Score=134.46  Aligned_cols=254  Identities=9%  Similarity=-0.016  Sum_probs=183.6

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   82 (274)
                      .+.|++++|+.+++.....   .|.+...+..++.+....|++++|+..++++.+.. +.+...+..+...+...|+++.
T Consensus        53 ~~~g~~~~A~~l~~~~l~~---~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~  128 (656)
T PRK15174         53 LRKDETDVGLTLLSDRVLT---AKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYAT  128 (656)
T ss_pred             HhcCCcchhHHHhHHHHHh---CCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHH
Confidence            4689999999999999877   88888889999999999999999999999999863 4557788888999999999999


Q ss_pred             HHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737           83 TVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      |...++++.+..   +.+...+..+..++...|++++|...++++...... +...+..+ ..+...|++++|...++.+
T Consensus       129 Ai~~l~~Al~l~---P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~  203 (656)
T PRK15174        129 VADLAEQAWLAF---SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARAL  203 (656)
T ss_pred             HHHHHHHHHHhC---CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHH
Confidence            999999999865   556788999999999999999999999988765332 23333333 3467788888888888887


Q ss_pred             HhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcch----HHHHHHHHHhCCCc
Q 048737          163 IKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSD----VRRFAEEMLNRRIL  238 (274)
Q Consensus       163 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~----a~~~~~~m~~~~~~  238 (274)
                      .+..-.++...+..+...+...|++++|...+++..+... .+...+..+...+...|++++    |...|++..+.. +
T Consensus       204 l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p-~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P  281 (656)
T PRK15174        204 LPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGL-DGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-S  281 (656)
T ss_pred             HhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-C
Confidence            6653223333444445666667777777777777665442 334555556666666666664    566666665542 2


Q ss_pred             cCHHHHHHHHHHHHhcChh--HHHHHHHHHH
Q 048737          239 IYDVTMQKLKKAFYNESRS--MRDRFDSLER  267 (274)
Q Consensus       239 ~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~  267 (274)
                      .+...+..+...+...|+.  |...++++++
T Consensus       282 ~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~  312 (656)
T PRK15174        282 DNVRIVTLYADALIRTGQNEKAIPLLQQSLA  312 (656)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            2444555556666666655  5555555443

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

Probab=99.78  E-value=1.8e-18  Score=134.53  Aligned_cols=258  Identities=11%  Similarity=0.066  Sum_probs=114.8

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      +.+.|++++|+++++..... .-.|.++..|..+.......++++.|++.++++...+. -++..+..++.. ...++++
T Consensus        18 ~~~~~~~~~Al~~L~~~~~~-~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~-~~~~~~~~l~~l-~~~~~~~   94 (280)
T PF13429_consen   18 LYQRGDYEKALEVLKKAAQK-IAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDK-ANPQDYERLIQL-LQDGDPE   94 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccc-cccccccccccccccccccccccccccccccccccccc-cccccccccccc-ccccccc
Confidence            45789999999999765443 22466788888888888899999999999999998652 356677777777 7899999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcC-CCCChhhHHHHHHHHHhcCCHhHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHG-AFPDSLTYNMIFECLIKNKKVHEVENFFH  160 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (274)
                      +|.+++....+.    .++...+..++..+.+.++++++.++++.+.... .+++...|..+...+.+.|++++|++.++
T Consensus        95 ~A~~~~~~~~~~----~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~  170 (280)
T PF13429_consen   95 EALKLAEKAYER----DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYR  170 (280)
T ss_dssp             ---------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             cccccccccccc----ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999877654    3567778889999999999999999999987543 34577888999999999999999999999


Q ss_pred             HHHhCCCCCC-cchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCcc
Q 048737          161 EMIKNEWQPT-PLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILI  239 (274)
Q Consensus       161 ~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  239 (274)
                      +..+.  .|+ ......++..+...|+.+++.+++....+.. +.|...+..+..+|...|+.++|..+|++..+.+ +.
T Consensus       171 ~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~  246 (280)
T PF13429_consen  171 KALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PD  246 (280)
T ss_dssp             HHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT
T ss_pred             HHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-cc
Confidence            99985  464 6778899999999999999999998888754 4566778899999999999999999999998763 44


Q ss_pred             CHHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          240 YDVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       240 ~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      |+.+...+..++...|+.  |.++..++.+..+
T Consensus       247 d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~~l~  279 (280)
T PF13429_consen  247 DPLWLLAYADALEQAGRKDEALRLRRQALRLLR  279 (280)
T ss_dssp             -HHHHHHHHHHHT--------------------
T ss_pred             ccccccccccccccccccccccccccccccccC
Confidence            788888999999999988  8888887776554

>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=99.77  E-value=5.9e-15  Score=126.96  Aligned_cols=257  Identities=10%  Similarity=-0.004  Sum_probs=175.7

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|++++|++.|++....   .| +...|..+..+|.+.|++++|++.++..++.+ +.+...+..+..++...|+++
T Consensus       137 ~~~~~~~~~Ai~~y~~al~~---~p-~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg~~~  211 (615)
T TIGR00990       137 AYRNKDFNKAIKLYSKAIEC---KP-DPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLGKYA  211 (615)
T ss_pred             HHHcCCHHHHHHHHHHHHhc---CC-chHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHH
Confidence            34567777777777776443   56 45666667777777777777777777766542 223445555555555555555


Q ss_pred             hHH-----------------------------------------------------------------------------
Q 048737           82 HTV-----------------------------------------------------------------------------   84 (274)
Q Consensus        82 ~a~-----------------------------------------------------------------------------   84 (274)
                      +|.                                                                             
T Consensus       212 eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  291 (615)
T TIGR00990       212 DALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETG  291 (615)
T ss_pred             HHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccc
Confidence            554                                                                             


Q ss_pred             -----------------------HHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-hhhHH
Q 048737           85 -----------------------QLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD-SLTYN  140 (274)
Q Consensus        85 -----------------------~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~  140 (274)
                                             +.|+...+.+...+.....++.+...+...|++++|+..|++..+.  .|+ ...|.
T Consensus       292 ~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~  369 (615)
T TIGR00990       292 NGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYI  369 (615)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHH
Confidence                                   3333333322000123345666666777788888888888887764  344 55777


Q ss_pred             HHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcC
Q 048737          141 MIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLG  220 (274)
Q Consensus       141 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  220 (274)
                      .+...+...|++++|...|++..+.. +.+...|..+...+...|++++|...|++..+... .+...+..+...+.+.|
T Consensus       370 ~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P-~~~~~~~~la~~~~~~g  447 (615)
T TIGR00990       370 KRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDP-DFIFSHIQLGVTQYKEG  447 (615)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCc-cCHHHHHHHHHHHHHCC
Confidence            77888888888888888888887653 33466778888888888888888888888887652 45666777788888888


Q ss_pred             CcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          221 RLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       221 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                      ++++|+..|++..+.. +-+...+..+...+...|+.  |.+.++++++.
T Consensus       448 ~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l  496 (615)
T TIGR00990       448 SIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL  496 (615)
T ss_pred             CHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            9999998888887652 33567778888888888877  88887777654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.72  E-value=3.1e-14  Score=130.24  Aligned_cols=256  Identities=9%  Similarity=0.002  Sum_probs=175.0

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHH------------
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNA------------   70 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------------   70 (274)
                      .+.|++++|++.|+++.+.   .|.+..++..+...+...|++++|++.|++..+.. +.+...+..+            
T Consensus       362 ~~~g~~~eA~~~~~~Al~~---~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~~~A  437 (1157)
T PRK11447        362 LKANNLAQAERLYQQARQV---DNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSPEKA  437 (1157)
T ss_pred             HHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCHHHH
Confidence            4678999999999999776   78788889999999999999999999999988743 2233333222            


Q ss_pred             ------------------------------HHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhH
Q 048737           71 ------------------------------LDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNV  120 (274)
Q Consensus        71 ------------------------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  120 (274)
                                                    ...+...|++++|.+.|++..+..   +.+...+..+...|.+.|++++|
T Consensus       438 ~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~---P~~~~~~~~LA~~~~~~G~~~~A  514 (1157)
T PRK11447        438 LAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD---PGSVWLTYRLAQDLRQAGQRSQA  514 (1157)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHH
Confidence                                          233456789999999999998875   45677788888999999999999


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC-----------------------------------
Q 048737          121 FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN-----------------------------------  165 (274)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----------------------------------  165 (274)
                      ...++++.+... .+...+..+...+...+++++|...++.+...                                   
T Consensus       515 ~~~l~~al~~~P-~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~  593 (1157)
T PRK11447        515 DALMRRLAQQKP-NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAE  593 (1157)
T ss_pred             HHHHHHHHHcCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHH
Confidence            999999876432 12322222222223333333333333221100                                   


Q ss_pred             ----CCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCH
Q 048737          166 ----EWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYD  241 (274)
Q Consensus       166 ----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~  241 (274)
                          ..+++...+..+...+.+.|++++|...|++..+... .+...+..+...|...|++++|.+.++...+.. +.+.
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                1233445566677777788888888888888777542 456677777778888888888888888766542 2234


Q ss_pred             HHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          242 VTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       242 ~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                      .++..+..++...|+.  |.++++.+++.
T Consensus       672 ~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        672 NTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            4555666677777777  77777777654

>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=5.7e-15  Score=119.47  Aligned_cols=217  Identities=11%  Similarity=0.136  Sum_probs=145.4

Q ss_pred             cchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC-HHHHHHHHHHHHhCCChhhHH
Q 048737            6 GNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT-LKFFSNALDILVKLNDSTHTV   84 (274)
Q Consensus         6 g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~   84 (274)
                      +.+++|...|.+....   .|....+|..+...|-..|+++.|+..|++.++.  .|+ +..|+.|..++-..|++.+|.
T Consensus       266 ~~~d~Avs~Y~rAl~l---rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~  340 (966)
T KOG4626|consen  266 RIFDRAVSCYLRALNL---RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAV  340 (966)
T ss_pred             hcchHHHHHHHHHHhc---CCcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHH
Confidence            3444444444444332   4444555555555555555666666666555543  333 556777777777777777777


Q ss_pred             HHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737           85 QLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD-SLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      ..|.+.....   +......+.|...|...|.+++|..+|....+  +.|. ...++.|...|.+.|++++|+..|.+.+
T Consensus       341 ~cYnkaL~l~---p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal  415 (966)
T KOG4626|consen  341 DCYNKALRLC---PNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL  415 (966)
T ss_pred             HHHHHHHHhC---CccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH
Confidence            7777777653   33456677777777777777777777777666  3444 5567777777888888888888887777


Q ss_pred             hCCCCCC-cchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          164 KNEWQPT-PLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       164 ~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      +  +.|+ ...|+.+...|-..|+.+.|.+.+.+.+..+. .-...++.|...|-..|++.+|++-+++..+.
T Consensus       416 r--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nP-t~AeAhsNLasi~kDsGni~~AI~sY~~aLkl  485 (966)
T KOG4626|consen  416 R--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINP-TFAEAHSNLASIYKDSGNIPEAIQSYRTALKL  485 (966)
T ss_pred             h--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCc-HHHHHHhhHHHHhhccCCcHHHHHHHHHHHcc
Confidence            6  4565 46777777888888888888888877776442 22466778888888888888888888887765

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

Probab=99.70  E-value=2.1e-13  Score=102.25  Aligned_cols=229  Identities=12%  Similarity=0.101  Sum_probs=186.7

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC---HHHHHHHHHHHHhCCChh
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT---LKFFSNALDILVKLNDST   81 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~   81 (274)
                      +++.++|.++|-+|.+.   .|.+..+.-+|.+.|-+.|..|+|+++-..+.++.-.+.   ....-.|..-|...|-+|
T Consensus        48 s~Q~dKAvdlF~e~l~~---d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~D  124 (389)
T COG2956          48 SNQPDKAVDLFLEMLQE---DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLD  124 (389)
T ss_pred             hcCcchHHHHHHHHHhc---CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhh
Confidence            56789999999999876   777888888999999999999999999999887532121   234456677888999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC----hhhHHHHHHHHHhcCCHhHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD----SLTYNMIFECLIKNKKVHEVEN  157 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~  157 (274)
                      .|+.+|..+.+.+   ..-......|+..|-...+|++|+++-+++.+.+..+.    ...|..+...+....+.+.|..
T Consensus       125 RAE~~f~~L~de~---efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~  201 (389)
T COG2956         125 RAEDIFNQLVDEG---EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARE  201 (389)
T ss_pred             HHHHHHHHHhcch---hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHH
Confidence            9999999999866   44566788999999999999999999999988765544    2456677777777889999999


Q ss_pred             HHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCC
Q 048737          158 FFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRI  237 (274)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  237 (274)
                      .+.+..+.. +..+..-..+.+.....|++..|.+.|+...+.+..--..+...|..+|...|+.++...++..+.+...
T Consensus       202 ~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~  280 (389)
T COG2956         202 LLKKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNT  280 (389)
T ss_pred             HHHHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccC
Confidence            999988754 2334445567788889999999999999999988766678889999999999999999999988877644


Q ss_pred             ccC
Q 048737          238 LIY  240 (274)
Q Consensus       238 ~~~  240 (274)
                      .++
T Consensus       281 g~~  283 (389)
T COG2956         281 GAD  283 (389)
T ss_pred             Ccc
Confidence            333

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.70  E-value=2e-14  Score=111.62  Aligned_cols=239  Identities=12%  Similarity=0.166  Sum_probs=192.9

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhH
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMY  104 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  104 (274)
                      .|.+..+|..+|.++++--..+.|.+++++..+...+.+..+||.+|.+-.-.    ...++..+|....  +.||..|+
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqk--m~Pnl~Tf  276 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQK--MTPNLFTF  276 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhh--cCCchHhH
Confidence            45578899999999999999999999999999888899999999999876533    3388999999988  99999999


Q ss_pred             HHHHHHHHhcCChhhH----HHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhH-HHHHHHHHHh----CCCCC----Cc
Q 048737          105 NAVVGLLCNNNDVDNV----FRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHE-VENFFHEMIK----NEWQP----TP  171 (274)
Q Consensus       105 ~~l~~~~~~~~~~~~a----~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~-a~~~~~~~~~----~~~~~----~~  171 (274)
                      |+++.+..+.|+++.|    .+++.+|++.|+.|...+|..+|..+++.+++.+ +..++..+..    +..+|    |.
T Consensus       277 NalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~  356 (625)
T KOG4422|consen  277 NALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDN  356 (625)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchh
Confidence            9999999999988765    5667789999999999999999999999988765 4444444433    22233    34


Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCccH---HHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHH
Q 048737          172 LNCATAITMLLDADEPEFAIEIWNYILEN----GILPLE---ASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTM  244 (274)
Q Consensus       172 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  244 (274)
                      ..|...|..|.+..+.+-|..+-.-+...    -+.|+.   .-|..+....++....+.....|+.|.-.-.-|+..+.
T Consensus       357 ~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m  436 (625)
T KOG4422|consen  357 KFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTM  436 (625)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhH
Confidence            56778899999999999999887766532    133332   33566778888999999999999999999889999999


Q ss_pred             HHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          245 QKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       245 ~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      ..++++....|.+  ..++|..++.-+
T Consensus       437 ~~~lrA~~v~~~~e~ipRiw~D~~~~g  463 (625)
T KOG4422|consen  437 IHLLRALDVANRLEVIPRIWKDSKEYG  463 (625)
T ss_pred             HHHHHHHhhcCcchhHHHHHHHHHHhh
Confidence            9999999998887  555555555443

>TIGR00540 hemY_coli hemY protein

Probab=99.69  E-value=4.5e-13  Score=109.63  Aligned_cols=255  Identities=11%  Similarity=0.012  Sum_probs=167.3

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHH--HHHHHHHHHHhCCChh
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLK--FFSNALDILVKLNDST   81 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~   81 (274)
                      ..|+++.|++.+.+..+.   .|.....+-....+..+.|+++.|.+.+.+..+..  |+..  .-......+...|+++
T Consensus        96 ~~g~~~~A~~~l~~~~~~---~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~  170 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH---AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELH  170 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHH
Confidence            357777777777666553   44233344444566666677777777777765432  3332  2233456666677777


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC---------------------------
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP---------------------------  134 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------------------------  134 (274)
                      .|...++.+.+..   |.+..++..+...+.+.|+++.|.+.+..+.+.++.+                           
T Consensus       171 ~Al~~l~~l~~~~---P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~  247 (409)
T TIGR00540       171 AARHGVDKLLEMA---PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDG  247 (409)
T ss_pred             HHHHHHHHHHHhC---CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHH
Confidence            7777777777664   4455666677777777777777777666665543221                           


Q ss_pred             --------------ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchH-HHHHHHH--HhcCChHHHHHHHHHH
Q 048737          135 --------------DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNC-ATAITML--LDADEPEFAIEIWNYI  197 (274)
Q Consensus       135 --------------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~--~~~~~~~~a~~~~~~~  197 (274)
                                    +...+..+...+...|+.++|.+++++..+..  ||.... ..++..+  ...++.+.+.+.++..
T Consensus       248 L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~  325 (409)
T TIGR00540       248 LLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQ  325 (409)
T ss_pred             HHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHH
Confidence                          34445556667777788888888888887753  444321 0122222  3346777787777777


Q ss_pred             HHCCCCccH--HHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          198 LENGILPLE--ASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       198 ~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      .+.. +-|.  ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.  |.+++++.....
T Consensus       326 lk~~-p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~~~  400 (409)
T TIGR00540       326 AKNV-DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLGLM  400 (409)
T ss_pred             HHhC-CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            6643 1233  556688889999999999999999655544578999999999999999988  888888776543

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.

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.69  E-value=1.5e-13  Score=121.63  Aligned_cols=248  Identities=10%  Similarity=-0.032  Sum_probs=140.8

Q ss_pred             hHHHHHHHHHHHhccCCCCc--hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHH
Q 048737            8 VVEANKTFGEMVERFEWNPE--HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQ   85 (274)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~p~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   85 (274)
                      ..++....+......+..|+  +...|..+..++.. +++++|+..+.+....  .|+......+...+...|++++|..
T Consensus       454 ~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~  530 (987)
T PRK09782        454 LPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALA  530 (987)
T ss_pred             hhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHH
Confidence            33333333333333344455  55666666666655 5666666666665543  2444333333444456677777777


Q ss_pred             HHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC
Q 048737           86 LWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                      .|+++...    +|+...+..+..++.+.|++++|...+++..+.. +++...+..+...+...|++++|...+++..+.
T Consensus       531 ~~rka~~~----~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l  605 (987)
T PRK09782        531 AWQKISLH----DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI  605 (987)
T ss_pred             HHHHHhcc----CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            77665442    2333445555566666677777777776666543 112222223333334456777777777666653


Q ss_pred             CCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHH
Q 048737          166 EWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQ  245 (274)
Q Consensus       166 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  245 (274)
                        .|+...+..+..++.+.|++++|...+++..+... .+...++.+..++...|++++|+..+++..+.. +-+...+.
T Consensus       606 --~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~P-d~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~  681 (987)
T PRK09782        606 --APSANAYVARATIYRQRHNVPAAVSDLRAALELEP-NNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIR  681 (987)
T ss_pred             --CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence              35555666666666677777777777766666542 344555666666666677777777766666543 22445566


Q ss_pred             HHHHHHHhcChh--HHHHHHHHHH
Q 048737          246 KLKKAFYNESRS--MRDRFDSLER  267 (274)
Q Consensus       246 ~l~~~~~~~g~~--a~~~~~~~~~  267 (274)
                      .+..++...|+.  |...++++++
T Consensus       682 nLA~al~~lGd~~eA~~~l~~Al~  705 (987)
T PRK09782        682 QLAYVNQRLDDMAATQHYARLVID  705 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHh
Confidence            666666666666  6666666554

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.69  E-value=9e-14  Score=127.26  Aligned_cols=252  Identities=8%  Similarity=0.013  Sum_probs=199.4

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   82 (274)
                      ...|++++|++.|++..+.   .|+++..+..+...|.+.|++++|+..++++.+.. +.++..+..+...+...++.++
T Consensus       472 ~~~g~~~eA~~~~~~Al~~---~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~  547 (1157)
T PRK11447        472 ENQGKWAQAAELQRQRLAL---DPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRA  547 (1157)
T ss_pred             HHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHH
Confidence            3579999999999999776   89888899999999999999999999999998743 3455555556666778899999


Q ss_pred             HHHHHHHHHhcCCccCccH---------HhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHh
Q 048737           83 TVQLWDIMVGIGFNLMPNL---------IMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVH  153 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~~~~---------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  153 (274)
                      |...++.+....  ..++.         ..+..+...+...|+.++|.++++.     .+++...+..+...+.+.|+++
T Consensus       548 Al~~l~~l~~~~--~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~  620 (1157)
T PRK11447        548 ALAHLNTLPRAQ--WNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYA  620 (1157)
T ss_pred             HHHHHHhCCchh--cChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHH
Confidence            999998875433  12221         1233456778899999999999882     2456677888999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 048737          154 EVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEML  233 (274)
Q Consensus       154 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  233 (274)
                      +|+..|++..+.. +.+...+..+...+...|++++|.+.++...+... .+...+..+..++...|++++|.++++.+.
T Consensus       621 ~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p-~~~~~~~~la~~~~~~g~~~eA~~~~~~al  698 (1157)
T PRK11447        621 AARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATAN-DSLNTQRRVALAWAALGDTAAAQRTFNRLI  698 (1157)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCC-CChHHHHHHHHHHHhCCCHHHHHHHHHHHh
Confidence            9999999999864 34577889999999999999999999998876532 345567778888999999999999999998


Q ss_pred             hCCC--cc---CHHHHHHHHHHHHhcChh--HHHHHHHHHH
Q 048737          234 NRRI--LI---YDVTMQKLKKAFYNESRS--MRDRFDSLER  267 (274)
Q Consensus       234 ~~~~--~~---~~~~~~~l~~~~~~~g~~--a~~~~~~~~~  267 (274)
                      ....  .|   +...+..+...+...|+.  |.+.++.++.
T Consensus       699 ~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        699 PQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             hhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            7532  22   234566667788888888  8888888764

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

Probab=99.69  E-value=1.2e-14  Score=117.64  Aligned_cols=248  Identities=11%  Similarity=0.110  Sum_probs=154.0

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC-HHHHHHHHHHHHhCCChhhH
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT-LKFFSNALDILVKLNDSTHT   83 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a   83 (274)
                      +|++..|+.-|++...   ++|.-..+|-.|...|...+.+++|+..|.+....  +|+ ...+..+...|...|.++.|
T Consensus       231 ~Gei~~aiq~y~eAvk---ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlA  305 (966)
T KOG4626|consen  231 QGEIWLAIQHYEEAVK---LDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--RPNHAVAHGNLACIYYEQGLLDLA  305 (966)
T ss_pred             cchHHHHHHHHHHhhc---CCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--CCcchhhccceEEEEeccccHHHH
Confidence            4556666666665533   35655556666666666666666666666665542  333 44555555666666777777


Q ss_pred             HHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737           84 VQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      ...|++.++..   +.=...|+.|..++...|++.+|+..|.+.+... +-...+.+.|...|...|.+++|..+|....
T Consensus       306 I~~Ykral~~~---P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al  381 (966)
T KOG4626|consen  306 IDTYKRALELQ---PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKAL  381 (966)
T ss_pred             HHHHHHHHhcC---CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHH
Confidence            77777766643   2225567777777777777777777777766542 1235566667777777777777777776666


Q ss_pred             hCCCCCC-cchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCcc-HHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCH
Q 048737          164 KNEWQPT-PLNCATAITMLLDADEPEFAIEIWNYILENGILPL-EASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYD  241 (274)
Q Consensus       164 ~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~  241 (274)
                      +  +.|. ...++.|...|-..|++++|...|++...  +.|+ ...|+.+-..|-..|+++.|.+.+.+.+.-+. .-.
T Consensus       382 ~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nP-t~A  456 (966)
T KOG4626|consen  382 E--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINP-TFA  456 (966)
T ss_pred             h--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCc-HHH
Confidence            5  3343 34566777777777777777777776665  3344 35666677777777777777777777665431 123


Q ss_pred             HHHHHHHHHHHhcChh--HHHHHHHHH
Q 048737          242 VTMQKLKKAFYNESRS--MRDRFDSLE  266 (274)
Q Consensus       242 ~~~~~l~~~~~~~g~~--a~~~~~~~~  266 (274)
                      ..++.|...+..+|+.  |..-++.++
T Consensus       457 eAhsNLasi~kDsGni~~AI~sY~~aL  483 (966)
T KOG4626|consen  457 EAHSNLASIYKDSGNIPEAIQSYRTAL  483 (966)
T ss_pred             HHHhhHHHHhhccCCcHHHHHHHHHHH
Confidence            5566677777777766  555555444

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.68  E-value=8.3e-13  Score=107.56  Aligned_cols=247  Identities=9%  Similarity=-0.023  Sum_probs=179.4

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHH-HHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHH--HHHHHHHhCCChh
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETF-LITLIRGKQVDEALKFLRVMKGENCFPTLKFFS--NALDILVKLNDST   81 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~l-i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~   81 (274)
                      .|++++|++......+.   .+ ++..+..+ .....+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++
T Consensus        97 eGd~~~A~k~l~~~~~~---~~-~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~  170 (398)
T PRK10747         97 EGDYQQVEKLMTRNADH---AE-QPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENH  170 (398)
T ss_pred             CCCHHHHHHHHHHHHhc---cc-chHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHH
Confidence            58888888777766553   21 23333333 44447888888888888888763  45543332  3356777888888


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC---------------------------
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP---------------------------  134 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------------------------  134 (274)
                      .|...++++.+..   |.+......+...|.+.|++++|.+++..+.+.+..+                           
T Consensus       171 ~Al~~l~~~~~~~---P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~  247 (398)
T PRK10747        171 AARHGVDKLLEVA---PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEG  247 (398)
T ss_pred             HHHHHHHHHHhcC---CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHH
Confidence            8888888888875   5567778888888888888888888887776554321                           


Q ss_pred             --------------ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 048737          135 --------------DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILEN  200 (274)
Q Consensus       135 --------------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  200 (274)
                                    ++.....+...+...|+.++|.+++++..+.  .|+...  .++.+....++.+++.+..+...+.
T Consensus       248 l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~  323 (398)
T PRK10747        248 LKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQ  323 (398)
T ss_pred             HHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhh
Confidence                          2334445566777888999999999888773  344422  2334444568889999998888876


Q ss_pred             CCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHH
Q 048737          201 GILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLER  267 (274)
Q Consensus       201 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~  267 (274)
                      . +-|...+..+...+.+.+++++|.+.|+...+.  .|+..++..+...+.+.|+.  |.+.+.+.+.
T Consensus       324 ~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        324 H-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             C-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4 355667888899999999999999999999886  68999999999999999988  8777776654

>PRK12370 invasion protein regulator; Provisional

Probab=99.67  E-value=2e-13  Score=115.75  Aligned_cols=248  Identities=9%  Similarity=0.008  Sum_probs=172.1

Q ss_pred             cchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHh---------ccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh
Q 048737            6 GNVVEANKTFGEMVERFEWNPEHVLAYETFLITLI---------RGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVK   76 (274)
Q Consensus         6 g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   76 (274)
                      +.+++|.+.|++..+.   .|++..+|..+..++.         ..+++++|...+++..+.+ +-+...+..+...+..
T Consensus       275 ~~~~~A~~~~~~Al~l---dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~  350 (553)
T PRK12370        275 YSLQQALKLLTQCVNM---SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTI  350 (553)
T ss_pred             HHHHHHHHHHHHHHhc---CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHH
Confidence            4567888999988665   8878878877766554         2345789999999988764 4467778888888888


Q ss_pred             CCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCHhHH
Q 048737           77 LNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD-SLTYNMIFECLIKNKKVHEV  155 (274)
Q Consensus        77 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a  155 (274)
                      .|++++|...|+++.+.+   +.+...+..+..++...|++++|...+++..+..  |+ ...+..++..+...|++++|
T Consensus       351 ~g~~~~A~~~~~~Al~l~---P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA  425 (553)
T PRK12370        351 HSEYIVGSLLFKQANLLS---PISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAGITKLWITYYHTGIDDA  425 (553)
T ss_pred             ccCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHhccCHHHH
Confidence            999999999999999876   5567778888889999999999999999988853  43 22333444556678899999


Q ss_pred             HHHHHHHHhCCCCCC-cchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          156 ENFFHEMIKNEWQPT-PLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       156 ~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      ...+++..+.. .|+ +..+..+..++...|++++|...+.++..... .+....+.+...|...|  ++|...++.+.+
T Consensus       426 ~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        426 IRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEI-TGLIAVNLLYAEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             HHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccc-hhHHHHHHHHHHHhccH--HHHHHHHHHHHH
Confidence            99998887653 343 44567777888889999999999988765421 23344555556667777  477777777665


Q ss_pred             C-CCccCHHHHHHHHHHHHhcChhHHHHHHHHHH
Q 048737          235 R-RILIYDVTMQKLKKAFYNESRSMRDRFDSLER  267 (274)
Q Consensus       235 ~-~~~~~~~~~~~l~~~~~~~g~~a~~~~~~~~~  267 (274)
                      . ...|.......++.++....+. ..+++++.+
T Consensus       502 ~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~  534 (553)
T PRK12370        502 SEQRIDNNPGLLPLVLVAHGEAIA-EKMWNKFKN  534 (553)
T ss_pred             HhhHhhcCchHHHHHHHHHhhhHH-HHHHHHhhc
Confidence            3 2223333334444444333332 233354443

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

Probab=99.66  E-value=1.5e-15  Score=118.16  Aligned_cols=220  Identities=16%  Similarity=0.165  Sum_probs=115.4

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhH
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHT   83 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   83 (274)
                      ..++++.|++.++++...   .|.++..+..++.. ...+++++|.+++....+.  .+++..+..++..+...++++.+
T Consensus        56 ~~~~~~~A~~ay~~l~~~---~~~~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~  129 (280)
T PF13429_consen   56 SLGDYDEAIEAYEKLLAS---DKANPQDYERLIQL-LQDGDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEA  129 (280)
T ss_dssp             --------------------------------------------------------------------H-HHHTT-HHHH
T ss_pred             cccccccccccccccccc---cccccccccccccc-ccccccccccccccccccc--ccccchhhHHHHHHHHHhHHHHH
Confidence            467899999999999765   55567778888887 7999999999999887664  36677788899999999999999


Q ss_pred             HHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737           84 VQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP-DSLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      ..+++.+..... .+++...|..+...+.+.|+.++|++.+++..+.  .| |....+.++..+...|+.+++..++...
T Consensus       130 ~~~l~~~~~~~~-~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~  206 (280)
T PF13429_consen  130 EELLEKLEELPA-APDSARFWLALAEIYEQLGDPDKALRDYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRL  206 (280)
T ss_dssp             HHHHHHHHH-T----T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            999999876431 3567888999999999999999999999999986  35 5778889999999999999999999888


Q ss_pred             HhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          163 IKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       163 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      .+.. +.|+..+..+..++...|+.++|...+++..+.. +.|+.....+..++...|+.++|.++.++..+
T Consensus       207 ~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  207 LKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT-----------------
T ss_pred             HHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-cccccccccccccccccccccccccccccccc
Confidence            7754 5667788999999999999999999999998865 35778888999999999999999999887643

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.65  E-value=4.2e-13  Score=101.38  Aligned_cols=200  Identities=10%  Similarity=0.103  Sum_probs=122.1

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHH
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVV  108 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~  108 (274)
                      ...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|+++.|.+.+++..+..   +.+...+..+.
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~~~~~  106 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN---PNNGDVLNNYG  106 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC---CCCHHHHHHHH
Confidence            4556666667777777777777777666542 3345556666666667777777777777776654   34455666666


Q ss_pred             HHHHhcCChhhHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCh
Q 048737          109 GLLCNNNDVDNVFRFFDQMVFHGAFP-DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEP  187 (274)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  187 (274)
                      ..+...|++++|.+.+++.......| ....+..+...+...|++++|...+.+..+.. +.+...+..+...+...|++
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCH
Confidence            66777777777777777666532111 23445555666666677777777776666542 22344555666666666777


Q ss_pred             HHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          188 EFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       188 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      ++|...+++..+. .+.+...+..+...+...|+.++|..+.+.+..
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            7777666666654 223444555555666666666666666655543

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

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.65  E-value=1e-12  Score=116.48  Aligned_cols=218  Identities=9%  Similarity=-0.028  Sum_probs=178.8

Q ss_pred             cchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHH
Q 048737            6 GNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQ   85 (274)
Q Consensus         6 g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   85 (274)
                      |+.++|...|.+....   .|+ ......+...+...|++++|+..|+++...  +|+...+..+..++.+.|+++.|..
T Consensus       490 ~~~~eAi~a~~~Al~~---~Pd-~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~  563 (987)
T PRK09782        490 TLPGVALYAWLQAEQR---QPD-AWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDR  563 (987)
T ss_pred             CCcHHHHHHHHHHHHh---CCc-hHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHH
Confidence            6888999989888776   674 333444555567899999999999998654  4555666777888899999999999


Q ss_pred             HHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC
Q 048737           86 LWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                      .+++..+..   +++...+..+.....+.|++++|...+++..+.  .|+...|..+...+.+.|++++|+..+++..+.
T Consensus       564 ~l~qAL~l~---P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l  638 (987)
T PRK09782        564 WLQQAEQRG---LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALEL  638 (987)
T ss_pred             HHHHHHhcC---CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            999999865   344444444445555679999999999999885  567889999999999999999999999999886


Q ss_pred             CCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC
Q 048737          166 EWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       166 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  236 (274)
                      . +.+...++.+...+...|++++|...+++..+... -+...+..+..++...|++++|...+++..+..
T Consensus       639 ~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P-~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        639 E-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLP-DDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             C-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            4 33456778888899999999999999999998653 566788999999999999999999999998763

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.63  E-value=1.6e-12  Score=114.25  Aligned_cols=258  Identities=12%  Similarity=0.053  Sum_probs=156.1

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      +.+.|++++|.++|++..+.   .|.++..+..++..+...|++++|+..+++..+. .+.+.. +..+..++...|+.+
T Consensus        59 ~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~-~P~~~~-~~~la~~l~~~g~~~  133 (765)
T PRK10049         59 YRNLKQWQNSLTLWQKALSL---EPQNDDYQRGLILTLADAGQYDEALVKAKQLVSG-APDKAN-LLALAYVYKRAGRHW  133 (765)
T ss_pred             HHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHH-HHHHHHHHHHCCCHH
Confidence            34567888888888887665   6767777777888888888888888888888765 244455 777777778888888


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHH------------------------------------
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFD------------------------------------  125 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~------------------------------------  125 (274)
                      .|...++++.+..   +.+...+..+..++...++.+.|++.++                                    
T Consensus       134 ~Al~~l~~al~~~---P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~  210 (765)
T PRK10049        134 DELRAMTQALPRA---PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYA  210 (765)
T ss_pred             HHHHHHHHHHHhC---CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHH
Confidence            8888888888764   4445555555556555555554443333                                    


Q ss_pred             ----------HHHhc-CCCCChh-hHH----HHHHHHHhcCCHhHHHHHHHHHHhCCCC-CCcchHHHHHHHHHhcCChH
Q 048737          126 ----------QMVFH-GAFPDSL-TYN----MIFECLIKNKKVHEVENFFHEMIKNEWQ-PTPLNCATAITMLLDADEPE  188 (274)
Q Consensus       126 ----------~~~~~-~~~~~~~-~~~----~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~  188 (274)
                                .+.+. ...|+.. .+.    ..+..+...|++++|+..|+.+.+.+.. |+. ....+...|...|+++
T Consensus       211 ~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e  289 (765)
T PRK10049        211 IADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPE  289 (765)
T ss_pred             HHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcH
Confidence                      33221 0111111 111    1123345567777777777777765421 221 1222456777777788


Q ss_pred             HHHHHHHHHHHCCCCc---cHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCC-----------ccCH---HHHHHHHHHH
Q 048737          189 FAIEIWNYILENGILP---LEASANVLLVGLRNLGRLSDVRRFAEEMLNRRI-----------LIYD---VTMQKLKKAF  251 (274)
Q Consensus       189 ~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~-----------~~~~---~~~~~l~~~~  251 (274)
                      +|+..|+++.+.....   .......+..++...|++++|..+++.+.+...           .|+.   ..+..+...+
T Consensus       290 ~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l  369 (765)
T PRK10049        290 KAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVA  369 (765)
T ss_pred             HHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHH
Confidence            8877777766543111   123455556667777777777777777765421           1221   2344555666


Q ss_pred             HhcChh--HHHHHHHHHHH
Q 048737          252 YNESRS--MRDRFDSLERR  268 (274)
Q Consensus       252 ~~~g~~--a~~~~~~~~~~  268 (274)
                      ...|+.  |.++++++++.
T Consensus       370 ~~~g~~~eA~~~l~~al~~  388 (765)
T PRK10049        370 KYSNDLPQAEMRARELAYN  388 (765)
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            666766  77776666543

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

Probab=99.63  E-value=6e-14  Score=114.19  Aligned_cols=245  Identities=11%  Similarity=0.061  Sum_probs=139.9

Q ss_pred             CcccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHH-HHHhcCCCCCCHHHHHHHHHHHHhCCC
Q 048737            1 GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFL-RVMKGENCFPTLKFFSNALDILVKLND   79 (274)
Q Consensus         1 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~   79 (274)
                      ||...+++++|+++|+.+.+......++.+.|.+.+-.+-+.-    ++..+ +.+... -+-.+.+|.++.++|.-.++
T Consensus       362 ayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v----~Ls~Laq~Li~~-~~~sPesWca~GNcfSLQkd  436 (638)
T KOG1126|consen  362 AYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEV----ALSYLAQDLIDT-DPNSPESWCALGNCFSLQKD  436 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhH----HHHHHHHHHHhh-CCCCcHHHHHhcchhhhhhH
Confidence            4677889999999999998873444445555555554332211    12222 222222 13345666777777766677


Q ss_pred             hhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHH
Q 048737           80 STHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFF  159 (274)
Q Consensus        80 ~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  159 (274)
                      .+.|.+.|++.++.+   +....+|+.+..-+.....+|+|...|+..+.... -+-.+|--+...|.+.++++.|+-.|
T Consensus       437 h~~Aik~f~RAiQld---p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~-rhYnAwYGlG~vy~Kqek~e~Ae~~f  512 (638)
T KOG1126|consen  437 HDTAIKCFKRAIQLD---PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDP-RHYNAWYGLGTVYLKQEKLEFAEFHF  512 (638)
T ss_pred             HHHHHHHHHHhhccC---CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc-hhhHHHHhhhhheeccchhhHHHHHH
Confidence            777777777766644   33566666666666666667777776666654211 01223334555566666667776666


Q ss_pred             HHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCcc
Q 048737          160 HEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILI  239 (274)
Q Consensus       160 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  239 (274)
                      .+..+.+ +-+.+....+...+-+.|+.++|++++++....+. -|+..--.-...+...+++++|+..++++.+. ++-
T Consensus       513 qkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~-kn~l~~~~~~~il~~~~~~~eal~~LEeLk~~-vP~  589 (638)
T KOG1126|consen  513 QKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP-KNPLCKYHRASILFSLGRYVEALQELEELKEL-VPQ  589 (638)
T ss_pred             HhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC-CCchhHHHHHHHHHhhcchHHHHHHHHHHHHh-Ccc
Confidence            6666533 22344555555666666666777777666665443 22222223344455566666677666666654 222


Q ss_pred             CHHHHHHHHHHHHhcChh
Q 048737          240 YDVTMQKLKKAFYNESRS  257 (274)
Q Consensus       240 ~~~~~~~l~~~~~~~g~~  257 (274)
                      +...|..+.+.|.+.|+.
T Consensus       590 es~v~~llgki~k~~~~~  607 (638)
T KOG1126|consen  590 ESSVFALLGKIYKRLGNT  607 (638)
T ss_pred             hHHHHHHHHHHHHHHccc
Confidence            344455566666666654

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

Probab=99.63  E-value=1.1e-13  Score=112.73  Aligned_cols=244  Identities=12%  Similarity=0.087  Sum_probs=181.6

Q ss_pred             chHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCC--CCCCHHHHHHHHHHHHhCCChhhHH
Q 048737            7 NVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGEN--CFPTLKFFSNALDILVKLNDSTHTV   84 (274)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~   84 (274)
                      +..+|..+|..+...   .+++......+..+|...+++++|.++|+.+.+..  ..-+..+|.+.+--+-+    +.+.
T Consensus       334 ~~~~A~~~~~klp~h---~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~L  406 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH---HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVAL  406 (638)
T ss_pred             HHHHHHHHHHhhHHh---cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHH
Confidence            457788888887665   56455566678888999999999999999887742  11245666666544322    1222


Q ss_pred             HH-HHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737           85 QL-WDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP-DSLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus        85 ~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      .. -+.+....   +..+.+|.++.++|.-.++.+.|++.|++..+.  .| ...+|+.+..-+.....+|+|...|+..
T Consensus       407 s~Laq~Li~~~---~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~A  481 (638)
T KOG1126|consen  407 SYLAQDLIDTD---PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKA  481 (638)
T ss_pred             HHHHHHHHhhC---CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhh
Confidence            22 23444443   556889999999999999999999999999884  45 6889999999999999999999999988


Q ss_pred             HhCCCCCCcchH---HHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCcc
Q 048737          163 IKNEWQPTPLNC---ATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILI  239 (274)
Q Consensus       163 ~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  239 (274)
                      +.    .|+..|   .-+.-.|.+.++++.|+--|++..+.+. -+.+....+...+-+.|+.|+|+.++++....... 
T Consensus       482 l~----~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP-~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-  555 (638)
T KOG1126|consen  482 LG----VDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINP-SNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-  555 (638)
T ss_pred             hc----CCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCc-cchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-
Confidence            65    444444   4567789999999999999999988664 45666777788889999999999999999877544 


Q ss_pred             CHHHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          240 YDVTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       240 ~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                      |+..-..-...+...++.  |...++++.+.
T Consensus       556 n~l~~~~~~~il~~~~~~~eal~~LEeLk~~  586 (638)
T KOG1126|consen  556 NPLCKYHRASILFSLGRYVEALQELEELKEL  586 (638)
T ss_pred             CchhHHHHHHHHHhhcchHHHHHHHHHHHHh
Confidence            444444445556666655  88888777653

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.62  E-value=3e-12  Score=111.51  Aligned_cols=254  Identities=8%  Similarity=-0.004  Sum_probs=170.5

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   82 (274)
                      .+.|+++.|++.|++..+.   .|.+......++..+...|+.++|+..+++.... .+........+...+...|++++
T Consensus        45 ~r~Gd~~~Al~~L~qaL~~---~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~  120 (822)
T PRK14574         45 ARAGDTAPVLDYLQEESKA---GPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQ  120 (822)
T ss_pred             HhCCCHHHHHHHHHHHHhh---CccchhhHHHHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHH
Confidence            5778899999999988765   7755322337778888888888888888888721 12333444444567778888888


Q ss_pred             HHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737           83 TVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      |.++|+++.+..   +.+...+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|+..++++
T Consensus       121 Aiely~kaL~~d---P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekl  195 (822)
T PRK14574        121 ALALWQSSLKKD---PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEA  195 (822)
T ss_pred             HHHHHHHHHhhC---CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            888888888875   455667777778888888888888888888764  455555544433343455555577777777


Q ss_pred             HhCCCCCC-cchHHHH----------------------------------------------------------------
Q 048737          163 IKNEWQPT-PLNCATA----------------------------------------------------------------  177 (274)
Q Consensus       163 ~~~~~~~~-~~~~~~l----------------------------------------------------------------  177 (274)
                      .+..  |+ ...+..+                                                                
T Consensus       196 l~~~--P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~  273 (822)
T PRK14574        196 VRLA--PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALAD  273 (822)
T ss_pred             HHhC--CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHH
Confidence            6542  22 1111111                                                                


Q ss_pred             -------------------------HHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 048737          178 -------------------------ITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEM  232 (274)
Q Consensus       178 -------------------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  232 (274)
                                               +-++...+++.++++.|+.+...+.+....+-..+..+|...+++++|..+++.+
T Consensus       274 ~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~  353 (822)
T PRK14574        274 YQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSL  353 (822)
T ss_pred             HHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHH
Confidence                                     3344556677777777777776664433456677788888888888888888887


Q ss_pred             HhCC-----CccCHHHHHHHHHHHHhcChh--HHHHHHHHHH
Q 048737          233 LNRR-----ILIYDVTMQKLKKAFYNESRS--MRDRFDSLER  267 (274)
Q Consensus       233 ~~~~-----~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~  267 (274)
                      ....     ..++......|..++...++.  |..+++.+.+
T Consensus       354 ~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~  395 (822)
T PRK14574        354 YYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSE  395 (822)
T ss_pred             hhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHh
Confidence            6542     122333456778888888877  7777777765

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.62  E-value=5.5e-13  Score=100.76  Aligned_cols=192  Identities=10%  Similarity=0.077  Sum_probs=161.3

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |...|++++|.+.|++..+.   .|.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|+++
T Consensus        41 ~~~~~~~~~A~~~~~~~l~~---~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~g~~~  116 (234)
T TIGR02521        41 YLEQGDLEVAKENLDKALEH---DPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFLCQQGKYE  116 (234)
T ss_pred             HHHCCCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcccHH
Confidence            45689999999999999775   68788899999999999999999999999998764 456678888899999999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHE  161 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (274)
                      +|.+.+++...... .+.....+..+..++...|++++|...+++..... +.+...+..+...+...|++++|...+++
T Consensus       117 ~A~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~  194 (234)
T TIGR02521       117 QAMQQFEQAIEDPL-YPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLER  194 (234)
T ss_pred             HHHHHHHHHHhccc-cccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999987531 12345677788899999999999999999988763 23567888899999999999999999999


Q ss_pred             HHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 048737          162 MIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILEN  200 (274)
Q Consensus       162 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  200 (274)
                      ..+. .+.+...+..+...+...|+.+.|..+++.+...
T Consensus       195 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       195 YQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            9876 2445667777888888999999999988877653

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.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.62  E-value=4.5e-13  Score=109.08  Aligned_cols=217  Identities=16%  Similarity=0.108  Sum_probs=139.2

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCH-------HHHHHHHHHHHhC
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTL-------KFFSNALDILVKL   77 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~   77 (274)
                      .|+++.|.+.++++.+.   .|+++..+..+...|.+.|+|++|.+++..+.+.+..++.       .+|..++......
T Consensus       166 ~g~~~~Al~~l~~~~~~---~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~  242 (398)
T PRK10747        166 RNENHAARHGVDKLLEV---APRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMAD  242 (398)
T ss_pred             CCCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            34444444444444333   3444444444444444444444444444444443322111       0111222222222


Q ss_pred             CChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHH
Q 048737           78 NDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVEN  157 (274)
Q Consensus        78 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  157 (274)
                      .+.+...++|+.+.+.   .+.++.....+...+...|+.++|.+++++..+.  .|+...  .++.+....++++++.+
T Consensus       243 ~~~~~l~~~w~~lp~~---~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~  315 (398)
T PRK10747        243 QGSEGLKRWWKNQSRK---TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEK  315 (398)
T ss_pred             cCHHHHHHHHHhCCHH---HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHH
Confidence            2333333333333222   2345666777888999999999999999999874  445422  23344456699999999


Q ss_pred             HHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          158 FFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      ..+...+.. +-|+..+.++...|.+.+++++|.+.|+...+.  .|+...+..+...+.+.|+.++|.+++++-..
T Consensus       316 ~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        316 VLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            999998753 334566889999999999999999999999985  48888999999999999999999999998754

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.61  E-value=8.2e-13  Score=102.79  Aligned_cols=234  Identities=12%  Similarity=0.113  Sum_probs=173.5

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHH--HHhCCChhhH-HHHHHHHHhcC-------
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDI--LVKLNDSTHT-VQLWDIMVGIG-------   94 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a-~~~~~~~~~~~-------   94 (274)
                      .|..+.+=|.|+.. ...|.+..+.-+|+.|.+.|++.++..-..|+..  |.+..++--+ ++.|-.|...|       
T Consensus       112 ~~~~V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sW  190 (625)
T KOG4422|consen  112 DPLQVETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSW  190 (625)
T ss_pred             CchhhcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccc
Confidence            35455566666654 5578889999999999999988887766655543  3333332222 12222232222       


Q ss_pred             ----------CccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737           95 ----------FNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus        95 ----------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                                ...+.+..++.++|.+.++-...+.|.+++++......+.+..+||.+|.+-.-..    ..+++.+|..
T Consensus       191 K~G~vAdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMis  266 (625)
T KOG4422|consen  191 KSGAVADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMIS  266 (625)
T ss_pred             ccccHHHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHH
Confidence                      01355778999999999999999999999999988888889999999998765443    3788999999


Q ss_pred             CCCCCCcchHHHHHHHHHhcCChHH----HHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcch-HHHHHHHHHh----C
Q 048737          165 NEWQPTPLNCATAITMLLDADEPEF----AIEIWNYILENGILPLEASANVLLVGLRNLGRLSD-VRRFAEEMLN----R  235 (274)
Q Consensus       165 ~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~m~~----~  235 (274)
                      ..+.||..|+|+++.+..+.|+++.    |.+++.+|++.|+.|...+|..+|..+++.++..+ +..++.++..    +
T Consensus       267 qkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK  346 (625)
T KOG4422|consen  267 QKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGK  346 (625)
T ss_pred             hhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccC
Confidence            9999999999999999999998876    56788899999999999999999999999888755 5555555544    2


Q ss_pred             CCcc----CHHHHHHHHHHHHhcChh--HHHHHH
Q 048737          236 RILI----YDVTMQKLKKAFYNESRS--MRDRFD  263 (274)
Q Consensus       236 ~~~~----~~~~~~~l~~~~~~~g~~--a~~~~~  263 (274)
                      .++|    |..-|.+.+..|.+..+.  |..+..
T Consensus       347 ~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~  380 (625)
T KOG4422|consen  347 TFKPITPTDNKFFQSAMSICSSLRDLELAYQVHG  380 (625)
T ss_pred             cccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            2222    345566777788877766  665554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.61  E-value=7.2e-12  Score=110.23  Aligned_cols=256  Identities=10%  Similarity=0.008  Sum_probs=188.0

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   82 (274)
                      ...|+.++|+++|.+....   .|.+...+..+...+.+.|++++|.+++++..+.. +.+...+..+..++...|++++
T Consensus        26 ~~~g~~~~A~~~~~~~~~~---~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~e  101 (765)
T PRK10049         26 LWAGQDAEVITVYNRYRVH---MQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDE  101 (765)
T ss_pred             HHcCCHHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            3478999999999998653   56567779999999999999999999999998753 4557778888899999999999


Q ss_pred             HHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHH---
Q 048737           83 TVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFF---  159 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~---  159 (274)
                      |...++++.+..   +.+.. +..+..++...|+.++|+..++++.+..+. +...+..+...+...+..++|+..+   
T Consensus       102 A~~~l~~~l~~~---P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~Al~~l~~~  176 (765)
T PRK10049        102 ALVKAKQLVSGA---PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPALGAIDDA  176 (765)
T ss_pred             HHHHHHHHHHhC---CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHHHHHHHhC
Confidence            999999999875   55666 888999999999999999999999986322 4555556666666666655444333   


Q ss_pred             -------------------------------------------HHHHhC-CCCCCcc-hHHH----HHHHHHhcCChHHH
Q 048737          160 -------------------------------------------HEMIKN-EWQPTPL-NCAT----AITMLLDADEPEFA  190 (274)
Q Consensus       160 -------------------------------------------~~~~~~-~~~~~~~-~~~~----l~~~~~~~~~~~~a  190 (274)
                                                                 +.+.+. ...|+.. .+..    .+..+...|++++|
T Consensus       177 ~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA  256 (765)
T PRK10049        177 NLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDV  256 (765)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHH
Confidence                                                       333322 1122221 1111    12344577899999


Q ss_pred             HHHHHHHHHCCCC-ccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCcc---CHHHHHHHHHHHHhcChh--HHHHHHH
Q 048737          191 IEIWNYILENGIL-PLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILI---YDVTMQKLKKAFYNESRS--MRDRFDS  264 (274)
Q Consensus       191 ~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~---~~~~~~~l~~~~~~~g~~--a~~~~~~  264 (274)
                      +..|+++.+.+.. |+. .-..+..+|...|++++|...|+++.+.....   .......+..++...|+.  |.+.++.
T Consensus       257 ~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~  335 (765)
T PRK10049        257 ISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAH  335 (765)
T ss_pred             HHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            9999999887532 332 22225678999999999999999987653211   134566677788888888  8888888


Q ss_pred             HHHH
Q 048737          265 LERR  268 (274)
Q Consensus       265 ~~~~  268 (274)
                      +.+.
T Consensus       336 ~~~~  339 (765)
T PRK10049        336 TINN  339 (765)
T ss_pred             Hhhc
Confidence            7764

>PRK12370 invasion protein regulator; Provisional

Probab=99.60  E-value=4.1e-12  Score=107.82  Aligned_cols=236  Identities=11%  Similarity=0.004  Sum_probs=174.7

Q ss_pred             CCchHhHHHHHHHHHhc-----cCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH---------hCCChhhHHHHHHHH
Q 048737           25 NPEHVLAYETFLITLIR-----GKQVDEALKFLRVMKGENCFPTLKFFSNALDILV---------KLNDSTHTVQLWDIM   90 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~   90 (274)
                      .|.+..+|...+.+...     .+.+++|+.+|++..+.. +-+...|..+..++.         ..+++++|...++++
T Consensus       252 ~~~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~A  330 (553)
T PRK12370        252 ELNSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKA  330 (553)
T ss_pred             CCCChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHH
Confidence            44466667666666322     245789999999998753 223455655555443         234578999999999


Q ss_pred             HhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCC
Q 048737           91 VGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT  170 (274)
Q Consensus        91 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~  170 (274)
                      .+.+   +.+...+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+..  |+
T Consensus       331 l~ld---P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~  404 (553)
T PRK12370        331 TELD---HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PT  404 (553)
T ss_pred             HhcC---CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CC
Confidence            9976   5678889999999999999999999999999864 2246788889999999999999999999998854  54


Q ss_pred             c-chHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHH-HHHHHH
Q 048737          171 P-LNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDV-TMQKLK  248 (274)
Q Consensus       171 ~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~l~  248 (274)
                      . ..+..++..+...|++++|...+++..+...+-+...+..+..++...|++++|...+.++...  .|+.. ..+.+.
T Consensus       405 ~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~  482 (553)
T PRK12370        405 RAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLY  482 (553)
T ss_pred             ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHH
Confidence            3 2334445556778999999999999887543224455777888889999999999999987655  34433 344555


Q ss_pred             HHHHhcChhHHHHHHHHHHHh
Q 048737          249 KAFYNESRSMRDRFDSLERRW  269 (274)
Q Consensus       249 ~~~~~~g~~a~~~~~~~~~~~  269 (274)
                      ..+...|+.+...++.+.+..
T Consensus       483 ~~~~~~g~~a~~~l~~ll~~~  503 (553)
T PRK12370        483 AEYCQNSERALPTIREFLESE  503 (553)
T ss_pred             HHHhccHHHHHHHHHHHHHHh
Confidence            567777877777777766544

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

Probab=99.58  E-value=3.4e-11  Score=92.99  Aligned_cols=254  Identities=12%  Similarity=0.043  Sum_probs=190.7

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHH
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTV   84 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   84 (274)
                      .|+|.+|+++..+-.+. +-.|  ...|..-+.+.-+.|+.+.+-.++.+..+..-.++...+-+........|+.+.|.
T Consensus        97 eG~~~qAEkl~~rnae~-~e~p--~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~  173 (400)
T COG3071          97 EGDFQQAEKLLRRNAEH-GEQP--VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAR  173 (400)
T ss_pred             cCcHHHHHHHHHHhhhc-Ccch--HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHH
Confidence            69999999999997774 5555  44677777888899999999999999987533566667777788899999999999


Q ss_pred             HHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCCh-------hhHHHHHHHHHhcCCHhHHHH
Q 048737           85 QLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDS-------LTYNMIFECLIKNKKVHEVEN  157 (274)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~li~~~~~~~~~~~a~~  157 (274)
                      .-..++.+.+   +.+..+......+|.+.|+++....++.++.+.|.-.+.       .+|..+++-....+..+.-..
T Consensus       174 ~~v~~ll~~~---pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~  250 (400)
T COG3071         174 ENVDQLLEMT---PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKT  250 (400)
T ss_pred             HHHHHHHHhC---cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHH
Confidence            9999999987   778899999999999999999999999999988865443       345555554444444444334


Q ss_pred             HHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCC------------------------------CccHH
Q 048737          158 FFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGI------------------------------LPLEA  207 (274)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------------------------------~~~~~  207 (274)
                      .|+..... .+.++..-.+++.-+.+.|+.+.|.++..+..+.+.                              +-++.
T Consensus       251 ~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~  329 (400)
T COG3071         251 WWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPL  329 (400)
T ss_pred             HHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChh
Confidence            44443322 233444445555555556666666555554443332                              22347


Q ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHH
Q 048737          208 SANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLER  267 (274)
Q Consensus       208 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~  267 (274)
                      .+.+|-..|.+.+.+.+|.+.|+...+.  .|+..+|..+.+++.+.|+.  |.+..++.+.
T Consensus       330 L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         330 LLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            7888889999999999999999977765  78999999999999999998  8888777663

>TIGR00540 hemY_coli hemY protein

Probab=99.58  E-value=2e-12  Score=105.89  Aligned_cols=223  Identities=11%  Similarity=0.005  Sum_probs=155.8

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHH-HHHHHH---HhCCC
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFS-NALDIL---VKLND   79 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~---~~~~~   79 (274)
                      ..|+++.|++.++.+.+.   .|+++.++..+...+.+.|++++|.+.+..+.+.+.. +...+. .-..++   ...+.
T Consensus       165 ~~~~~~~Al~~l~~l~~~---~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~  240 (409)
T TIGR00540       165 AQNELHAARHGVDKLLEM---APRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAM  240 (409)
T ss_pred             HCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHH
Confidence            467888888888888776   6777778888888888888888888888888877543 332221 111111   22222


Q ss_pred             hhhHHHHHHHHHhcCC-ccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhh---HHHHHHHHHhcCCHhHH
Q 048737           80 STHTVQLWDIMVGIGF-NLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLT---YNMIFECLIKNKKVHEV  155 (274)
Q Consensus        80 ~~~a~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~li~~~~~~~~~~~a  155 (274)
                      .+.+...+..+.+... ..+.+...+..+...+...|+.++|.+++++..+..  ||...   ...........++.+.+
T Consensus       241 ~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~  318 (409)
T TIGR00540       241 ADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKL  318 (409)
T ss_pred             HhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHH
Confidence            2222333333333220 012377888889999999999999999999999863  44332   12222223445788889


Q ss_pred             HHHHHHHHhCCCCCCc---chHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 048737          156 ENFFHEMIKNEWQPTP---LNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEM  232 (274)
Q Consensus       156 ~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  232 (274)
                      .+.++...+.  .|+.   ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++.
T Consensus       319 ~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       319 EKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999888765  3544   4566889999999999999999996555445688888999999999999999999999986


Q ss_pred             Hh
Q 048737          233 LN  234 (274)
Q Consensus       233 ~~  234 (274)
                      ..
T Consensus       397 l~  398 (409)
T TIGR00540       397 LG  398 (409)
T ss_pred             HH
Confidence            43

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.

>PF13041 PPR_2: PPR repeat family

Probab=99.56  E-value=1.3e-14  Score=81.38  Aligned_cols=50  Identities=22%  Similarity=0.288  Sum_probs=36.9

Q ss_pred             ccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHh
Q 048737          204 PLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYN  253 (274)
Q Consensus       204 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~  253 (274)
                      ||..+||.+|.+|++.|++++|.++|++|.+.|+.||..||+++|++|++
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            66777777777777777777777777777777777777777777777654

>PF13041 PPR_2: PPR repeat family

Probab=99.55  E-value=1.5e-14  Score=81.05  Aligned_cols=49  Identities=29%  Similarity=0.673  Sum_probs=25.6

Q ss_pred             ccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 048737           99 PNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLI  147 (274)
Q Consensus        99 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  147 (274)
                      ||..+||++|++|++.|++++|.++|++|.+.|++||..||+++|++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4455555555555555555555555555555555555555555555543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.55  E-value=3.3e-11  Score=105.09  Aligned_cols=259  Identities=12%  Similarity=0.092  Sum_probs=182.7

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |...|++++|+++|+++.+.   .|+++..+..++..+...++.++|++.++++...  .|+...+..++..+...++..
T Consensus       112 y~~~gdyd~Aiely~kaL~~---dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~  186 (822)
T PRK14574        112 YRNEKRWDQALALWQSSLKK---DPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNY  186 (822)
T ss_pred             HHHcCCHHHHHHHHHHHHhh---CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHH
Confidence            34568999999999999777   8888888888888999999999999999998875  466555655555554566666


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHH-------------------------------------
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFF-------------------------------------  124 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~-------------------------------------  124 (274)
                      +|.+.++++.+..   |.+...+..+..+..+.|-...|.++.                                     
T Consensus       187 ~AL~~~ekll~~~---P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r  263 (822)
T PRK14574        187 DALQASSEAVRLA---PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETER  263 (822)
T ss_pred             HHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhh
Confidence            6999999998875   445555566666665555444443333                                     


Q ss_pred             -----------HHHHhc-CCCCCh-h----hHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCh
Q 048737          125 -----------DQMVFH-GAFPDS-L----TYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEP  187 (274)
Q Consensus       125 -----------~~~~~~-~~~~~~-~----~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  187 (274)
                                 +.+... +..|.. .    ...-.+-++...++..++++.|+.+...+.+....+-..+.++|...+.+
T Consensus       264 ~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P  343 (822)
T PRK14574        264 FDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLP  343 (822)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCc
Confidence                       222221 111211 1    11234556777889999999999999887655556778899999999999


Q ss_pred             HHHHHHHHHHHHCC-----CCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCC-----------cc--CH-HHHHHHH
Q 048737          188 EFAIEIWNYILENG-----ILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRI-----------LI--YD-VTMQKLK  248 (274)
Q Consensus       188 ~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~-----------~~--~~-~~~~~l~  248 (274)
                      ++|..+++.+....     ..++......|..+|...+++++|..+++.+.+...           .|  |- ..+..++
T Consensus       344 ~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a  423 (822)
T PRK14574        344 EKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLV  423 (822)
T ss_pred             HHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHH
Confidence            99999999987643     123444457788999999999999999999987311           12  22 2334456


Q ss_pred             HHHHhcChh--HHHHHHHHHHH
Q 048737          249 KAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       249 ~~~~~~g~~--a~~~~~~~~~~  268 (274)
                      ..+.-.|+.  |++.++.+...
T Consensus       424 ~~~~~~gdl~~Ae~~le~l~~~  445 (822)
T PRK14574        424 QSLVALNDLPTAQKKLEDLSST  445 (822)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh
Confidence            677788888  88888888654

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

Probab=99.55  E-value=3.2e-11  Score=94.83  Aligned_cols=163  Identities=9%  Similarity=0.003  Sum_probs=132.0

Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC  145 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (274)
                      |...+.+-|.-.++.++|...|++..+.+   +.....|+.+.+-|....+...|++-++...+-. +.|-..|-.+.++
T Consensus       332 TCCiIaNYYSlr~eHEKAv~YFkRALkLN---p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQa  407 (559)
T KOG1155|consen  332 TCCIIANYYSLRSEHEKAVMYFKRALKLN---PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQA  407 (559)
T ss_pred             ceeeehhHHHHHHhHHHHHHHHHHHHhcC---cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHH
Confidence            33344456667778899999999998876   5567788888888999999999999999888863 3477888899999


Q ss_pred             HHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchH
Q 048737          146 LIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDV  225 (274)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  225 (274)
                      |.-.+.+.-|+-+|++..... +-|...|.+|.++|.+.+++++|+..|.+....|- .+...+..|...|-+.++..+|
T Consensus       408 Yeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l~~LakLye~l~d~~eA  485 (559)
T KOG1155|consen  408 YEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSALVRLAKLYEELKDLNEA  485 (559)
T ss_pred             HHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHHHHHHHHHHHHHhHHHH
Confidence            999998888999998887753 44678899999999999999999999988887653 4667888888999999999998


Q ss_pred             HHHHHHHHh
Q 048737          226 RRFAEEMLN  234 (274)
Q Consensus       226 ~~~~~~m~~  234 (274)
                      ...|++.++
T Consensus       486 a~~yek~v~  494 (559)
T KOG1155|consen  486 AQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHH
Confidence            888877655

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

Probab=99.54  E-value=6.2e-13  Score=100.06  Aligned_cols=224  Identities=8%  Similarity=0.034  Sum_probs=108.5

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHH
Q 048737           33 ETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLC  112 (274)
Q Consensus        33 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  112 (274)
                      +.+..+|.+.|.+.+|.+.|+.....  .|-+.||..|-.+|.+..+++.|+.++.+-.+.   .+-|+....-+.+.+-
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~---fP~~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS---FPFDVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc---CCchhhhhhhhHHHHH
Confidence            34555555555555555555554442  344445555555555555555555555555443   1223322333444555


Q ss_pred             hcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHH
Q 048737          113 NNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIE  192 (274)
Q Consensus       113 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  192 (274)
                      ..++.++|.++|+...+.. +.++....++...|.-.++++-|+.+|+++++.|+ -++..|..+.-+|...+++|.+..
T Consensus       302 am~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~  379 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLP  379 (478)
T ss_pred             HHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHH
Confidence            5555555555555555432 22444444455555555555555555555555553 344455555555555555555555


Q ss_pred             HHHHHHHCCCCcc--HHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHH
Q 048737          193 IWNYILENGILPL--EASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDS  264 (274)
Q Consensus       193 ~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~  264 (274)
                      -|.+....--.|+  ..+|-.+-......||+..|.+.|+-....+-. +...++.|.-.-.+.|+.  |+.++..
T Consensus       380 sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~  454 (478)
T KOG1129|consen  380 SFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNA  454 (478)
T ss_pred             HHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHH
Confidence            5555444322222  234444444444555555555555554444322 334444444444455554  4444443

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

Probab=99.51  E-value=6.8e-11  Score=93.05  Aligned_cols=218  Identities=11%  Similarity=0.089  Sum_probs=151.4

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHH-------------------------------HhccCcHHHHHHHHH
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLIT-------------------------------LIRGKQVDEALKFLR   53 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~-------------------------------~~~~~~~~~a~~~~~   53 (274)
                      ..++++|+.+|+++.+.....-+|..+|..++-.                               |+-.++.++|+..|+
T Consensus       275 ~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFk  354 (559)
T KOG1155|consen  275 QRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFK  354 (559)
T ss_pred             hhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHH
Confidence            4578888888888877644444566676554322                               333366778888888


Q ss_pred             HHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCC
Q 048737           54 VMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAF  133 (274)
Q Consensus        54 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  133 (274)
                      +..+.+ +-....|+.+.+-|....+...|..-|+++++..   |.|-..|-.|..+|.-.+.+.-|+-.|++..... +
T Consensus       355 RALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~---p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-P  429 (559)
T KOG1155|consen  355 RALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN---PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-P  429 (559)
T ss_pred             HHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC---chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-C
Confidence            877754 3345677777888888888888888888888875   6778888888888888888888888888877742 2


Q ss_pred             CChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHC----CC-Cc-cHH
Q 048737          134 PDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILEN----GI-LP-LEA  207 (274)
Q Consensus       134 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~-~~~  207 (274)
                      -|...|.+|..+|.+.++.++|++.|......| ..+...+..|.+.|-+.++.++|...|.+.++.    |. .| ...
T Consensus       430 nDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~k  508 (559)
T KOG1155|consen  430 NDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIK  508 (559)
T ss_pred             CchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHH
Confidence            257788888888888888888888888877765 335567778888888888888888777766542    22 22 122


Q ss_pred             HHHHHHHHHHhcCCcchHHHH
Q 048737          208 SANVLLVGLRNLGRLSDVRRF  228 (274)
Q Consensus       208 ~~~~l~~~~~~~g~~~~a~~~  228 (274)
                      .--.|..-+.+.+++++|...
T Consensus       509 a~~fLA~~f~k~~~~~~As~Y  529 (559)
T KOG1155|consen  509 ARLFLAEYFKKMKDFDEASYY  529 (559)
T ss_pred             HHHHHHHHHHhhcchHHHHHH
Confidence            223344555666666666543

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

Probab=99.50  E-value=1.7e-10  Score=97.43  Aligned_cols=256  Identities=13%  Similarity=0.130  Sum_probs=184.1

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHH
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTV   84 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   84 (274)
                      .|++++|.+++.++...   .|.+..+|.+|...|-+.|+.+++...+-..-.. .+-|...|-.+.....+.|+++.|.
T Consensus       152 rg~~eeA~~i~~EvIkq---dp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL-~p~d~e~W~~ladls~~~~~i~qA~  227 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQ---DPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHL-NPKDYELWKRLADLSEQLGNINQAR  227 (895)
T ss_pred             hCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHcccHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHhcccHHHHH
Confidence            39999999999999877   8889999999999999999999998877555443 3567788999999999999999999


Q ss_pred             HHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCCh----hhHHHHHHHHHhcCCHhHHHHHHH
Q 048737           85 QLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDS----LTYNMIFECLIKNKKVHEVENFFH  160 (274)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~  160 (274)
                      -.|.++++..   +++....-.-+..|-+.|+...|...|.++.....+.|.    ...-.+++.+...++-+.|.+.++
T Consensus       228 ~cy~rAI~~~---p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le  304 (895)
T KOG2076|consen  228 YCYSRAIQAN---PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALE  304 (895)
T ss_pred             HHHHHHHhcC---CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            9999999986   677777777788899999999999999998876331121    122334555666666677777776


Q ss_pred             HHHhCC-CCCCcchHHHHHHHHHhcCChHHHHHHHHHHHH----------------------------------------
Q 048737          161 EMIKNE-WQPTPLNCATAITMLLDADEPEFAIEIWNYILE----------------------------------------  199 (274)
Q Consensus       161 ~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----------------------------------------  199 (274)
                      .....+ -..+...++.++..+.+...++.|......+..                                        
T Consensus       305 ~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~  384 (895)
T KOG2076|consen  305 GALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLM  384 (895)
T ss_pred             HHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHh
Confidence            665521 123344555555555555555555444443332                                        


Q ss_pred             ---------------------CC--CCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCh
Q 048737          200 ---------------------NG--ILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESR  256 (274)
Q Consensus       200 ---------------------~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~  256 (274)
                                           ..  +.-+...|.-+..+|.+.|++.+|+.+|..+...-..-+...|..+..+|...|.
T Consensus       385 icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e  464 (895)
T KOG2076|consen  385 ICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGE  464 (895)
T ss_pred             hhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhh
Confidence                                 22  1112355677778888888888888888888776544456677777778877776


Q ss_pred             h--HHHHHHHHHH
Q 048737          257 S--MRDRFDSLER  267 (274)
Q Consensus       257 ~--a~~~~~~~~~  267 (274)
                      .  |.+.++.++.
T Consensus       465 ~e~A~e~y~kvl~  477 (895)
T KOG2076|consen  465 YEEAIEFYEKVLI  477 (895)
T ss_pred             HHHHHHHHHHHHh
Confidence            6  7777777664

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.49  E-value=1.4e-10  Score=90.78  Aligned_cols=231  Identities=6%  Similarity=-0.105  Sum_probs=165.7

Q ss_pred             ccchHHHHHHHHHHHhccCCCCch-HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhH
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEH-VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHT   83 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   83 (274)
                      .+..+.++.-+.++..+....|.+ ...|..+...+...|++++|...|++..+.. +.+...|+.+...+...|+++.|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            356677888888887643334433 5678888999999999999999999998864 44688999999999999999999


Q ss_pred             HHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737           84 VQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      ...|++..+..   +.+..+|..+..++...|++++|.+.|++..+.  .|+..........+...+++++|...+.+..
T Consensus       118 ~~~~~~Al~l~---P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        118 YEAFDSVLELD---PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHHHHhC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            99999999865   445778888999999999999999999999875  3443322222233455678999999997765


Q ss_pred             hCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHC---CC---CccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCC
Q 048737          164 KNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILEN---GI---LPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRI  237 (274)
Q Consensus       164 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~---~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  237 (274)
                      ... .|+...+ .  ......|+...+ ..+..+.+.   .+   +.....|..+...+.+.|++++|...|++..+.+ 
T Consensus       193 ~~~-~~~~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-  266 (296)
T PRK11189        193 EKL-DKEQWGW-N--IVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-  266 (296)
T ss_pred             hhC-CccccHH-H--HHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-
Confidence            432 3332222 2  223345666554 344444431   11   1123578889999999999999999999999775 


Q ss_pred             ccCHHHHHHH
Q 048737          238 LIYDVTMQKL  247 (274)
Q Consensus       238 ~~~~~~~~~l  247 (274)
                      +||..-+...
T Consensus       267 ~~~~~e~~~~  276 (296)
T PRK11189        267 VYNFVEHRYA  276 (296)
T ss_pred             CchHHHHHHH
Confidence            3355544443

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

Probab=99.48  E-value=3.4e-10  Score=85.34  Aligned_cols=248  Identities=10%  Similarity=0.078  Sum_probs=186.0

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCc-hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPE-HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDS   80 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   80 (274)
                      |-+.|.+++|+++-..+.++.+..-. -..+...|..-|...|-+|.|..+|..+.+.+ ..-......|+..|....+|
T Consensus        79 fRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW  157 (389)
T COG2956          79 FRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREW  157 (389)
T ss_pred             HHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHH
Confidence            45679999999999998875222110 12245567888999999999999999998865 33466788899999999999


Q ss_pred             hhHHHHHHHHHhcCCccCcc----HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHH
Q 048737           81 THTVQLWDIMVGIGFNLMPN----LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVE  156 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  156 (274)
                      ++|..+-+++.+.+  -.+.    ...|.-|...+....+.+.|..++.+..+... ..+..--.+.+.....|++++|.
T Consensus       158 ~KAId~A~~L~k~~--~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~-~cvRAsi~lG~v~~~~g~y~~AV  234 (389)
T COG2956         158 EKAIDVAERLVKLG--GQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADK-KCVRASIILGRVELAKGDYQKAV  234 (389)
T ss_pred             HHHHHHHHHHHHcC--CccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCc-cceehhhhhhHHHHhccchHHHH
Confidence            99999999998876  2332    23467777778888999999999999988632 24555556678889999999999


Q ss_pred             HHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC
Q 048737          157 NFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  236 (274)
                      +.++...+.+..--+.+...|..+|...|++++....+.++.+....+  ..-..+...-....-.+.|...+.+-... 
T Consensus       235 ~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~--~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r-  311 (389)
T COG2956         235 EALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGA--DAELMLADLIELQEGIDAAQAYLTRQLRR-  311 (389)
T ss_pred             HHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCc--cHHHHHHHHHHHhhChHHHHHHHHHHHhh-
Confidence            999999987644445678899999999999999999999988854333  33344444334444456666666655555 


Q ss_pred             CccCHHHHHHHHHHHHhcChh
Q 048737          237 ILIYDVTMQKLKKAFYNESRS  257 (274)
Q Consensus       237 ~~~~~~~~~~l~~~~~~~g~~  257 (274)
                       +|+...+..+++.-....+.
T Consensus       312 -~Pt~~gf~rl~~~~l~daee  331 (389)
T COG2956         312 -KPTMRGFHRLMDYHLADAEE  331 (389)
T ss_pred             -CCcHHHHHHHHHhhhccccc
Confidence             69999999999877655433

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

Probab=99.47  E-value=8.6e-11  Score=92.55  Aligned_cols=219  Identities=11%  Similarity=0.062  Sum_probs=155.2

Q ss_pred             CcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHH
Q 048737           43 KQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFR  122 (274)
Q Consensus        43 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  122 (274)
                      |++++|.+.|.+............|+ +.-.+-..|++++|+..|-.+...   +..+..+.-.+...|-...++..|++
T Consensus       504 gd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~i---l~nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  504 GDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI---LLNNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             CcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH---HHhhHHHHHHHHHHHHHhhCHHHHHH
Confidence            67777777777776654333233333 233445677788888777776654   34566677777777888888888888


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 048737          123 FFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGI  202 (274)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  202 (274)
                      ++-+.... ++.|+...+.|...|-+.|+-..|.+.+-.--+- .+-+..+...|...|....-+++++..|++..-  +
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            87776654 4456777788888888888877777665433221 344667777777788888888888888877544  6


Q ss_pred             CccHHHHHHHHHHH-HhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh-HHHHHHHHHHHhh
Q 048737          203 LPLEASANVLLVGL-RNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS-MRDRFDSLERRWK  270 (274)
Q Consensus       203 ~~~~~~~~~l~~~~-~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~-a~~~~~~~~~~~~  270 (274)
                      +|+..-|..++.+| .+.|++.+|+++++....+ ++-|.....-|++.+...|-. +.++-+++.+.-|
T Consensus       656 qp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl~d~key~~klek~ek  724 (840)
T KOG2003|consen  656 QPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGLKDAKEYADKLEKAEK  724 (840)
T ss_pred             CccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccchhHHHHHHHHHHHHH
Confidence            79999999988655 6779999999999998765 666888888899999888866 6666666654433

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

Probab=99.47  E-value=1.3e-10  Score=89.88  Aligned_cols=224  Identities=15%  Similarity=0.080  Sum_probs=178.7

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCH-------HHHHHHHHHHHh
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTL-------KFFSNALDILVK   76 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~   76 (274)
                      ..|+++.|..-.+++.+.   .|.++........+|.+.|+|..+..++..+.+.|.-.++       .+|..+++-...
T Consensus       165 ~~~d~~aA~~~v~~ll~~---~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~  241 (400)
T COG3071         165 NRRDYPAARENVDQLLEM---TPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARD  241 (400)
T ss_pred             hCCCchhHHHHHHHHHHh---CcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhc
Confidence            467888888888888665   7878888999999999999999999999999988865554       367777777766


Q ss_pred             CCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHH
Q 048737           77 LNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVE  156 (274)
Q Consensus        77 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  156 (274)
                      .+..+.-...|++....   ...++..-..++.-+.++|+.++|.++..+..+.+..|+    -...-.+.+.++...-+
T Consensus       242 ~~~~~gL~~~W~~~pr~---lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~  314 (400)
T COG3071         242 DNGSEGLKTWWKNQPRK---LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLI  314 (400)
T ss_pred             cccchHHHHHHHhccHH---hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHH
Confidence            67777766777777655   466777888889999999999999999999988876665    22333456777777777


Q ss_pred             HHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC
Q 048737          157 NFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  236 (274)
                      +..+.-.+. .+-++..+.+|...|.+.+.|.+|...|+...+  ..|+..+|+.+..+|.+.|+..+|.++.++....-
T Consensus       315 k~~e~~l~~-h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~  391 (400)
T COG3071         315 KAAEKWLKQ-HPEDPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREALLLT  391 (400)
T ss_pred             HHHHHHHHh-CCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHh
Confidence            777766554 234457889999999999999999999997766  45999999999999999999999999999876544


Q ss_pred             CccC
Q 048737          237 ILIY  240 (274)
Q Consensus       237 ~~~~  240 (274)
                      .+|+
T Consensus       392 ~~~~  395 (400)
T COG3071         392 RQPN  395 (400)
T ss_pred             cCCC
Confidence            4443

>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=99.44  E-value=7.8e-10  Score=91.69  Aligned_cols=261  Identities=14%  Similarity=0.131  Sum_probs=182.5

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH-h-----
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILV-K-----   76 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~-----   76 (274)
                      ...|++++|++.++.-...   -++...........+.+.|+.++|..++..+++++  |+...|...+..+. .     
T Consensus        15 ~e~g~~~~AL~~L~~~~~~---I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~~   89 (517)
T PF12569_consen   15 EEAGDYEEALEHLEKNEKQ---ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQLS   89 (517)
T ss_pred             HHCCCHHHHHHHHHhhhhh---CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcccc
Confidence            4578999999998876554   55466777888889999999999999999999875  55555544443333 1     


Q ss_pred             CCChhhHHHHHHHHHhcCCc----------cCc-------------------cHHhHHHHHHHHHhcCChhhHHHHHHHH
Q 048737           77 LNDSTHTVQLWDIMVGIGFN----------LMP-------------------NLIMYNAVVGLLCNNNDVDNVFRFFDQM  127 (274)
Q Consensus        77 ~~~~~~a~~~~~~~~~~~~~----------~~~-------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~  127 (274)
                      ..+.+....+|+++...-..          +.+                   =+.+|+.|-..|....+.+-..+++...
T Consensus        90 ~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~  169 (517)
T PF12569_consen   90 DEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEY  169 (517)
T ss_pred             cccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHH
Confidence            12455566666666543200          000                   1124455555555444444444555544


Q ss_pred             Hhc----C----------CCCCh--hhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCC-cchHHHHHHHHHhcCChHHH
Q 048737          128 VFH----G----------AFPDS--LTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT-PLNCATAITMLLDADEPEFA  190 (274)
Q Consensus       128 ~~~----~----------~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a  190 (274)
                      ...    +          -+|+.  .++..+.+.|...|++++|++++++.++.  .|+ +..|..-.+.+-+.|++.+|
T Consensus       170 ~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~A  247 (517)
T PF12569_consen  170 VNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEA  247 (517)
T ss_pred             HHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHH
Confidence            322    1          13344  34566788899999999999999999985  466 56788889999999999999


Q ss_pred             HHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHH--------HHHHHHHHhcChh--HHH
Q 048737          191 IEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTM--------QKLKKAFYNESRS--MRD  260 (274)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~--------~~l~~~~~~~g~~--a~~  260 (274)
                      .+.++.....+. -|...-+-.+..+.++|++++|.+++....+.+..|-...+        .....+|.+.|+.  |.+
T Consensus       248 a~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk  326 (517)
T PF12569_consen  248 AEAMDEARELDL-ADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALK  326 (517)
T ss_pred             HHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            999999998775 56677777888899999999999999999877654433221        3355688888888  888


Q ss_pred             HHHHHHHHhhh
Q 048737          261 RFDSLERRWKT  271 (274)
Q Consensus       261 ~~~~~~~~~~~  271 (274)
                      .|..+.+.+..
T Consensus       327 ~~~~v~k~f~~  337 (517)
T PF12569_consen  327 RFHAVLKHFDD  337 (517)
T ss_pred             HHHHHHHHHHH
Confidence            88888877654

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 [], [].

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

Probab=99.43  E-value=7.5e-12  Score=105.30  Aligned_cols=224  Identities=13%  Similarity=0.105  Sum_probs=158.1

Q ss_pred             HHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhc
Q 048737           14 TFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGI   93 (274)
Q Consensus        14 ~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   93 (274)
                      ++..+.. .|+.| +..+|..+|.-|+..|+++.|- +|..|.-...+.+...++.++.+....++.+.+.         
T Consensus        12 fla~~e~-~gi~P-nRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk---------   79 (1088)
T KOG4318|consen   12 FLALHEI-SGILP-NRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK---------   79 (1088)
T ss_pred             HHHHHHH-hcCCC-chhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC---------
Confidence            4556666 49999 8899999999999999999988 9999988777777778888888877777776664         


Q ss_pred             CCccCccHHhHHHHHHHHHhcCChhh---HHHHHHHH----HhcCC-----------------CCChhh----------H
Q 048737           94 GFNLMPNLIMYNAVVGLLCNNNDVDN---VFRFFDQM----VFHGA-----------------FPDSLT----------Y  139 (274)
Q Consensus        94 ~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~----~~~~~-----------------~~~~~~----------~  139 (274)
                          .|...+|..|..+|...||...   +.+.+...    ...|+                 -||..+          |
T Consensus        80 ----ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglw  155 (1088)
T KOG4318|consen   80 ----EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLW  155 (1088)
T ss_pred             ----CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHH
Confidence                3566688888888888877544   22211111    11111                 112111          1


Q ss_pred             HHHHHHHH---------------hcC--CHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 048737          140 NMIFECLI---------------KNK--KVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGI  202 (274)
Q Consensus       140 ~~li~~~~---------------~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  202 (274)
                      ..+++...               +..  +..-.+++........-.|++.+|..++++-...|+.+.|..++.+|.+.|+
T Consensus       156 aqllkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gf  235 (1088)
T KOG4318|consen  156 AQLLKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGF  235 (1088)
T ss_pred             HHHHHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCC
Confidence            11111110               000  1111222222222221158999999999999999999999999999999999


Q ss_pred             CccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCh
Q 048737          203 LPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESR  256 (274)
Q Consensus       203 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~  256 (274)
                      +.+..-|-.|+-+   .++..-+..+++-|.+.|+.|+..|+.-.+-.+.+.|.
T Consensus       236 pir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  236 PIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             Ccccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            8888777777655   88888999999999999999999999998888877554

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.43  E-value=3.2e-10  Score=93.09  Aligned_cols=246  Identities=11%  Similarity=0.099  Sum_probs=180.2

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcC-----C-CCCCHH-HHHHHHHHHHhCCChhhHHHHHHHHHhc----
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGE-----N-CFPTLK-FFSNALDILVKLNDSTHTVQLWDIMVGI----   93 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~----   93 (274)
                      .|.-..+...+...|...|+++.|+.++.+..+.     | ..|... ..+.+...|...+++++|..+|+++...    
T Consensus       195 ~P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~  274 (508)
T KOG1840|consen  195 DPERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEV  274 (508)
T ss_pred             CchHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHh
Confidence            3444556667999999999999999999987764     2 123332 3345777888999999999999998742    


Q ss_pred             -CCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc-----C-CCCCh-hhHHHHHHHHHhcCCHhHHHHHHHHHHhC
Q 048737           94 -GFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH-----G-AFPDS-LTYNMIFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus        94 -~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                       |.+.+.-..+++.|..+|.+.|++++|...+++..+-     | ..|.+ ..++.+...|+..+++++|..++....+.
T Consensus       275 ~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i  354 (508)
T KOG1840|consen  275 FGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKI  354 (508)
T ss_pred             cCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHH
Confidence             3222334667888899999999999998888765431     1 12222 34667778899999999999999876542


Q ss_pred             ---CCCCC----cchHHHHHHHHHhcCChHHHHHHHHHHHHC-----C--CCccHHHHHHHHHHHHhcCCcchHHHHHHH
Q 048737          166 ---EWQPT----PLNCATAITMLLDADEPEFAIEIWNYILEN-----G--ILPLEASANVLLVGLRNLGRLSDVRRFAEE  231 (274)
Q Consensus       166 ---~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  231 (274)
                         -..++    ..+++.|...|...|++++|.+++++....     |  ..-....++.+...|.+.+++.+|.++|.+
T Consensus       355 ~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~  434 (508)
T KOG1840|consen  355 YLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEE  434 (508)
T ss_pred             HHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHH
Confidence               11222    357899999999999999999999987742     1  112245678888999999999999999888


Q ss_pred             HHh----CCC--ccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          232 MLN----RRI--LIYDVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       232 m~~----~~~--~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      ...    .|.  +-...+|..|...|.+.|+.  |.++.+.+.+.++
T Consensus       435 ~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~~~  481 (508)
T KOG1840|consen  435 AKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNARE  481 (508)
T ss_pred             HHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHH
Confidence            543    222  22346789999999999999  8888888876554

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

Probab=99.41  E-value=4.6e-11  Score=90.17  Aligned_cols=224  Identities=13%  Similarity=0.127  Sum_probs=186.4

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|.+.+|.+-|+.-...   .| -+.+|..|..+|.+-.++..|+.++.+-.+. ++.|........+.+-..++.+
T Consensus       233 ylrLgm~r~AekqlqssL~q---~~-~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~~~~  307 (478)
T KOG1129|consen  233 YLRLGMPRRAEKQLQSSLTQ---FP-HPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAMEQQE  307 (478)
T ss_pred             HHHhcChhhhHHHHHHHhhc---CC-chhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHHhHH
Confidence            55778899999999887765   66 6789999999999999999999999887764 4445555566778888889999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHE  161 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (274)
                      +|.++|+...+..   +.++.....+...|.-.++++-|+.+|+++++.|+. +...|+.+.-+|...++++-++.-|.+
T Consensus       308 ~a~~lYk~vlk~~---~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~R  383 (478)
T KOG1129|consen  308 DALQLYKLVLKLH---PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQR  383 (478)
T ss_pred             HHHHHHHHHHhcC---CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHH
Confidence            9999999999875   667788888888888889999999999999999875 788899888889999999999999998


Q ss_pred             HHhCCCCCC--cchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          162 MIKNEWQPT--PLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       162 ~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      ....-..|+  ...|-.+-......||+..|.+.|+-....+. -+...+|.|.-.-.+.|++++|..++......
T Consensus       384 Alstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~-~h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  384 ALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDA-QHGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCc-chHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            887654454  35788888888889999999999998887664 56678888888888999999999999877654

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

Probab=99.40  E-value=1.5e-09  Score=78.23  Aligned_cols=191  Identities=13%  Similarity=0.109  Sum_probs=88.2

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHH
Q 048737           32 YETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLL  111 (274)
Q Consensus        32 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~  111 (274)
                      ...|.-.|.+.|+...|.+-+++.++.+ +-+..++..+...|.+.|+.+.|.+.|++..+..   +.+..+.|.....+
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~---p~~GdVLNNYG~FL  113 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA---PNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC---CCccchhhhhhHHH
Confidence            3344444555555555555555555432 2233444445555555555555555555555443   33444455555555


Q ss_pred             HhcCChhhHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHH
Q 048737          112 CNNNDVDNVFRFFDQMVFHGAFP-DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFA  190 (274)
Q Consensus       112 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  190 (274)
                      |..|++++|...|++....-.-| -..+|..+.-+..+.|+++.|...|++.++.. +-...+...+.+...+.|++-.|
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHH
Confidence            55555555555555544331111 12344444444444555555555555544432 11233444444444555555555


Q ss_pred             HHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHH
Q 048737          191 IEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRF  228 (274)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  228 (274)
                      ...++.....+. ++..+.-..|+.-...|+-+.+-+.
T Consensus       193 r~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y  229 (250)
T COG3063         193 RLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRY  229 (250)
T ss_pred             HHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHH
Confidence            555544444433 4444444444444444444444443

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

Probab=99.39  E-value=5.2e-10  Score=80.52  Aligned_cols=201  Identities=9%  Similarity=-0.007  Sum_probs=169.2

Q ss_pred             CcccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCh
Q 048737            1 GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDS   80 (274)
Q Consensus         1 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   80 (274)
                      +|.+.|+...|.+-+++..+.   .|.+..+|..+...|.+.|+.+.|.+.|++..+.. +-+..+.|.....+|..|.+
T Consensus        44 ~YL~~gd~~~A~~nlekAL~~---DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~qg~~  119 (250)
T COG3063          44 GYLQQGDYAQAKKNLEKALEH---DPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQGRP  119 (250)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhCCCh
Confidence            477899999999999999776   89899999999999999999999999999998853 44567889999999999999


Q ss_pred             hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHH
Q 048737           81 THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFH  160 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (274)
                      ++|...|++....-. +..-..+|..+.-+..+.|+.+.|...|++.++... -...+.-.+.......|++..|..+++
T Consensus       120 ~eA~q~F~~Al~~P~-Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp-~~~~~~l~~a~~~~~~~~y~~Ar~~~~  197 (250)
T COG3063         120 EEAMQQFERALADPA-YGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDP-QFPPALLELARLHYKAGDYAPARLYLE  197 (250)
T ss_pred             HHHHHHHHHHHhCCC-CCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCc-CCChHHHHHHHHHHhcccchHHHHHHH
Confidence            999999999987531 333467899999999999999999999999988642 246778888999999999999999999


Q ss_pred             HHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHH
Q 048737          161 EMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASAN  210 (274)
Q Consensus       161 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  210 (274)
                      .....+. ++..+.-..|+.-...|+-+.+-+.=..+... + |...-|.
T Consensus       198 ~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~-f-P~s~e~q  244 (250)
T COG3063         198 RYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL-F-PYSEEYQ  244 (250)
T ss_pred             HHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh-C-CCcHHHH
Confidence            9988764 88888888889889999999888766666553 3 5444443

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

Probab=99.36  E-value=2.6e-10  Score=90.45  Aligned_cols=219  Identities=11%  Similarity=0.125  Sum_probs=176.5

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhH
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHT   83 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   83 (274)
                      -.|+.-.|.+-|+.....   .|.+...|--+...|+...+.++....|+.....+ +-++.+|..-.....-.++++.|
T Consensus       338 L~g~~~~a~~d~~~~I~l---~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKL---DPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hcCCchhhhhhHHHHHhc---CcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHH
Confidence            357888899999988665   66556568888899999999999999999988764 45677888888888888999999


Q ss_pred             HHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737           84 VQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      ..=|+..+...   +.+...|-.+.-+..+.++++++...|++..++ ++--+..|+.....+...+++++|.+.|+..+
T Consensus       414 ~aDF~Kai~L~---pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai  489 (606)
T KOG0547|consen  414 IADFQKAISLD---PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAI  489 (606)
T ss_pred             HHHHHHHhhcC---hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHH
Confidence            99999999876   556778888888888999999999999999876 55558899999999999999999999999988


Q ss_pred             hCCCCCC-------cchH--HHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          164 KNEWQPT-------PLNC--ATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       164 ~~~~~~~-------~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      +.  .|+       ...+  -.++.. .=.+++..|..++++..+.+. -....|..|...-.+.|+.++|+++|++-..
T Consensus       490 ~L--E~~~~~~~v~~~plV~Ka~l~~-qwk~d~~~a~~Ll~KA~e~Dp-kce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  490 EL--EPREHLIIVNAAPLVHKALLVL-QWKEDINQAENLLRKAIELDP-KCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             hh--ccccccccccchhhhhhhHhhh-chhhhHHHHHHHHHHHHccCc-hHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            74  233       1111  111111 123899999999999988764 3457889999999999999999999998654

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.35  E-value=9.1e-10  Score=86.23  Aligned_cols=196  Identities=12%  Similarity=-0.017  Sum_probs=142.6

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|+.++|...|++..+.   .|+++.+|+.+...+...|++++|+..|++..+.. +-+..++..+..++...|+++
T Consensus        74 ~~~~g~~~~A~~~~~~Al~l---~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~  149 (296)
T PRK11189         74 YDSLGLRALARNDFSQALAL---RPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAYLNRGIALYYGGRYE  149 (296)
T ss_pred             HHHCCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHH
Confidence            45679999999999999765   89899999999999999999999999999998753 334678888899999999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHE  161 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (274)
                      +|.+.|++..+..    |+..............++.++|...|.+.... ..|+...+   .......|+...+ ..+..
T Consensus       150 eA~~~~~~al~~~----P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~-~~~~~~~~---~~~~~~lg~~~~~-~~~~~  220 (296)
T PRK11189        150 LAQDDLLAFYQDD----PNDPYRALWLYLAESKLDPKQAKENLKQRYEK-LDKEQWGW---NIVEFYLGKISEE-TLMER  220 (296)
T ss_pred             HHHHHHHHHHHhC----CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh-CCccccHH---HHHHHHccCCCHH-HHHHH
Confidence            9999999999865    43222222233345567899999999775543 22332222   2233345666554 35555


Q ss_pred             HHhCC-----CCC-CcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHH
Q 048737          162 MIKNE-----WQP-TPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANV  211 (274)
Q Consensus       162 ~~~~~-----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  211 (274)
                      +.+..     ..| ....|..+...+.+.|++++|...|++..+.++ |+..-+..
T Consensus       221 ~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~-~~~~e~~~  275 (296)
T PRK11189        221 LKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV-YNFVEHRY  275 (296)
T ss_pred             HHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-chHHHHHH
Confidence            54321     111 235788999999999999999999999998764 45444443

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.34  E-value=5.8e-10  Score=91.59  Aligned_cols=231  Identities=13%  Similarity=0.087  Sum_probs=171.5

Q ss_pred             cccccchHHHHHHHHHHHhc----cCCCCchHh-HHHHHHHHHhccCcHHHHHHHHHHHhcC---CCCCC----HHHHHH
Q 048737            2 WEKEGNVVEANKTFGEMVER----FEWNPEHVL-AYETFLITLIRGKQVDEALKFLRVMKGE---NCFPT----LKFFSN   69 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~----~~~~p~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~----~~~~~~   69 (274)
                      |+..|+++.|+.++++..+.    .|.....+. ..+.+...|...+++++|..+|+++...   ..-++    ..+++.
T Consensus       209 y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~n  288 (508)
T KOG1840|consen  209 YAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNN  288 (508)
T ss_pred             HHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            67889999999999876542    232222333 3445788899999999999999998752   11122    456777


Q ss_pred             HHHHHHhCCChhhHHHHHHHHHhc-----CCccCccH-HhHHHHHHHHHhcCChhhHHHHHHHHHhc---CCCCC----h
Q 048737           70 ALDILVKLNDSTHTVQLWDIMVGI-----GFNLMPNL-IMYNAVVGLLCNNNDVDNVFRFFDQMVFH---GAFPD----S  136 (274)
Q Consensus        70 l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~----~  136 (274)
                      |..+|.+.|++++|...++++.+.     +. ..|.+ ..++.+...+...+++++|..+++...+.   -+.++    .
T Consensus       289 La~ly~~~GKf~EA~~~~e~Al~I~~~~~~~-~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a  367 (508)
T KOG1840|consen  289 LAVLYYKQGKFAEAEEYCERALEIYEKLLGA-SHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLA  367 (508)
T ss_pred             HHHHHhccCChHHHHHHHHHHHHHHHHhhcc-ChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHH
Confidence            888899999999999888887642     10 12333 34677778899999999999999876542   12222    4


Q ss_pred             hhHHHHHHHHHhcCCHhHHHHHHHHHHhC----CC--CC-CcchHHHHHHHHHhcCChHHHHHHHHHHHH----CCC--C
Q 048737          137 LTYNMIFECLIKNKKVHEVENFFHEMIKN----EW--QP-TPLNCATAITMLLDADEPEFAIEIWNYILE----NGI--L  203 (274)
Q Consensus       137 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~--~  203 (274)
                      .+++.|...|...|++++|.+++++.+..    +-  .+ ....++.+...|.+.+.++.|.++|.+...    .|.  +
T Consensus       368 ~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~  447 (508)
T KOG1840|consen  368 KIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHP  447 (508)
T ss_pred             HHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCC
Confidence            67899999999999999999999998653    11  12 234678888999999999999999887553    232  2


Q ss_pred             ccHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 048737          204 PLEASANVLLVGLRNLGRLSDVRRFAEEML  233 (274)
Q Consensus       204 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  233 (274)
                      -...+|..|...|...|++++|.++.+...
T Consensus       448 ~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  448 DVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             chHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            235779999999999999999999988875

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

Probab=99.32  E-value=8.9e-09  Score=87.38  Aligned_cols=247  Identities=12%  Similarity=0.054  Sum_probs=136.3

Q ss_pred             cchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHH----HHHHHHHHhCCChh
Q 048737            6 GNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFF----SNALDILVKLNDST   81 (274)
Q Consensus         6 g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~   81 (274)
                      |.+++|.-.|.+..+.   .|.+...+-.-+..|-+.|+...|.+-|.++.+..-+.|..-+    ...++.+...++-+
T Consensus       221 ~~i~qA~~cy~rAI~~---~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e  297 (895)
T KOG2076|consen  221 GNINQARYCYSRAIQA---NPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERE  297 (895)
T ss_pred             ccHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHH
Confidence            4444555555544433   4444444444444555555555555555555443211111111    12234444444455


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC---------------------------
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP---------------------------  134 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------------------------  134 (274)
                      .|.+.++.....+. -..+...+++++..|.+..+++.|......+......+                           
T Consensus       298 ~a~~~le~~~s~~~-~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~  376 (895)
T KOG2076|consen  298 RAAKALEGALSKEK-DEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSY  376 (895)
T ss_pred             HHHHHHHHHHhhcc-ccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCc
Confidence            55555555544211 13344556667777777777777766665554311111                           


Q ss_pred             ------------------------------------ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHH
Q 048737          135 ------------------------------------DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAI  178 (274)
Q Consensus       135 ------------------------------------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  178 (274)
                                                          +...|.-+..+|...|++.+|+.+|..+......-+...|-.+.
T Consensus       377 ~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a  456 (895)
T KOG2076|consen  377 DLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLA  456 (895)
T ss_pred             cchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHH
Confidence                                                11233455566777777777777777777654444556777777


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHh--------CCCccCHHHHHHHHHH
Q 048737          179 TMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLN--------RRILIYDVTMQKLKKA  250 (274)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~--------~~~~~~~~~~~~l~~~  250 (274)
                      .+|...|..+.|.+.|...+.... .+...--.|...+.+.|+.++|.+++..+..        .+..|+..........
T Consensus       457 ~c~~~l~e~e~A~e~y~kvl~~~p-~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~  535 (895)
T KOG2076|consen  457 RCYMELGEYEEAIEFYEKVLILAP-DNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDI  535 (895)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhcCC-CchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHH
Confidence            777777777777777777776542 3445555566667777888877777777542        2345555555555566


Q ss_pred             HHhcChh
Q 048737          251 FYNESRS  257 (274)
Q Consensus       251 ~~~~g~~  257 (274)
                      +.+.|+.
T Consensus       536 l~~~gk~  542 (895)
T KOG2076|consen  536 LFQVGKR  542 (895)
T ss_pred             HHHhhhH
Confidence            6666654

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

Probab=99.32  E-value=1.1e-08  Score=82.53  Aligned_cols=260  Identities=9%  Similarity=-0.019  Sum_probs=158.7

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHH---HHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCC
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYET---FLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLND   79 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~---li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   79 (274)
                      ...|++++|.+.+++..+.   .|++...+..   ........+..+.+.+.+... ....+........+...+...|+
T Consensus        54 ~~~g~~~~A~~~~~~~l~~---~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~~~~~~a~~~~~~G~  129 (355)
T cd05804          54 WIAGDLPKALALLEQLLDD---YPRDLLALKLHLGAFGLGDFSGMRDHVARVLPLW-APENPDYWYLLGMLAFGLEEAGQ  129 (355)
T ss_pred             HHcCCHHHHHHHHHHHHHH---CCCcHHHHHHhHHHHHhcccccCchhHHHHHhcc-CcCCCCcHHHHHHHHHHHHHcCC
Confidence            4568899999999988776   7767666552   222223345555666665541 11122233444566677888999


Q ss_pred             hhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCC-CCCh--hhHHHHHHHHHhcCCHhHHH
Q 048737           80 STHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGA-FPDS--LTYNMIFECLIKNKKVHEVE  156 (274)
Q Consensus        80 ~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~li~~~~~~~~~~~a~  156 (274)
                      ++.|...+++..+..   +.+...+..+..++...|++++|...+++...... .|+.  ..|..+...+...|++++|.
T Consensus       130 ~~~A~~~~~~al~~~---p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~  206 (355)
T cd05804         130 YDRAEEAARRALELN---PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAAL  206 (355)
T ss_pred             HHHHHHHHHHHHhhC---CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHH
Confidence            999999999999875   55677788888999999999999999998876532 1222  34556788889999999999


Q ss_pred             HHHHHHHhCCC-CCCcchH-H--HHHHHHHhcCChHHHHHH--H-HHHHHCCC-CccHHHHHHHHHHHHhcCCcchHHHH
Q 048737          157 NFFHEMIKNEW-QPTPLNC-A--TAITMLLDADEPEFAIEI--W-NYILENGI-LPLEASANVLLVGLRNLGRLSDVRRF  228 (274)
Q Consensus       157 ~~~~~~~~~~~-~~~~~~~-~--~l~~~~~~~~~~~~a~~~--~-~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~  228 (274)
                      .++++...... .+..... +  .++..+...|..+.+.++  + ........ ............++...|+.++|..+
T Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~  286 (355)
T cd05804         207 AIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKL  286 (355)
T ss_pred             HHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHH
Confidence            99998864321 1111111 1  233334444544433333  1 11111100 11112222466677888999999999


Q ss_pred             HHHHHhCCCc------cCHHHHHHHHH--HHHhcChh--HHHHHHHHHHHh
Q 048737          229 AEEMLNRRIL------IYDVTMQKLKK--AFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       229 ~~~m~~~~~~------~~~~~~~~l~~--~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      ++.+......      ....+-..++.  ++...|+.  |.+.+..++...
T Consensus       287 L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         287 LAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            9888663222      11122222333  33466766  888887777655

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.

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

Probab=99.28  E-value=1.6e-09  Score=92.54  Aligned_cols=236  Identities=9%  Similarity=0.051  Sum_probs=186.5

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHH
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTV   84 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   84 (274)
                      .++++.|.+.|..+...   .|.-+..|-.+.......+...+|..+++.....+ ..++..+..+...+.+...+..|.
T Consensus       509 l~~~~~A~e~Yk~Ilke---hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~  584 (1018)
T KOG2002|consen  509 LHDTEVAEEMYKSILKE---HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAK  584 (1018)
T ss_pred             hhhhhHHHHHHHHHHHH---CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccc
Confidence            46788999999999887   88667777777755566688999999999988753 556677777888999999999999


Q ss_pred             HHHHHHHhcCCccCccHHhHHHHHHHHHh------------cCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH
Q 048737           85 QLWDIMVGIGFNLMPNLIMYNAVVGLLCN------------NNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKV  152 (274)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  152 (274)
                      +-|+.+.+.-. ..+|..+.-.|.+.|.+            .+..++|+++|.+.++..+ .|..+-|-+...+...|++
T Consensus       585 k~f~~i~~~~~-~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dp-kN~yAANGIgiVLA~kg~~  662 (1018)
T KOG2002|consen  585 KKFETILKKTS-TKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDP-KNMYAANGIGIVLAEKGRF  662 (1018)
T ss_pred             cHHHHHHhhhc-cCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCc-chhhhccchhhhhhhccCc
Confidence            98888776542 23566666666665553            2456889999999988743 4788888898999999999


Q ss_pred             hHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCccHHHHHHHHHHHHhcCCcchHHHHHHH
Q 048737          153 HEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILEN-GILPLEASANVLLVGLRNLGRLSDVRRFAEE  231 (274)
Q Consensus       153 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  231 (274)
                      .+|..+|.+.++... -+..+|..+.++|...|++..|++.|+...+. ...-+..+.+.|.+++.+.|++.+|.+.+..
T Consensus       663 ~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~  741 (1018)
T KOG2002|consen  663 SEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLK  741 (1018)
T ss_pred             hHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            999999999998753 35668899999999999999999999987764 4455678889999999999999999999888


Q ss_pred             HHhCCCccCHHHHHHH
Q 048737          232 MLNRRILIYDVTMQKL  247 (274)
Q Consensus       232 m~~~~~~~~~~~~~~l  247 (274)
                      .......-....|+..
T Consensus       742 a~~~~p~~~~v~FN~a  757 (1018)
T KOG2002|consen  742 ARHLAPSNTSVKFNLA  757 (1018)
T ss_pred             HHHhCCccchHHhHHH
Confidence            7776544444445543

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

Probab=99.26  E-value=3.9e-08  Score=81.14  Aligned_cols=255  Identities=10%  Similarity=-0.036  Sum_probs=194.7

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.+.++-|..+|....+-   .|.+...|...+..--..|..++...+|++.... ++-....|......+-..|++.
T Consensus       526 ~~k~~~~~carAVya~alqv---fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~w~agdv~  601 (913)
T KOG0495|consen  526 CEKRPAIECARAVYAHALQV---FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVP  601 (913)
T ss_pred             HHhcchHHHHHHHHHHHHhh---ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcH
Confidence            44566777788888877554   7777778888877777788888888888888875 4445556666667777789999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHE  161 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (274)
                      .|..++.++.+..   +.+...|..-+..-....+++.|..+|.+....  .|+...|.--+..-...++.++|.+++++
T Consensus       602 ~ar~il~~af~~~---pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe  676 (913)
T KOG0495|consen  602 AARVILDQAFEAN---PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEE  676 (913)
T ss_pred             HHHHHHHHHHHhC---CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHH
Confidence            9999999998875   557788888899999999999999999988764  57777887777777777888999999988


Q ss_pred             HHhCCCCCC-cchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccC
Q 048737          162 MIKNEWQPT-PLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY  240 (274)
Q Consensus       162 ~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  240 (274)
                      .++.  -|+ ...|..+.+.+-+.++++.|...|..-.+. .+-.+..|-.+...--+.|..-.|..+++...-++.. +
T Consensus       677 ~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk-~  752 (913)
T KOG0495|consen  677 ALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPK-N  752 (913)
T ss_pred             HHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCC-c
Confidence            8774  355 346777778888888888888887654432 3334566777777777888888999999888776533 6


Q ss_pred             HHHHHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          241 DVTMQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       241 ~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      ...|...|+.=.+.|..  |+.+..++++..
T Consensus       753 ~~lwle~Ir~ElR~gn~~~a~~lmakALQec  783 (913)
T KOG0495|consen  753 ALLWLESIRMELRAGNKEQAELLMAKALQEC  783 (913)
T ss_pred             chhHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            77888888888888877  777777666554

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

Probab=99.26  E-value=1.3e-08  Score=90.12  Aligned_cols=232  Identities=10%  Similarity=0.108  Sum_probs=188.5

Q ss_pred             HHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC-----HHHHHHHHHHHHhCCChhhHHHHHH
Q 048737           14 TFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT-----LKFFSNALDILVKLNDSTHTVQLWD   88 (274)
Q Consensus        14 ~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~   88 (274)
                      =|+++...   .|++...|-..+....+.++.++|.+++++.+.. +.+.     ...|.++++.-..-|.-+...++|+
T Consensus      1446 Dferlvrs---sPNSSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFe 1521 (1710)
T KOG1070|consen 1446 DFERLVRS---SPNSSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFE 1521 (1710)
T ss_pred             HHHHHHhc---CCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHH
Confidence            34454444   7878889999999999999999999999999864 3332     3467778887777788899999999


Q ss_pred             HHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCC
Q 048737           89 IMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQ  168 (274)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  168 (274)
                      ++.+..    ....+|..|...|.+.++.++|.++++.|.+. +.-....|...+..+.+..+-++|..++.+.++.  -
T Consensus      1522 RAcqyc----d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--l 1594 (1710)
T KOG1070|consen 1522 RACQYC----DAYTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--L 1594 (1710)
T ss_pred             HHHHhc----chHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--c
Confidence            999854    34567899999999999999999999999886 4457889999999999999999999999998874  3


Q ss_pred             CC---cchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCH--HH
Q 048737          169 PT---PLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYD--VT  243 (274)
Q Consensus       169 ~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~--~~  243 (274)
                      |.   .......+..-.+.|+.+.+..+|+......+ --...|+.++..-.++|+.+.+..+|++.+..++.|-.  ..
T Consensus      1595 Pk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayP-KRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKff 1673 (1710)
T KOG1070|consen 1595 PKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYP-KRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFF 1673 (1710)
T ss_pred             chhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCc-cchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHH
Confidence            43   33445556666789999999999999887643 45679999999999999999999999999999887754  44


Q ss_pred             HHHHHHHHHhcChh
Q 048737          244 MQKLKKAFYNESRS  257 (274)
Q Consensus       244 ~~~l~~~~~~~g~~  257 (274)
                      |...+.-=.+.|+.
T Consensus      1674 fKkwLeyEk~~Gde 1687 (1710)
T KOG1070|consen 1674 FKKWLEYEKSHGDE 1687 (1710)
T ss_pred             HHHHHHHHHhcCch
Confidence            55666655566665

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

Probab=99.24  E-value=4.3e-08  Score=80.91  Aligned_cols=252  Identities=10%  Similarity=0.045  Sum_probs=183.3

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   82 (274)
                      ...|++..|..++.+..+.   .|.+...|..-+.....+.++++|..+|.+...  ..|+...|.--++.---.++.++
T Consensus       595 w~agdv~~ar~il~~af~~---~pnseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~ee  669 (913)
T KOG0495|consen  595 WKAGDVPAARVILDQAFEA---NPNSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEE  669 (913)
T ss_pred             HhcCCcHHHHHHHHHHHHh---CCCcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHH
Confidence            3568888888888888554   787888888888888999999999999988776  45777777777777777788888


Q ss_pred             HHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737           83 TVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      |.+++++.++.-   +.-.-.|-.+...+-+.++.+.|.+.|..-.+. ++-.+..|..+...=.+.|.+-.|..++++.
T Consensus       670 A~rllEe~lk~f---p~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildra  745 (913)
T KOG0495|consen  670 ALRLLEEALKSF---PDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRA  745 (913)
T ss_pred             HHHHHHHHHHhC---CchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHH
Confidence            888888888763   333556777778888888888888888776554 3334666777777777778888888888887


Q ss_pred             HhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHC----CC-------------------------CccHHHHHHHH
Q 048737          163 IKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILEN----GI-------------------------LPLEASANVLL  213 (274)
Q Consensus       163 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-------------------------~~~~~~~~~l~  213 (274)
                      +-.+ +-+...|-..|+.-.+.|+.+.|..+..+..+.    |+                         .-|..+.-.+.
T Consensus       746 rlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia  824 (913)
T KOG0495|consen  746 RLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIA  824 (913)
T ss_pred             HhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHH
Confidence            7654 456778888888888888888888776665432    11                         22345555666


Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHH
Q 048737          214 VGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSL  265 (274)
Q Consensus       214 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~  265 (274)
                      ..|-...++++|.+.|.+..+.+-. +-.+|..+..-..+.|..  -.+++...
T Consensus       825 ~lfw~e~k~~kar~Wf~Ravk~d~d-~GD~wa~fykfel~hG~eed~kev~~~c  877 (913)
T KOG0495|consen  825 KLFWSEKKIEKAREWFERAVKKDPD-NGDAWAWFYKFELRHGTEEDQKEVLKKC  877 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHccCCc-cchHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            6677778888888888888776422 446777777777777743  44444443

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

Probab=99.24  E-value=6.4e-09  Score=84.06  Aligned_cols=222  Identities=10%  Similarity=-0.001  Sum_probs=144.3

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhH
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMY  104 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  104 (274)
                      .|..+.+|-++.-.|...|+.++|.+.|.+...-+ +.=...|....+.++..+..++|...|..+.+.-   +-....+
T Consensus       308 yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~---~G~hlP~  383 (611)
T KOG1173|consen  308 YPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM---PGCHLPS  383 (611)
T ss_pred             CCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc---cCCcchH
Confidence            45555666666666666666666666666554322 1112345566666666666666666666655431   1111122


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC--CC---C-CCcchHHHHH
Q 048737          105 NAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN--EW---Q-PTPLNCATAI  178 (274)
Q Consensus       105 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~---~-~~~~~~~~l~  178 (274)
                      --+.--|.+.++.+.|.++|.+.... .+-|+...+.+.-.....+.+.+|..+|...+..  .+   + .-..+++.|.
T Consensus       384 LYlgmey~~t~n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLG  462 (611)
T KOG1173|consen  384 LYLGMEYMRTNNLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLG  462 (611)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHH
Confidence            22333466677777888888777664 2335677777766666777888888888877621  01   1 1234678888


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhc
Q 048737          179 TMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNE  254 (274)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~  254 (274)
                      .+|.+.+.+++|+..+++..... +.+..++.++.-.|...|+++.|.+.|.+..-  +.|+..+...++..+...
T Consensus       463 H~~Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~aie~  535 (611)
T KOG1173|consen  463 HAYRKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLAIED  535 (611)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHHHHh
Confidence            88889999999999888888764 36777888888888888999999998887664  477777777777665544

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

Probab=99.24  E-value=9.8e-09  Score=83.02  Aligned_cols=253  Identities=11%  Similarity=0.030  Sum_probs=196.9

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhH
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHT   83 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   83 (274)
                      ..+++.+..++++.+.+.   .|.....+..-|..+...|+..+...+=.++.+. .|-.+.+|-++.--|.-.|...+|
T Consensus       256 ~~c~f~~c~kit~~lle~---dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i~k~seA  331 (611)
T KOG1173|consen  256 YGCRFKECLKITEELLEK---DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMIGKYSEA  331 (611)
T ss_pred             HcChHHHHHHHhHHHHhh---CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHhcCcHHH
Confidence            457889999999998776   5556667777778888889888888887888775 355678899998888888999999


Q ss_pred             HHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737           84 VQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      ++.|.+....+   +.=...|-.+..+|.-.+.-|.|...+...-+. ++-...-+--+.--|.+.++.+-|.++|....
T Consensus       332 Rry~SKat~lD---~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~  407 (611)
T KOG1173|consen  332 RRYFSKATTLD---PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQAL  407 (611)
T ss_pred             HHHHHHHhhcC---ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            99999998765   233568999999999999999999998877653 22222223334456888999999999999887


Q ss_pred             hCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHC----C--CCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCC
Q 048737          164 KNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILEN----G--ILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRI  237 (274)
Q Consensus       164 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  237 (274)
                      ... +.|+...+-+.-.....+.+.+|..+|+..+..    +  ..--..+++.|-.+|.+.+.+++|+..+++.+... 
T Consensus       408 ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-  485 (611)
T KOG1173|consen  408 AIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-  485 (611)
T ss_pred             hcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-
Confidence            642 345677777777777789999999999887631    1  11244678899999999999999999999988774 


Q ss_pred             ccCHHHHHHHHHHHHhcChh--HHHHHHHHH
Q 048737          238 LIYDVTMQKLKKAFYNESRS--MRDRFDSLE  266 (274)
Q Consensus       238 ~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~  266 (274)
                      +-+..+|.++.-.+...|+.  |.+.|.+.+
T Consensus       486 ~k~~~~~asig~iy~llgnld~Aid~fhKaL  516 (611)
T KOG1173|consen  486 PKDASTHASIGYIYHLLGNLDKAIDHFHKAL  516 (611)
T ss_pred             CCchhHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            44888999998888888887  777666554

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

Probab=99.23  E-value=3.9e-09  Score=83.45  Aligned_cols=207  Identities=14%  Similarity=0.124  Sum_probs=165.4

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhH
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHT   83 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   83 (274)
                      ..|++++|.+.|.+....   ....+.+...+.-.+-..|+.++|++.|-++..- +.-+...+..+.+.|-...+...|
T Consensus       502 ~ngd~dka~~~ykeal~n---dasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqa  577 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNN---DASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQA  577 (840)
T ss_pred             ecCcHHHHHHHHHHHHcC---chHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHH
Confidence            368999999999998775   2223334444555677889999999999887653 334677778888899999999999


Q ss_pred             HHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737           84 VQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      .+++-+....   ++.|+.+.+.|...|-+.|+...|...+-+--.- ++-+..+..-|...|....-+++++.+|++..
T Consensus       578 ie~~~q~~sl---ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaa  653 (840)
T KOG2003|consen  578 IELLMQANSL---IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAA  653 (840)
T ss_pred             HHHHHHhccc---CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            9999888765   5778999999999999999999999876554433 45577888888888888888999999999876


Q ss_pred             hCCCCCCcchHHHHHHHHH-hcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCC
Q 048737          164 KNEWQPTPLNCATAITMLL-DADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGR  221 (274)
Q Consensus       164 ~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  221 (274)
                      -  +.|+..-|..++..|. +.|++.+|.++|+..... ++-|......|++.+...|.
T Consensus       654 l--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  654 L--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             h--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            5  6799999998876664 579999999999988764 66788888889888877764

>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=3.2e-08  Score=82.28  Aligned_cols=227  Identities=17%  Similarity=0.148  Sum_probs=161.0

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhcc-----CcHHHHHHHHHHHhcCC---CCC-----------
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRG-----KQVDEALKFLRVMKGEN---CFP-----------   62 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~-----~~~~~a~~~~~~~~~~~---~~~-----------   62 (274)
                      |.+.|+.++|..+|..+.++   .|+|...|..+..+..-.     .+.+...++|+++...-   ..|           
T Consensus        48 l~kLg~~~eA~~~y~~Li~r---NPdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~  124 (517)
T PF12569_consen   48 LLKLGRKEEAEKIYRELIDR---NPDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGD  124 (517)
T ss_pred             HHHcCCHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhCccccchhHhhcccCCHH
Confidence            45789999999999999888   998888888888777332     35677778887775431   001           


Q ss_pred             -----------------CHHHHHHHHHHHHhCCChhhHHHHHHHHHhc----CC--------ccCccHH--hHHHHHHHH
Q 048737           63 -----------------TLKFFSNALDILVKLNDSTHTVQLWDIMVGI----GF--------NLMPNLI--MYNAVVGLL  111 (274)
Q Consensus        63 -----------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~--------~~~~~~~--~~~~l~~~~  111 (274)
                                       -+.+|..|-..|......+-..+++......    +.        .-+|+..  ++.-+...|
T Consensus       125 ~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhy  204 (517)
T PF12569_consen  125 EFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHY  204 (517)
T ss_pred             HHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHH
Confidence                             1123334444444333444444555544322    10        1234443  446667889


Q ss_pred             HhcCChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHH
Q 048737          112 CNNNDVDNVFRFFDQMVFHGAFPD-SLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFA  190 (274)
Q Consensus       112 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  190 (274)
                      ...|++++|++++++..+.  .|+ +..|..-...+-+.|++.+|.+.++..++.. .-|...-+-.+..+.+.|++++|
T Consensus       205 d~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A  281 (517)
T PF12569_consen  205 DYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEA  281 (517)
T ss_pred             HHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHH
Confidence            9999999999999999886  455 7788899999999999999999999998865 35666777788899999999999


Q ss_pred             HHHHHHHHHCCCCccH--------HHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          191 IEIWNYILENGILPLE--------ASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       191 ~~~~~~~~~~~~~~~~--------~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      ..++......+..|..        ........+|.+.|++..|+.-|..+.+
T Consensus       282 ~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  282 EKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            9999988876643332        1224456788999999988877666544

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=99.19  E-value=7.6e-08  Score=76.66  Aligned_cols=251  Identities=10%  Similarity=0.098  Sum_probs=189.8

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC-HHHHHHHHHHHHhCCChhhH
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT-LKFFSNALDILVKLNDSTHT   83 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a   83 (274)
                      .+++..|..+|++....   ...+...|..-+..-.+++++..|..++++....  -|. ...|--.+..=-..|++..|
T Consensus        86 q~e~~RARSv~ERALdv---d~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymEE~LgNi~ga  160 (677)
T KOG1915|consen   86 QKEIQRARSVFERALDV---DYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYMEEMLGNIAGA  160 (677)
T ss_pred             HHHHHHHHHHHHHHHhc---ccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHHHHhcccHHH
Confidence            46788999999998664   4557888999999999999999999999998864  343 33455556666678999999


Q ss_pred             HHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737           84 VQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      .++|++..+    ..|+...|++.++.=.+-...+.|..+|++..-  +.|++.+|......=.+.|+...+..+|+..+
T Consensus       161 RqiferW~~----w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAi  234 (677)
T KOG1915|consen  161 RQIFERWME----WEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAI  234 (677)
T ss_pred             HHHHHHHHc----CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            999999998    469999999999999999999999999999987  46999999999999999999999999999987


Q ss_pred             hC-CC-CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCcc--HHHHHHHHHHHHhcCCcchHHHH--------HHH
Q 048737          164 KN-EW-QPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPL--EASANVLLVGLRNLGRLSDVRRF--------AEE  231 (274)
Q Consensus       164 ~~-~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~--------~~~  231 (274)
                      +. |- .-+...+.++..-=..+..++.|..+|+..++.-. .+  ...|..+...--+.|+.....+.        ++.
T Consensus       235 e~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~p-k~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~  313 (677)
T KOG1915|consen  235 EFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIP-KGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEK  313 (677)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHH
Confidence            64 21 11223444444444566788899999988887532 22  34555555554555665544443        444


Q ss_pred             HHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          232 MLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       232 m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                      +.+.+ +.|..+|--.++.-...|+.  .+++++.++..
T Consensus       314 ~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan  351 (677)
T KOG1915|consen  314 EVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN  351 (677)
T ss_pred             HHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc
Confidence            44443 45777777788877777776  78888877754

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

Probab=99.17  E-value=9.7e-08  Score=81.98  Aligned_cols=259  Identities=11%  Similarity=0.013  Sum_probs=164.3

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccC---cHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCC
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGK---QVDEALKFLRVMKGENCFPTLKFFSNALDILVKLND   79 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   79 (274)
                      .+.|+.+.|+..|.+..+-   .|.++.++..|.-.-....   .+..+..++...-..+ +-++...+.|.+.|.-.|+
T Consensus       210 ~kl~~~~~a~~a~~ralqL---dp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~d  285 (1018)
T KOG2002|consen  210 WKLGMSEKALLAFERALQL---DPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYFKKD  285 (1018)
T ss_pred             HhccchhhHHHHHHHHHhc---ChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhccc
Confidence            3556666666666666443   5555555444443333222   3344444444444322 3456667777788888888


Q ss_pred             hhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHH
Q 048737           80 STHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFF  159 (274)
Q Consensus        80 ~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  159 (274)
                      +..+..+...+.....+-..-...|-.+.++|-..|++++|...|.+..+....--+..+.-+.+.|.+.|+++.+...|
T Consensus       286 y~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~f  365 (1018)
T KOG2002|consen  286 YERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCF  365 (1018)
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHH
Confidence            88888888877765311112244577788888888888888888888776532211344556778888888888888888


Q ss_pred             HHHHhCCCCCCcchHHHHHHHHHhcC----ChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHH---
Q 048737          160 HEMIKNEWQPTPLNCATAITMLLDAD----EPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEM---  232 (274)
Q Consensus       160 ~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m---  232 (274)
                      +...+.. +.+..+...|...|...+    ..+.|..++.+..+.- +.|...|-.+...+-...- ..++.+|...   
T Consensus       366 Ekv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~-~~sL~~~~~A~d~  442 (1018)
T KOG2002|consen  366 EKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDP-WASLDAYGNALDI  442 (1018)
T ss_pred             HHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcCh-HHHHHHHHHHHHH
Confidence            8887753 334566666766666664    4566777776666644 3556667666666554433 3336655544   


Q ss_pred             -HhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          233 -LNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       233 -~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                       ...+-.+.+...+.+.......|.+  |...|......
T Consensus       443 L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~  481 (1018)
T KOG2002|consen  443 LESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGK  481 (1018)
T ss_pred             HHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhh
Confidence             3455567778888888888888887  77777777665

>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=99.15  E-value=8.5e-09  Score=79.91  Aligned_cols=243  Identities=14%  Similarity=0.103  Sum_probs=160.2

Q ss_pred             ccchHHHHHHHHHHHhccCCCC-chHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhH
Q 048737            5 EGNVVEANKTFGEMVERFEWNP-EHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHT   83 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   83 (274)
                      .|.+..++.-.+ ....   .| .+.....-+.+++...|+++.++   .+..... .|.......+...+...++-+.+
T Consensus        14 ~G~Y~~~i~e~~-~~~~---~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~   85 (290)
T PF04733_consen   14 LGNYQQCINEAS-LKSF---SPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESA   85 (290)
T ss_dssp             TT-HHHHCHHHH-CHTS---TCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCH
T ss_pred             hhhHHHHHHHhh-ccCC---CchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHH
Confidence            577888876655 3221   22 24455667788899999887554   4443333 66666666565555444555555


Q ss_pred             HHHHHHHHhcCCccC-ccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737           84 VQLWDIMVGIGFNLM-PNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus        84 ~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      ..-++......  .. .+..........+...|++++|++++.+.      .+.......+..|.+.++++.|.+.++.|
T Consensus        86 l~~l~~~~~~~--~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~  157 (290)
T PF04733_consen   86 LEELKELLADQ--AGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNM  157 (290)
T ss_dssp             HHHHHHCCCTS-----CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc--cccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            55555444333  22 23333333445677889999999988653      36677788899999999999999999999


Q ss_pred             HhCCCCCCcchHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCc
Q 048737          163 IKNEWQPTPLNCATAITMLLD----ADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRIL  238 (274)
Q Consensus       163 ~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  238 (274)
                      .+..   +..+...+..++..    .+.+..|..+|+++.+. ..+++.+.+.+..++...|++++|.+++.+..+.+. 
T Consensus       158 ~~~~---eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~-  232 (290)
T PF04733_consen  158 QQID---EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP-  232 (290)
T ss_dssp             HCCS---CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C-
T ss_pred             HhcC---CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc-
Confidence            8742   34455555555543    34689999999998664 567888999999999999999999999999877653 


Q ss_pred             cCHHHHHHHHHHHHhcChh---HHHHHHHHHHH
Q 048737          239 IYDVTMQKLKKAFYNESRS---MRDRFDSLERR  268 (274)
Q Consensus       239 ~~~~~~~~l~~~~~~~g~~---a~~~~~~~~~~  268 (274)
                      -++.|...++-+....|+.   +.+.+.++.+.
T Consensus       233 ~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  233 NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            3566777777777777766   66666665544

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.

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

Probab=99.15  E-value=2.7e-07  Score=73.62  Aligned_cols=257  Identities=14%  Similarity=0.121  Sum_probs=155.1

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHH
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTV   84 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   84 (274)
                      .|++..|.++|++..+   ..| +..+|++.|+.-.+-+.++.|..++++..-  +.|+..+|.-....=.+.|+...+.
T Consensus       154 LgNi~gaRqiferW~~---w~P-~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR  227 (677)
T KOG1915|consen  154 LGNIAGARQIFERWME---WEP-DEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALAR  227 (677)
T ss_pred             hcccHHHHHHHHHHHc---CCC-cHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHH
Confidence            4788999999998854   489 899999999999999999999999998875  4588777766655555555555555


Q ss_pred             HHHHHHHhcC----------------------------------------------------------------------
Q 048737           85 QLWDIMVGIG----------------------------------------------------------------------   94 (274)
Q Consensus        85 ~~~~~~~~~~----------------------------------------------------------------------   94 (274)
                      .+|+.+++.-                                                                      
T Consensus       228 ~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KR  307 (677)
T KOG1915|consen  228 SVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKR  307 (677)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhh
Confidence            5555444320                                                                      


Q ss_pred             --------CccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCCh--hhHHHH--------HHHHHhcCCHhHHH
Q 048737           95 --------FNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDS--LTYNMI--------FECLIKNKKVHEVE  156 (274)
Q Consensus        95 --------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l--------i~~~~~~~~~~~a~  156 (274)
                              ..-+.|-.+|--.++.-...|+.+...++|++.... ++|-.  ..|...        +-.=....+++.+.
T Consensus       308 k~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr  386 (677)
T KOG1915|consen  308 KFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTR  386 (677)
T ss_pred             hhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence                    011234556666666666778888888888887654 44421  111111        11112344555555


Q ss_pred             HHHHHHHh------------------------------------CCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 048737          157 NFFHEMIK------------------------------------NEWQPTPLNCATAITMLLDADEPEFAIEIWNYILEN  200 (274)
Q Consensus       157 ~~~~~~~~------------------------------------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  200 (274)
                      ++|...++                                    .|..|-..+|...|..=.+.+++|.+..++.+.++.
T Consensus       387 ~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~  466 (677)
T KOG1915|consen  387 QVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEF  466 (677)
T ss_pred             HHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            55554443                                    133444445555555555566666666666666665


Q ss_pred             CCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC-CccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          201 GILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRR-ILIYDVTMQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       201 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~-~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      ++ -|-.+|......-...|+.|.|..+|+-.+.+. .......+.+.|+-=...|..  |+.+++.++++-
T Consensus       467 ~P-e~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt  537 (677)
T KOG1915|consen  467 SP-ENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRT  537 (677)
T ss_pred             Ch-HhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhc
Confidence            53 344556666555566666777766666665542 112223344444444455555  666666666543

>PLN02789 farnesyltranstransferase

Probab=99.14  E-value=1.3e-07  Score=74.38  Aligned_cols=205  Identities=10%  Similarity=0.076  Sum_probs=136.5

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccC-cHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCh--
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGK-QVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDS--   80 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--   80 (274)
                      ..++.++|+.+.+++.+.   .|.+..+|+....++...| .+++++..++++.+.+ +-+..+|+...-.+.+.+..  
T Consensus        49 ~~e~serAL~lt~~aI~l---nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~  124 (320)
T PLN02789         49 SDERSPRALDLTADVIRL---NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAA  124 (320)
T ss_pred             cCCCCHHHHHHHHHHHHH---CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhh
Confidence            456777888888877655   7777778877777777776 5788888888887753 33455566554445555542  


Q ss_pred             hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc---CCH----h
Q 048737           81 THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKN---KKV----H  153 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---~~~----~  153 (274)
                      +.+..+++.+++..   +-|..+|+....++.+.|+++++++.++++++.++. |..+|+.....+.+.   |..    +
T Consensus       125 ~~el~~~~kal~~d---pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e  200 (320)
T PLN02789        125 NKELEFTRKILSLD---AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRD  200 (320)
T ss_pred             HHHHHHHHHHHHhC---cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHH
Confidence            56777887888765   567788888888888888888888888888876543 566676665555443   222    3


Q ss_pred             HHHHHHHHHHhCCCCCCcchHHHHHHHHHhc----CChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHh
Q 048737          154 EVENFFHEMIKNEWQPTPLNCATAITMLLDA----DEPEFAIEIWNYILENGILPLEASANVLLVGLRN  218 (274)
Q Consensus       154 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  218 (274)
                      +...+..+++... +-|...|+.+...+...    +...+|...+.+....++ .+......|+..|+.
T Consensus       201 ~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~-~s~~al~~l~d~~~~  267 (320)
T PLN02789        201 SELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDS-NHVFALSDLLDLLCE  267 (320)
T ss_pred             HHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccC-CcHHHHHHHHHHHHh
Confidence            5666666666543 34566777777777663    334557777776665442 455667777777765

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

Probab=99.14  E-value=5.3e-08  Score=77.70  Aligned_cols=226  Identities=10%  Similarity=0.044  Sum_probs=178.3

Q ss_pred             HHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCC
Q 048737           37 ITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNND  116 (274)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  116 (274)
                      ..+.-.|+.-.|..-|+..+...- .+...|.-+...|...++.++..+.|+...+.+   +.|+.+|..-...+.-.++
T Consensus       334 tF~fL~g~~~~a~~d~~~~I~l~~-~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld---p~n~dvYyHRgQm~flL~q  409 (606)
T KOG0547|consen  334 TFHFLKGDSLGAQEDFDAAIKLDP-AFNSLYIKRAAAYADENQSEKMWKDFNKAEDLD---PENPDVYYHRGQMRFLLQQ  409 (606)
T ss_pred             hhhhhcCCchhhhhhHHHHHhcCc-ccchHHHHHHHHHhhhhccHHHHHHHHHHHhcC---CCCCchhHhHHHHHHHHHH
Confidence            344556888899999999887642 233347788889999999999999999999987   6678889988999999999


Q ss_pred             hhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHH
Q 048737          117 VDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNY  196 (274)
Q Consensus       117 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  196 (274)
                      +++|..=|++.....+ -+...|..+..+..+.++++++...|++.++. .+..+..|+.....+...++++.|.+.|+.
T Consensus       410 ~e~A~aDF~Kai~L~p-e~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~  487 (606)
T KOG0547|consen  410 YEEAIADFQKAISLDP-ENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDK  487 (606)
T ss_pred             HHHHHHHHHHHhhcCh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHH
Confidence            9999999999988532 25778888888888999999999999999875 344578999999999999999999999999


Q ss_pred             HHHCCCC-------ccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHH
Q 048737          197 ILENGIL-------PLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLER  267 (274)
Q Consensus       197 ~~~~~~~-------~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~  267 (274)
                      .++....       +.+.+.-.++..- =.+++..|..++++.++.... ....|.+|.+.-.+.|+.  |.++|++...
T Consensus       488 ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  488 AIELEPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HHhhccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            8864321       1122222232222 238999999999999987644 446789999999999988  9999998765


Q ss_pred             Hhh
Q 048737          268 RWK  270 (274)
Q Consensus       268 ~~~  270 (274)
                      .-+
T Consensus       566 lAr  568 (606)
T KOG0547|consen  566 LAR  568 (606)
T ss_pred             HHH
Confidence            544

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

Probab=99.13  E-value=3.1e-07  Score=74.19  Aligned_cols=92  Identities=12%  Similarity=0.006  Sum_probs=41.3

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCC-CCCc--chHHHHHHHHH
Q 048737          106 AVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEW-QPTP--LNCATAITMLL  182 (274)
Q Consensus       106 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~  182 (274)
                      .+...+...|++++|...+++..+.. +.+...+..+...+...|++++|..++.+.....- .|+.  ..|..+...+.
T Consensus       119 ~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~  197 (355)
T cd05804         119 MLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYL  197 (355)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHH
Confidence            33444455555555555555554432 12233444444555555555555555554443211 1111  12223444455


Q ss_pred             hcCChHHHHHHHHHHH
Q 048737          183 DADEPEFAIEIWNYIL  198 (274)
Q Consensus       183 ~~~~~~~a~~~~~~~~  198 (274)
                      ..|++++|..++++..
T Consensus       198 ~~G~~~~A~~~~~~~~  213 (355)
T cd05804         198 ERGDYEAALAIYDTHI  213 (355)
T ss_pred             HCCCHHHHHHHHHHHh
Confidence            5555555555555543

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.

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

Probab=99.09  E-value=6.6e-08  Score=71.23  Aligned_cols=160  Identities=11%  Similarity=0.004  Sum_probs=94.1

Q ss_pred             HHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 048737           68 SNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLI  147 (274)
Q Consensus        68 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  147 (274)
                      ..+-..+...|+-+....+........   +.|....+.++....+.|++..|+..+.+.... -++|..+|+.+.-+|.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~---~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaald  145 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY---PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALD  145 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC---cccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHH
Confidence            444455555666666666655544332   344555555666666666666666666666554 2345666666666666


Q ss_pred             hcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHH
Q 048737          148 KNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRR  227 (274)
Q Consensus       148 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  227 (274)
                      +.|++++|..-|.+..+.. .-++..++.+.-.+.-.|+++.|..++......+. -|..+-..+..+....|++++|.+
T Consensus       146 q~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~A~~  223 (257)
T COG5010         146 QLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREAED  223 (257)
T ss_pred             HccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHHHh
Confidence            6666666666666666532 12344556666666666666666666666655432 344555556666666666666666


Q ss_pred             HHHHHH
Q 048737          228 FAEEML  233 (274)
Q Consensus       228 ~~~~m~  233 (274)
                      +...-.
T Consensus       224 i~~~e~  229 (257)
T COG5010         224 IAVQEL  229 (257)
T ss_pred             hccccc
Confidence            655433

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

Probab=99.09  E-value=1.7e-07  Score=73.48  Aligned_cols=252  Identities=12%  Similarity=0.010  Sum_probs=136.1

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHH-HHHHHHHHHHhCCCh---
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLK-FFSNALDILVKLNDS---   80 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~---   80 (274)
                      .++...|..++-.+... ..-|+|+.....+...+...|+.++|+..|++....  .|+.. ......-.+...|+.   
T Consensus       209 ~~~hs~a~~t~l~le~~-~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~  285 (564)
T KOG1174|consen  209 NFKHSDASQTFLMLHDN-TTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQD  285 (564)
T ss_pred             hcccchhhhHHHHHHhh-ccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhH
Confidence            34445555555544443 446778888888888888888888888888877653  23221 111111222233444   


Q ss_pred             -------------------------------hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHh
Q 048737           81 -------------------------------THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus        81 -------------------------------~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                                                     +.|..+-++.++..   +.+...+-.-..++...++++.|.-.|+....
T Consensus       286 ~~L~~~Lf~~~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~---~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~  362 (564)
T KOG1174|consen  286 SALMDYLFAKVKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE---PRNHEALILKGRLLIALERHTQAVIAFRTAQM  362 (564)
T ss_pred             HHHHHHHHhhhhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC---cccchHHHhccHHHHhccchHHHHHHHHHHHh
Confidence                                           44444444444433   22333333333445555666666666655544


Q ss_pred             cCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHH-HHHH-hcCChHHHHHHHHHHHHCCCCcc-H
Q 048737          130 HGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAI-TMLL-DADEPEFAIEIWNYILENGILPL-E  206 (274)
Q Consensus       130 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~~~~~~a~~~~~~~~~~~~~~~-~  206 (274)
                      .. +-+..+|.-|+.+|...|++.+|.-.-+...+. +..+..+.+.+. ..|. ....-++|..++++-...  .|+ .
T Consensus       363 La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~  438 (564)
T KOG1174|consen  363 LA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYT  438 (564)
T ss_pred             cc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccH
Confidence            31 124556666666666666666655444333221 112233333221 1111 112234455555444332  232 3


Q ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          207 ASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       207 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                      ...+.+...+...|..+++..+++.....  .||....+.|.+.+...+..  |.+.|..+++.
T Consensus       439 ~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  439 PAVNLIAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQ  500 (564)
T ss_pred             HHHHHHHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            44566667777888888888888877654  67877788887777776665  66666655543

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

Probab=99.08  E-value=5.6e-09  Score=88.52  Aligned_cols=187  Identities=14%  Similarity=0.119  Sum_probs=136.8

Q ss_pred             HHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHh
Q 048737           50 KFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus        50 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                      .++..+...|+.|+..||..+|.-|+..|+++.|- +|..|.-..  .+.+...++.++.+..+.++.+.+.        
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ks--Lpv~e~vf~~lv~sh~~And~Enpk--------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKS--LPVREGVFRGLVASHKEANDAENPK--------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhccc--ccccchhHHHHHhcccccccccCCC--------
Confidence            35667778899999999999999999999999999 999998887  7888999999999999999988876        


Q ss_pred             cCCCCChhhHHHHHHHHHhcCCHhH---HHHHHHHHHh----CCC-----------------CCCcch----------HH
Q 048737          130 HGAFPDSLTYNMIFECLIKNKKVHE---VENFFHEMIK----NEW-----------------QPTPLN----------CA  175 (274)
Q Consensus       130 ~~~~~~~~~~~~li~~~~~~~~~~~---a~~~~~~~~~----~~~-----------------~~~~~~----------~~  175 (274)
                         .|...||..|..+|...||...   +.+.+.....    .|+                 -||..+          |.
T Consensus        80 ---ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwa  156 (1088)
T KOG4318|consen   80 ---EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWA  156 (1088)
T ss_pred             ---CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHH
Confidence               5889999999999999998654   3332222221    121                 122211          11


Q ss_pred             HHHHHHHhc------C-----------ChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCc
Q 048737          176 TAITMLLDA------D-----------EPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRIL  238 (274)
Q Consensus       176 ~l~~~~~~~------~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  238 (274)
                      .++......      +           +..-.+++........-.|+..+|..++..-...|+++.|..++.+|.+.|++
T Consensus       157 qllkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfp  236 (1088)
T KOG4318|consen  157 QLLKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFP  236 (1088)
T ss_pred             HHHHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCC
Confidence            222222110      1           11112233332222111588999999999999999999999999999999999


Q ss_pred             cCHHHHHHHHHH
Q 048737          239 IYDVTMQKLKKA  250 (274)
Q Consensus       239 ~~~~~~~~l~~~  250 (274)
                      .+..-|..|+-+
T Consensus       237 ir~HyFwpLl~g  248 (1088)
T KOG4318|consen  237 IRAHYFWPLLLG  248 (1088)
T ss_pred             cccccchhhhhc
Confidence            998888887766

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

Probab=99.07  E-value=1.1e-07  Score=77.32  Aligned_cols=246  Identities=16%  Similarity=0.121  Sum_probs=179.1

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      +.+.|++.+|.-.|+....+   .|.+..+|.-|.......++-..|+..+.+..+.. +-+...+..|.-.|...|.-.
T Consensus       295 lm~nG~L~~A~LafEAAVkq---dP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQ---DPQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhh---ChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHH
Confidence            35789999999999999888   99999999999999999999999999999998854 445778888888899999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHH-------HHHHhcCChhhHHHHHHHHH-hcCCCCChhhHHHHHHHHHhcCCHh
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVV-------GLLCNNNDVDNVFRFFDQMV-FHGAFPDSLTYNMIFECLIKNKKVH  153 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~-------~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~li~~~~~~~~~~  153 (274)
                      .|.+.++..+...   +|-...-..-.       ..+..........++|-++. ..+..+|......|.-.|--.|+++
T Consensus       371 ~Al~~L~~Wi~~~---p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efd  447 (579)
T KOG1125|consen  371 QALKMLDKWIRNK---PKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFD  447 (579)
T ss_pred             HHHHHHHHHHHhC---ccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHH
Confidence            9999888887653   11100000000       11222223444555555543 4444578888888888889999999


Q ss_pred             HHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCcc-HHHHHHHHHHHHhcCCcchHHHHHHHH
Q 048737          154 EVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPL-EASANVLLVGLRNLGRLSDVRRFAEEM  232 (274)
Q Consensus       154 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m  232 (274)
                      +|.+.|+..+... +-|..+||.|.-.++...+..+|+..|++.++..  |+ +.+.-.|.-+|.+.|.+++|...|-..
T Consensus       448 raiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLq--P~yVR~RyNlgIS~mNlG~ykEA~~hlL~A  524 (579)
T KOG1125|consen  448 RAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQLQ--PGYVRVRYNLGISCMNLGAYKEAVKHLLEA  524 (579)
T ss_pred             HHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcC--CCeeeeehhhhhhhhhhhhHHHHHHHHHHH
Confidence            9999999998743 3357789999999999999999999999998853  44 345555667799999999999887765


Q ss_pred             Hh---C------CCccCHHHHHHHHHHHHhcChh
Q 048737          233 LN---R------RILIYDVTMQKLKKAFYNESRS  257 (274)
Q Consensus       233 ~~---~------~~~~~~~~~~~l~~~~~~~g~~  257 (274)
                      +.   .      +..++...|..|=.++.-.++.
T Consensus       525 L~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~  558 (579)
T KOG1125|consen  525 LSMQRKSRNHNKAPMASENIWQTLRLALSAMNRS  558 (579)
T ss_pred             HHhhhcccccccCCcchHHHHHHHHHHHHHcCCc
Confidence            43   1      1223345555555555555543

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

Probab=99.07  E-value=2.4e-08  Score=73.21  Aligned_cols=127  Identities=9%  Similarity=0.079  Sum_probs=92.2

Q ss_pred             cCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHH-HHhcCC--hh
Q 048737           42 GKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGL-LCNNND--VD  118 (274)
Q Consensus        42 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~--~~  118 (274)
                      .++.++++..++...+.+ +.|...|..+...|...|+++.|...|++..+..   +.+...+..+..+ +...|+  .+
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~---P~~~~~~~~lA~aL~~~~g~~~~~  127 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR---GENAELYAALATVLYYQAGQHMTP  127 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHhcCCCCcH
Confidence            566677777777776653 5667788888888888888888888888888765   5567777777775 356666  47


Q ss_pred             hHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchH
Q 048737          119 NVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNC  174 (274)
Q Consensus       119 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  174 (274)
                      +|.+++++..+.+.. +..++..+...+...|++++|...|+++.+.. +|+..-+
T Consensus       128 ~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~-~~~~~r~  181 (198)
T PRK10370        128 QTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDLN-SPRVNRT  181 (198)
T ss_pred             HHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCccHH
Confidence            888888888776432 56777777788888888888888888887654 4444443

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

Probab=99.02  E-value=2.6e-08  Score=73.34  Aligned_cols=170  Identities=11%  Similarity=0.017  Sum_probs=143.4

Q ss_pred             CCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHH
Q 048737           23 EWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLI  102 (274)
Q Consensus        23 ~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  102 (274)
                      ...|.|... ..+...+...|+-+....+....... -+.|.......+....+.|++..|...+++.....   ++|..
T Consensus        61 ~~~p~d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~---p~d~~  135 (257)
T COG5010          61 LRNPEDLSI-AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA---PTDWE  135 (257)
T ss_pred             hcCcchHHH-HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC---CCChh
Confidence            447877777 77888888999999988888876543 34566677779999999999999999999999886   88999


Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHH
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLL  182 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  182 (274)
                      +|+.+.-+|.+.|+.+.|..-|.+..+... -+...+|.+...+.-.|+.+.|..++......+ .-|...-..+.....
T Consensus       136 ~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~-~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~  213 (257)
T COG5010         136 AWNLLGAALDQLGRFDEARRAYRQALELAP-NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVG  213 (257)
T ss_pred             hhhHHHHHHHHccChhHHHHHHHHHHHhcc-CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHh
Confidence            999999999999999999999999988632 356778889899999999999999999988765 346778888999999


Q ss_pred             hcCChHHHHHHHHHHHH
Q 048737          183 DADEPEFAIEIWNYILE  199 (274)
Q Consensus       183 ~~~~~~~a~~~~~~~~~  199 (274)
                      ..|+++.|.++-..-..
T Consensus       214 ~~g~~~~A~~i~~~e~~  230 (257)
T COG5010         214 LQGDFREAEDIAVQELL  230 (257)
T ss_pred             hcCChHHHHhhcccccc
Confidence            99999999998765443

>PF12854 PPR_1: PPR repeat

Probab=99.02  E-value=5e-10  Score=56.59  Aligned_cols=31  Identities=35%  Similarity=0.569  Sum_probs=13.6

Q ss_pred             CCCChhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737          132 AFPDSLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus       132 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      +.||..||++||.+|++.|++++|.++|++|
T Consensus         3 ~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    3 CEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            3444444444444444444444444444443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.01  E-value=2.1e-07  Score=70.69  Aligned_cols=184  Identities=12%  Similarity=0.042  Sum_probs=121.1

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCH---HHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccH---
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTL---KFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNL---  101 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---  101 (274)
                      .+..+..++..+...|++++|...|+++.... +.++   .++..+..++.+.|+++.|...++++.+..   +.+.   
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~---p~~~~~~  107 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH---PNHPDAD  107 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC---cCCCchH
Confidence            56677778888888888888888888887642 2222   456677788888888888888888888764   2122   


Q ss_pred             HhHHHHHHHHHhc--------CChhhHHHHHHHHHhcCCCCCh-hhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcc
Q 048737          102 IMYNAVVGLLCNN--------NDVDNVFRFFDQMVFHGAFPDS-LTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPL  172 (274)
Q Consensus       102 ~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  172 (274)
                      .++..+..++.+.        |++++|.+.|+++...  .|+. ..+..+.... .   ...      ...        .
T Consensus       108 ~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~-~---~~~------~~~--------~  167 (235)
T TIGR03302       108 YAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMD-Y---LRN------RLA--------G  167 (235)
T ss_pred             HHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHH-H---HHH------HHH--------H
Confidence            2455555555544        6778888888887764  2332 2222221110 0   000      000        0


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCC--CccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          173 NCATAITMLLDADEPEFAIEIWNYILENGI--LPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       173 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      ....+...+.+.|+++.|...+....+...  +.....+..+..++...|++++|...++.+...
T Consensus       168 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       168 KELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            112456678889999999999998887532  223567888889999999999999988887765

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).

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

Probab=99.01  E-value=2.9e-07  Score=80.51  Aligned_cols=220  Identities=10%  Similarity=0.056  Sum_probs=150.7

Q ss_pred             cCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCH-HHHHHHHHHHHhCCChhhHHHH--------------
Q 048737           22 FEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTL-KFFSNALDILVKLNDSTHTVQL--------------   86 (274)
Q Consensus        22 ~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~--------------   86 (274)
                      ..+.|.+..+|..|+..+...+++++|.++.+...+.  .|+. ..|-.+...+.+.++.+.+..+              
T Consensus        24 ~~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~~  101 (906)
T PRK14720         24 NNYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLLNLIDSFSQNLKWAI  101 (906)
T ss_pred             ccCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhhhhhhhcccccchhH
Confidence            3678889999999999999999999999999977664  3442 3333333355555555444443              


Q ss_pred             ----HHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737           87 ----WDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus        87 ----~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                          ...+...    .-+...+..+..+|-+.|+.++|..+|+++++.. +-|+.+.|.+...|... +.++|..++.+.
T Consensus       102 ve~~~~~i~~~----~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KA  175 (906)
T PRK14720        102 VEHICDKILLY----GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKA  175 (906)
T ss_pred             HHHHHHHHHhh----hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHH
Confidence                3333332    2234677888899999999999999999999986 34789999999999999 999999999988


Q ss_pred             HhCCCCCCcchHHHHHH---HHH--hcCChHHHHHHHHHHHHC-CCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC
Q 048737          163 IKNEWQPTPLNCATAIT---MLL--DADEPEFAIEIWNYILEN-GILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       163 ~~~~~~~~~~~~~~l~~---~~~--~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  236 (274)
                      ...-+  +..-|+.+..   -++  ...+++.-..+.+.+... |..--+.++-.+...|...++++++..+++.+.+..
T Consensus       176 V~~~i--~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~  253 (906)
T PRK14720        176 IYRFI--KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHD  253 (906)
T ss_pred             HHHHH--hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcC
Confidence            76411  1111222211   111  122344444444444432 333344566667788888899999999999999875


Q ss_pred             CccCHHHHHHHHHHHH
Q 048737          237 ILIYDVTMQKLKKAFY  252 (274)
Q Consensus       237 ~~~~~~~~~~l~~~~~  252 (274)
                      -. |.....-++.+|.
T Consensus       254 ~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        254 NK-NNKAREELIRFYK  268 (906)
T ss_pred             Cc-chhhHHHHHHHHH
Confidence            33 6666777777777

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.00  E-value=2.4e-07  Score=70.29  Aligned_cols=185  Identities=9%  Similarity=0.001  Sum_probs=125.8

Q ss_pred             CCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCcc---HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCCh--
Q 048737           62 PTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPN---LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDS--  136 (274)
Q Consensus        62 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--  136 (274)
                      .....+..+...+...|+++.|...|+++....   +.+   ..++..+..++.+.|++++|...++++.+.......  
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~---p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~  107 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRY---PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDAD  107 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchH
Confidence            345677788888899999999999999998764   222   246778888999999999999999999875321111  


Q ss_pred             hhHHHHHHHHHhc--------CCHhHHHHHHHHHHhCCCCCCcc-hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHH
Q 048737          137 LTYNMIFECLIKN--------KKVHEVENFFHEMIKNEWQPTPL-NCATAITMLLDADEPEFAIEIWNYILENGILPLEA  207 (274)
Q Consensus       137 ~~~~~li~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  207 (274)
                      .++..+..++...        |++++|.+.++.+.+.  .|+.. .+..+.....    ...      ..        ..
T Consensus       108 ~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~----~~~------~~--------~~  167 (235)
T TIGR03302       108 YAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDY----LRN------RL--------AG  167 (235)
T ss_pred             HHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHH----HHH------HH--------HH
Confidence            1455555555544        6788888888888764  34432 2222211100    000      00        01


Q ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHhCCC--ccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          208 SANVLLVGLRNLGRLSDVRRFAEEMLNRRI--LIYDVTMQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       208 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~--~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      ....+...|.+.|++++|...+++..+...  +.....+..+..++.+.|+.  |...++.+..+.
T Consensus       168 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       168 KELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            112456678999999999999999987632  22457888999999999998  777777776543

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).

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.98  E-value=4.6e-08  Score=75.89  Aligned_cols=212  Identities=17%  Similarity=0.149  Sum_probs=141.4

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHH-HHHHHHHhCCChhhH
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFS-NALDILVKLNDSTHT   83 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a   83 (274)
                      .|+++.   +..++... . .| ...+...+...+...++-+.++.-+++....+..++..++. .....+...|+++.|
T Consensus        48 lg~~~~---vl~ei~~~-~-~~-~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~A  121 (290)
T PF04733_consen   48 LGQYDS---VLSEIKKS-S-SP-ELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEA  121 (290)
T ss_dssp             TT-HHH---HHHHS-TT-S-SC-CCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHH
T ss_pred             cCChhH---HHHHhccC-C-Ch-hHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHH
Confidence            444443   34455443 2 45 66677767666666566677777777666554343333333 333556678999999


Q ss_pred             HHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCCHhHHHHHH
Q 048737           84 VQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK----NKKVHEVENFF  159 (274)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~  159 (274)
                      .+++...        .+.......+.+|.+.++++.|.+.++.|.+.  . +..+...+..++..    .+.+.+|..+|
T Consensus       122 L~~l~~~--------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~-eD~~l~qLa~awv~l~~g~e~~~~A~y~f  190 (290)
T PF04733_consen  122 LKLLHKG--------GSLELLALAVQILLKMNRPDLAEKELKNMQQI--D-EDSILTQLAEAWVNLATGGEKYQDAFYIF  190 (290)
T ss_dssp             HCCCTTT--------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--S-CCHHHHHHHHHHHHHHHTTTCCCHHHHHH
T ss_pred             HHHHHcc--------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--C-CcHHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            8877542        25667777889999999999999999999875  2 33444445554433    34689999999


Q ss_pred             HHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCc-chHHHHHHHHHhC
Q 048737          160 HEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRL-SDVRRFAEEMLNR  235 (274)
Q Consensus       160 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~m~~~  235 (274)
                      +++.+. ..+++.+.+.+..++...|++++|..++.+....+. -+..+...++.+....|+. +.+.+.+.++...
T Consensus       191 ~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~-~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  191 EELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP-NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C-CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            998764 457888889999999999999999999999877653 4566777777777778887 6677788887765

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.

>PF12854 PPR_1: PPR repeat

Probab=98.98  E-value=7.1e-10  Score=56.02  Aligned_cols=32  Identities=28%  Similarity=0.412  Sum_probs=15.7

Q ss_pred             CCCccHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 048737          201 GILPLEASANVLLVGLRNLGRLSDVRRFAEEM  232 (274)
Q Consensus       201 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  232 (274)
                      |+.||..+|+.||.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            34445555555555555555555555554444

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.97  E-value=1.1e-07  Score=66.16  Aligned_cols=108  Identities=6%  Similarity=-0.052  Sum_probs=75.3

Q ss_pred             HHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHh
Q 048737           13 KTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVG   92 (274)
Q Consensus        13 ~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   92 (274)
                      .+|++..+.   .|.   .+..+...+...|++++|...|+...... +.+...+..+..++...|++++|...|++...
T Consensus        14 ~~~~~al~~---~p~---~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~   86 (144)
T PRK15359         14 DILKQLLSV---DPE---TVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALM   86 (144)
T ss_pred             HHHHHHHHc---CHH---HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            355555444   442   34456677777777777777777777653 44667777777777777777777777777777


Q ss_pred             cCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737           93 IGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus        93 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      ..   +.+...+..+..++.+.|++++|...|+...+.
T Consensus        87 l~---p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359         87 LD---ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             cC---CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            65   556777777777777777777777777777664

>PLN02789 farnesyltranstransferase

Probab=98.97  E-value=3.3e-06  Score=66.52  Aligned_cols=219  Identities=9%  Similarity=-0.004  Sum_probs=161.2

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCC-ChhhHHHHHHHHHhcCCccCccHHhHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLN-DSTHTVQLWDIMVGIGFNLMPNLIMYNA  106 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~  106 (274)
                      -..++..+-..+...+..++|+.+..++++.. +-+..+|+..-.++...| +++++...++++.+..   +.+..+|+.
T Consensus        36 ~~~a~~~~ra~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n---pknyqaW~~  111 (320)
T PLN02789         36 FREAMDYFRAVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN---PKNYQIWHH  111 (320)
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC---CcchHHhHH
Confidence            44566667777788889999999999999753 334556666666666777 6799999999999876   667778887


Q ss_pred             HHHHHHhcCCh--hhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc
Q 048737          107 VVGLLCNNNDV--DNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDA  184 (274)
Q Consensus       107 l~~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  184 (274)
                      ...++.+.++.  +++..+++++.+... -|..+|+...-.+...|+++++++.++++++.+ .-|...|+.....+.+.
T Consensus       112 R~~~l~~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~  189 (320)
T PLN02789        112 RRWLAEKLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRS  189 (320)
T ss_pred             HHHHHHHcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhc
Confidence            76666677763  678899989987654 378899999999999999999999999999876 34556676665555444


Q ss_pred             ---CCh----HHHHHHHHHHHHCCCCccHHHHHHHHHHHHhc----CCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHh
Q 048737          185 ---DEP----EFAIEIWNYILENGILPLEASANVLLVGLRNL----GRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYN  253 (274)
Q Consensus       185 ---~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~  253 (274)
                         |..    +.+.....+++...+ -|...|+-+...+...    +...+|.+++.+....+ ..+......|++.|+.
T Consensus       190 ~~l~~~~~~~e~el~y~~~aI~~~P-~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        190 PLLGGLEAMRDSELKYTIDAILANP-RNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             cccccccccHHHHHHHHHHHHHhCC-CCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHh
Confidence               222    456666666666543 5667888887777763    44567888888877654 3356677888888876


Q ss_pred             c
Q 048737          254 E  254 (274)
Q Consensus       254 ~  254 (274)
                      .
T Consensus       268 ~  268 (320)
T PLN02789        268 G  268 (320)
T ss_pred             h
Confidence            3

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.93  E-value=3.3e-06  Score=62.20  Aligned_cols=190  Identities=11%  Similarity=0.114  Sum_probs=135.3

Q ss_pred             cchHHHHHHHHHHHhc--cC-CCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhh
Q 048737            6 GNVVEANKTFGEMVER--FE-WNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         6 g~~~~a~~~~~~~~~~--~~-~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   82 (274)
                      .+.++..+++.++...  .| ..|+--..|..++-+....|+.+.|...++++..+ ++-+...-..-.-.+-..|++++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchhh
Confidence            4567777888777543  23 34433445677777888889999999999988775 33333332222233446688999


Q ss_pred             HHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737           83 TVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      |.++|+.+.+.+   |.|.+++..=+...-..|+.-+|++-+....+. +..|...|..+...|...|++++|.-.++++
T Consensus       105 A~e~y~~lL~dd---pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  105 AIEYYESLLEDD---PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             HHHHHHHHhccC---cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            999999999886   677788877777777778888888888877776 5668899999999999999999999999998


Q ss_pred             HhCCCCCCcchHHHHHHHHHhcC---ChHHHHHHHHHHHHCC
Q 048737          163 IKNEWQPTPLNCATAITMLLDAD---EPEFAIEIWNYILENG  201 (274)
Q Consensus       163 ~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~  201 (274)
                      +-.. +.++..+..+.+.+.-.|   +...+...|.+..+..
T Consensus       181 ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  181 LLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            7643 334455556665554444   5566788888777754

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

Probab=98.91  E-value=1.2e-07  Score=65.39  Aligned_cols=102  Identities=11%  Similarity=0.159  Sum_probs=70.5

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhH
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMY  104 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  104 (274)
                      .|.+......+...+...|++++|.+.|+.....+ +.+...+..+..++...|+++.|...+++..+.+   +.+..++
T Consensus        13 ~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~---p~~~~~~   88 (135)
T TIGR02552        13 DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD---PDDPRPY   88 (135)
T ss_pred             ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCChHHH
Confidence            66566666667777777777777777777776643 3456666677777777777777777777776654   4556666


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737          105 NAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       105 ~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      ..+..+|...|++++|...|+...+.
T Consensus        89 ~~la~~~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        89 FHAAECLLALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            66677777777777777777776664

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

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

Probab=98.90  E-value=2.7e-07  Score=67.73  Aligned_cols=161  Identities=10%  Similarity=0.099  Sum_probs=123.5

Q ss_pred             HHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcC
Q 048737           36 LITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNN  115 (274)
Q Consensus        36 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  115 (274)
                      +..|...|+++.+......+..    |.        ..+...++.+++...++...+..   +.|...|..+...|...|
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~~~---P~~~~~w~~Lg~~~~~~g   87 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIRAN---PQNSEQWALLGEYYLWRN   87 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHCC
Confidence            4568888999887655433321    11        01223667788888888888876   778999999999999999


Q ss_pred             ChhhHHHHHHHHHhcCCCCChhhHHHHHHHH-HhcCC--HhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHH
Q 048737          116 DVDNVFRFFDQMVFHGAFPDSLTYNMIFECL-IKNKK--VHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIE  192 (274)
Q Consensus       116 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  192 (274)
                      ++++|...|++..+... .+...+..+..++ ...|+  .++|..++++..+.. +-+...+..+...+.+.|++++|..
T Consensus        88 ~~~~A~~a~~~Al~l~P-~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~  165 (198)
T PRK10370         88 DYDNALLAYRQALQLRG-ENAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIE  165 (198)
T ss_pred             CHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999998643 3678888888764 67777  599999999999865 3466788899999999999999999


Q ss_pred             HHHHHHHCCCCccHHHHHHHHHH
Q 048737          193 IWNYILENGILPLEASANVLLVG  215 (274)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~l~~~  215 (274)
                      .|+++.+... |+..-+..+ .+
T Consensus       166 ~~~~aL~l~~-~~~~r~~~i-~~  186 (198)
T PRK10370        166 LWQKVLDLNS-PRVNRTQLV-ES  186 (198)
T ss_pred             HHHHHHhhCC-CCccHHHHH-HH
Confidence            9999998653 555444433 54

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

Probab=98.88  E-value=2.8e-06  Score=76.02  Aligned_cols=217  Identities=10%  Similarity=0.072  Sum_probs=170.2

Q ss_pred             cccchHHHHHHHHHHHhccCCCCc--hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPE--HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      +.++.++|++++++......+...  -...|.++++.-..-|.-+...++|+++.+.- . ....|..|...|.+.+.++
T Consensus      1470 elsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc-d-~~~V~~~L~~iy~k~ek~~ 1547 (1710)
T KOG1070|consen 1470 ELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC-D-AYTVHLKLLGIYEKSEKND 1547 (1710)
T ss_pred             hhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc-c-hHHHHHHHHHHHHHhhcch
Confidence            457899999999998775333221  23468888888888898899999999998752 2 2567889999999999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC---hhhHHHHHHHHHhcCCHhHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD---SLTYNMIFECLIKNKKVHEVENF  158 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~  158 (274)
                      .|-++++.|.+.   +.....+|...+..+.+.++-+.|.+++.+.++.  -|.   .....-.++.-.+.|+.+.+..+
T Consensus      1548 ~A~ell~~m~KK---F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEFk~GDaeRGRtl 1622 (1710)
T KOG1070|consen 1548 EADELLRLMLKK---FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEFKYGDAERGRTL 1622 (1710)
T ss_pred             hHHHHHHHHHHH---hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHhhcCCchhhHHH
Confidence            999999999987   3567889999999999999999999999998875  233   33444555556688999999999


Q ss_pred             HHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccH--HHHHHHHHHHHhcCCcchHHHH
Q 048737          159 FHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLE--ASANVLLVGLRNLGRLSDVRRF  228 (274)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~  228 (274)
                      |+.....- +--...|+..++.-.+.|+.+.++.+|++....++.|.-  ..|...+..--+.|+-..+..+
T Consensus      1623 fEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1623 FEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYV 1693 (1710)
T ss_pred             HHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHH
Confidence            99988753 334679999999999999999999999999998876643  4455555555555665544443

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

Probab=98.84  E-value=1.8e-06  Score=67.88  Aligned_cols=223  Identities=12%  Similarity=0.094  Sum_probs=157.7

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHH--------------------------
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVM--------------------------   55 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~--------------------------   55 (274)
                      |...|+..+|+..|++.+..   .|.++.......-.+.+.|+.+....+...+                          
T Consensus       242 ~~~~Gdn~~a~~~Fe~~~~~---dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~~~l~~~K~~~r  318 (564)
T KOG1174|consen  242 LYYNGDYFQAEDIFSSTLCA---NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVHAQLLYDEKKFER  318 (564)
T ss_pred             hhhhcCchHHHHHHHHHhhC---ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhhhhhhhhhhhHHH
Confidence            45678888888888887554   6655444433334444555554444444333                          


Q ss_pred             --------hcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHH
Q 048737           56 --------KGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQM  127 (274)
Q Consensus        56 --------~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  127 (274)
                              ++.+ +-+...|..-...+...++++.|.-.|+......   |.+...|.-|+.+|...|++.+|.-+-...
T Consensus       319 AL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La---p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~  394 (564)
T KOG1174|consen  319 ALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA---PYRLEIYRGLFHSYLAQKRFKEANALANWT  394 (564)
T ss_pred             HHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc---hhhHHHHHHHHHHHHhhchHHHHHHHHHHH
Confidence                    3321 1122233333467778899999999999998865   668899999999999999999998877765


Q ss_pred             HhcCCCCChhhHHHHH-HHHHhc-CCHhHHHHHHHHHHhCCCCCCc-chHHHHHHHHHhcCChHHHHHHHHHHHHCCCCc
Q 048737          128 VFHGAFPDSLTYNMIF-ECLIKN-KKVHEVENFFHEMIKNEWQPTP-LNCATAITMLLDADEPEFAIEIWNYILENGILP  204 (274)
Q Consensus       128 ~~~~~~~~~~~~~~li-~~~~~~-~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  204 (274)
                      .+. +..+..+...+. ..|.-. .--++|.+++++-..  +.|+. ...+.+...|...|..+.+..++++...  ..|
T Consensus       395 ~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~  469 (564)
T KOG1174|consen  395 IRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI--IFP  469 (564)
T ss_pred             HHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHh--hcc
Confidence            443 334566665553 333322 234789999988776  45663 4677888899999999999999998877  358


Q ss_pred             cHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC
Q 048737          205 LEASANVLLVGLRNLGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       205 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  236 (274)
                      |....+.|...+...+.+.+|++.|......+
T Consensus       470 D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d  501 (564)
T KOG1174|consen  470 DVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD  501 (564)
T ss_pred             ccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            88999999999999999999999998887663

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.83  E-value=8.2e-07  Score=76.78  Aligned_cols=135  Identities=11%  Similarity=0.034  Sum_probs=109.8

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC-HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHh
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT-LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIM  103 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  103 (274)
                      .|.++.++-.|.....+.|..++|..+++...+.  .|+ ......+...+.+.+++++|....++.....   +-+...
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~---p~~~~~  156 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG---SSSARE  156 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC---CCCHHH
Confidence            5657888888888889999999999999888874  454 5566777888888999999999999998876   556777


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC
Q 048737          104 YNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus       104 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                      .+.+..++.+.|++++|..+|+++...+ +-+..++..+...+...|+.++|...|++..+.
T Consensus       157 ~~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        157 ILLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            7888888888999999999999988743 224788888888888899999999999888764

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

Probab=98.82  E-value=2.7e-07  Score=77.07  Aligned_cols=205  Identities=12%  Similarity=0.062  Sum_probs=139.4

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhH
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHT   83 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   83 (274)
                      ..|-...|..+|+++           ..|..+|-+|...|+..+|..+..+..+  -+||+..|..+.+......-+++|
T Consensus       410 slGitksAl~I~Erl-----------emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yEka  476 (777)
T KOG1128|consen  410 SLGITKSALVIFERL-----------EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYEKA  476 (777)
T ss_pred             HcchHHHHHHHHHhH-----------HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHHHH
Confidence            456666666666654           3456677788888888888888877776  367888888777766665556666


Q ss_pred             HHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737           84 VQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      .++.+.....         .-..+.....+.++++++.+.|+.-.+.. +.-..+|-.+..+..+.++++.|.+.|....
T Consensus       477 wElsn~~sar---------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcv  546 (777)
T KOG1128|consen  477 WELSNYISAR---------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCV  546 (777)
T ss_pred             HHHhhhhhHH---------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHh
Confidence            6666554322         11111222233567777777777655532 2245677777777777788888888887777


Q ss_pred             hCCCCCC-cchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          164 KNEWQPT-PLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       164 ~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      ..  .|| ...||.+-.+|.+.++-.+|...+.+..+.+ .-+...|...+....+.|.+++|++.+.++..
T Consensus       547 tL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  547 TL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             hc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            63  354 4678888888888888888888888887766 35556777777777888888888888777754

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.82  E-value=7.3e-07  Score=71.41  Aligned_cols=150  Identities=15%  Similarity=0.104  Sum_probs=107.8

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      ....+.-....+...|++++|+..++.+... .+-|+.........+.+.++.++|.+.++.+....   +.....+-.+
T Consensus       305 ~~aa~YG~A~~~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~---P~~~~l~~~~  380 (484)
T COG4783         305 GLAAQYGRALQTYLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALALD---PNSPLLQLNL  380 (484)
T ss_pred             chHHHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC---CCccHHHHHH
Confidence            3445555666677788888888888887764 34455555666777888888888888888888754   2336667777


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCh
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEP  187 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  187 (274)
                      ..++.+.|++++|+.+++...... +-|+..|..|.++|...|+..++..-.-+..                  ...|++
T Consensus       381 a~all~~g~~~eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~------------------~~~G~~  441 (484)
T COG4783         381 AQALLKGGKPQEAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAEGY------------------ALAGRL  441 (484)
T ss_pred             HHHHHhcCChHHHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHHHH------------------HhCCCH
Confidence            788888888888888888877663 4478888888888888888887777666553                  235677


Q ss_pred             HHHHHHHHHHHHC
Q 048737          188 EFAIEIWNYILEN  200 (274)
Q Consensus       188 ~~a~~~~~~~~~~  200 (274)
                      +.|...+....+.
T Consensus       442 ~~A~~~l~~A~~~  454 (484)
T COG4783         442 EQAIIFLMRASQQ  454 (484)
T ss_pred             HHHHHHHHHHHHh
Confidence            7777777666653

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

Probab=98.81  E-value=6.2e-06  Score=68.36  Aligned_cols=237  Identities=13%  Similarity=0.054  Sum_probs=173.4

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHH
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTV   84 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   84 (274)
                      .+++...+++.+.+.++   .|....+.....-.+...|+-++|.+....-.+.+ .-+...|..+.-.+-...++++|.
T Consensus        20 ~kQYkkgLK~~~~iL~k---~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eai   95 (700)
T KOG1156|consen   20 TKQYKKGLKLIKQILKK---FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAI   95 (700)
T ss_pred             HHHHHhHHHHHHHHHHh---CCccchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHH
Confidence            45667777777888777   55555666666667788899999999988877654 345678888888888889999999


Q ss_pred             HHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737           85 QLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      +.|..+...+   +.|...|.-+.-.-++.++++.......++.+.. +.....|.....++--.|+...|..+++...+
T Consensus        96 Kcy~nAl~~~---~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~  171 (700)
T KOG1156|consen   96 KCYRNALKIE---KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEK  171 (700)
T ss_pred             HHHHHHHhcC---CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999987   6778888888888888899999888888887752 22467788888888889999999999999887


Q ss_pred             CC-CCCCcchHHHHH------HHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCC
Q 048737          165 NE-WQPTPLNCATAI------TMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRI  237 (274)
Q Consensus       165 ~~-~~~~~~~~~~l~------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  237 (274)
                      .. ..|+...|....      ....+.|.++.|.+.+..-... +.-....-..-...+.+.+++++|..++..++..  
T Consensus       172 t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--  248 (700)
T KOG1156|consen  172 TQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--  248 (700)
T ss_pred             hhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--
Confidence            64 256665554332      3345677777777766554332 2122233344556678889999999999999887  


Q ss_pred             ccCHHHHHHHHHHHH
Q 048737          238 LIYDVTMQKLKKAFY  252 (274)
Q Consensus       238 ~~~~~~~~~l~~~~~  252 (274)
                      .||...|...+..+.
T Consensus       249 nPdn~~Yy~~l~~~l  263 (700)
T KOG1156|consen  249 NPDNLDYYEGLEKAL  263 (700)
T ss_pred             CchhHHHHHHHHHHH
Confidence            466666666555444

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.79  E-value=2.1e-05  Score=63.33  Aligned_cols=136  Identities=13%  Similarity=0.122  Sum_probs=86.0

Q ss_pred             hCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCHhH
Q 048737           76 KLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD-SLTYNMIFECLIKNKKVHE  154 (274)
Q Consensus        76 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~  154 (274)
                      ..|+++.|+..++.++..-   |-|+..+....+.+.+.++.++|.+.++++...  .|+ ....-.+..+|.+.|++.+
T Consensus       318 ~~~~~d~A~~~l~~L~~~~---P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         318 LAGQYDEALKLLQPLIAAQ---PDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HhcccchHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHH
Confidence            5567777777777766653   445555556666777777777777777777664  344 4455566666777777777


Q ss_pred             HHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          155 VENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       155 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      |+.++....... +-|+..|..|.++|...|+..++.....+                  .|...|++++|...+....+
T Consensus       393 ai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A~~~l~~A~~  453 (484)
T COG4783         393 AIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQAIIFLMRASQ  453 (484)
T ss_pred             HHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHHHHHHHHHHH
Confidence            777776665543 45566777777777777776666544322                  34445666666666666555


Q ss_pred             C
Q 048737          235 R  235 (274)
Q Consensus       235 ~  235 (274)
                      .
T Consensus       454 ~  454 (484)
T COG4783         454 Q  454 (484)
T ss_pred             h
Confidence            4

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.79  E-value=5.1e-07  Score=62.76  Aligned_cols=92  Identities=12%  Similarity=0.010  Sum_probs=49.4

Q ss_pred             HHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 048737           69 NALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK  148 (274)
Q Consensus        69 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (274)
                      .+...+...|++++|...|+++....   +.+...|..+..++.+.|++++|...|++..... +.+...+..+..++..
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~---P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQ---PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC---CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            34445555555555555555555543   3445555555555555555555555555555432 1244555555555555


Q ss_pred             cCCHhHHHHHHHHHHh
Q 048737          149 NKKVHEVENFFHEMIK  164 (274)
Q Consensus       149 ~~~~~~a~~~~~~~~~  164 (274)
                      .|++++|...|+...+
T Consensus       105 ~g~~~eAi~~~~~Al~  120 (144)
T PRK15359        105 MGEPGLAREAFQTAIK  120 (144)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555555554

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.78  E-value=3.8e-06  Score=72.79  Aligned_cols=148  Identities=7%  Similarity=-0.078  Sum_probs=119.9

Q ss_pred             CCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhH
Q 048737           60 CFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTY  139 (274)
Q Consensus        60 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  139 (274)
                      .+.+...+..|.......|.+++|+.+++.+.+..   |-+......+...+.+.+++++|+..+++...... -+....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~---Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p-~~~~~~  157 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF---PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGS-SSAREI  157 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC---CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCC-CCHHHH
Confidence            34567888888999999999999999999999864   44567788888999999999999999999988643 256777


Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHH
Q 048737          140 NMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLL  213 (274)
Q Consensus       140 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  213 (274)
                      ..+..++.+.|++++|..+|+++...+ +-+..++..+..++...|+.++|...|++..+.. .|...-|+.++
T Consensus       158 ~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~  229 (694)
T PRK15179        158 LLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHH
Confidence            888888999999999999999998733 3346788899999999999999999999988742 24445555443

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

Probab=98.74  E-value=2.5e-05  Score=64.93  Aligned_cols=133  Identities=11%  Similarity=0.083  Sum_probs=96.6

Q ss_pred             CCChhhH--HHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCc-chHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHH
Q 048737          133 FPDSLTY--NMIFECLIKNKKVHEVENFFHEMIKNEWQPTP-LNCATAITMLLDADEPEFAIEIWNYILENGILPLEASA  209 (274)
Q Consensus       133 ~~~~~~~--~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  209 (274)
                      +|+...|  -.++..+-..|+++.|+..++..+..  .|+. ..|..=.+.+...|+++.|..++.+..+.+. ||...-
T Consensus       366 ~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~-aDR~IN  442 (700)
T KOG1156|consen  366 PPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT-ADRAIN  442 (700)
T ss_pred             CchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc-hhHHHH
Confidence            4555444  46778899999999999999998763  5653 3455556888999999999999999998774 776665


Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHH----------HHHHHhcChh--HHHHHHHHHHHhh
Q 048737          210 NVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKL----------KKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       210 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l----------~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      .--..-..++++.++|..+....-+.|.  +...+..-          ..+|.+.|++  |.+-|..+.+..+
T Consensus       443 sKcAKYmLrAn~i~eA~~~~skFTr~~~--~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k~~~  513 (700)
T KOG1156|consen  443 SKCAKYMLRANEIEEAEEVLSKFTREGF--GAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEKHYK  513 (700)
T ss_pred             HHHHHHHHHccccHHHHHHHHHhhhccc--chhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            5677778899999999999999888764  33222222          2355566666  6666666655554

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

Probab=98.74  E-value=1.5e-06  Score=59.77  Aligned_cols=96  Identities=9%  Similarity=0.054  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 048737           65 KFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFE  144 (274)
Q Consensus        65 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  144 (274)
                      .....+...+...|++++|...++.+...+   +.+...+..+..++.+.|++++|...+++..+.+ +.+...+..+..
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~   93 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD---PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAE   93 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHH
Confidence            344455555566666666666666666544   4455566666666666666666666666655542 224455555555


Q ss_pred             HHHhcCCHhHHHHHHHHHHh
Q 048737          145 CLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~  164 (274)
                      .|...|++++|...|+...+
T Consensus        94 ~~~~~g~~~~A~~~~~~al~  113 (135)
T TIGR02552        94 CLLALGEPESALKALDLAIE  113 (135)
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666666555

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

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

Probab=98.74  E-value=5.6e-07  Score=75.26  Aligned_cols=181  Identities=14%  Similarity=0.092  Sum_probs=150.7

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |...|+-.+|..+..+..++   +| ++..|..+........-+++|.++.+....+       .-..+.....+.++++
T Consensus       434 Y~~lg~~~kaeei~~q~lek---~~-d~~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs  502 (777)
T KOG1128|consen  434 YLLLGQHGKAEEINRQELEK---DP-DPRLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFS  502 (777)
T ss_pred             HHHhcccchHHHHHHHHhcC---CC-cchhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHH
Confidence            56778888888888877665   55 8999999999999999999999999876543       1122223334578999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCHhHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD-SLTYNMIFECLIKNKKVHEVENFFH  160 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~  160 (274)
                      ++.+.|+.-.+..   +....+|-.+.-+..+.++++.|.+.|..-...  .|| ...||.+-.+|.+.++-.+|...+.
T Consensus       503 ~~~~hle~sl~~n---plq~~~wf~~G~~ALqlek~q~av~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~  577 (777)
T KOG1128|consen  503 EADKHLERSLEIN---PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLK  577 (777)
T ss_pred             HHHHHHHHHhhcC---ccchhHHHhccHHHHHHhhhHHHHHHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHH
Confidence            9999999998875   667889999999999999999999999998874  454 7899999999999999999999999


Q ss_pred             HHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048737          161 EMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILE  199 (274)
Q Consensus       161 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  199 (274)
                      +..+.+ .-+...|-..+....+.|.++.|.+.+.++.+
T Consensus       578 EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  578 EALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            999877 56677888888888999999999999998876

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

Probab=98.72  E-value=4.4e-05  Score=62.87  Aligned_cols=263  Identities=13%  Similarity=0.133  Sum_probs=159.4

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcC------------------------
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGE------------------------   58 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------------------------   58 (274)
                      .+.|++++|.+...++...   .|++..++..-+-++++.+++++|+++.+.-...                        
T Consensus        23 ~~~~e~e~a~k~~~Kil~~---~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yrlnk~Deal   99 (652)
T KOG2376|consen   23 GKNGEYEEAVKTANKILSI---VPDDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFFFEKAYCEYRLNKLDEAL   99 (652)
T ss_pred             ccchHHHHHHHHHHHHHhc---CCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhhHHHHHHHHHcccHHHHH
Confidence            4678999999999999654   6888888888888999999999998766543210                        


Q ss_pred             ----CCCC-CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCc---------------------------cHHhHHH
Q 048737           59 ----NCFP-TLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMP---------------------------NLIMYNA  106 (274)
Q Consensus        59 ----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------------------------~~~~~~~  106 (274)
                          |..+ +..+...-...+.+.+++++|..+|+.+.+.+  .+.                           ...+|..
T Consensus       100 k~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~--~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~syel  177 (652)
T KOG2376|consen  100 KTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNN--SDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSYEL  177 (652)
T ss_pred             HHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchHHH
Confidence                0111 11122233456778899999999999998877  110                           0112222


Q ss_pred             ---HHHHHHhcCChhhHHHHHHHHHhcC-------CC------CCh-hhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCC
Q 048737          107 ---VVGLLCNNNDVDNVFRFFDQMVFHG-------AF------PDS-LTYNMIFECLIKNKKVHEVENFFHEMIKNEWQP  169 (274)
Q Consensus       107 ---l~~~~~~~~~~~~a~~~~~~~~~~~-------~~------~~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  169 (274)
                         ..-.++..|++.+|+++++...+.+       -.      -.. ..-..+.-.+...|+.++|..++...++.. ++
T Consensus       178 ~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~-~~  256 (652)
T KOG2376|consen  178 LYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRN-PA  256 (652)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CC
Confidence               2334566799999999999883211       00      000 122345566778899999999888887654 33


Q ss_pred             CcchH----HHH-----------------------------------------------HHHHH----------------
Q 048737          170 TPLNC----ATA-----------------------------------------------ITMLL----------------  182 (274)
Q Consensus       170 ~~~~~----~~l-----------------------------------------------~~~~~----------------  182 (274)
                      |....    |.|                                               +..|.                
T Consensus       257 D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~~a~lp~~  336 (652)
T KOG2376|consen  257 DEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRELSASLPGM  336 (652)
T ss_pred             CchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhCCcc
Confidence            33211    100                                               00000                


Q ss_pred             ----------------hcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHH--------HHHhCCCc
Q 048737          183 ----------------DADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAE--------EMLNRRIL  238 (274)
Q Consensus       183 ----------------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~--------~m~~~~~~  238 (274)
                                      +.....++..++....+....-...+--..+......|+++.|.+++.        .+.+.+..
T Consensus       337 ~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~  416 (652)
T KOG2376|consen  337 SPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHL  416 (652)
T ss_pred             CchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccC
Confidence                            001122333333333332211123445555666778899999999999        66666666


Q ss_pred             cCHHHHHHHHHHHHhcChh--HHHHHHHHHHHhhhhC
Q 048737          239 IYDVTMQKLKKAFYNESRS--MRDRFDSLERRWKTSQ  273 (274)
Q Consensus       239 ~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~~~~  273 (274)
                      |-.+  ..+...+.+.++.  |..+++.+++.|+..+
T Consensus       417 P~~V--~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~  451 (652)
T KOG2376|consen  417 PGTV--GAIVALYYKIKDNDSASAVLDSAIKWWRKQQ  451 (652)
T ss_pred             hhHH--HHHHHHHHhccCCccHHHHHHHHHHHHHHhc
Confidence            6544  4555555555544  8999999999887643

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.72  E-value=1.2e-05  Score=60.90  Aligned_cols=247  Identities=11%  Similarity=0.040  Sum_probs=143.6

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHH-HHHHHhCCChh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNA-LDILVKLNDST   81 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~   81 (274)
                      .+..++++|++++..-.++   .|.+......|..+|-...++..|-+.++++-..  .|...-|... ...+.+.+.+.
T Consensus        21 I~d~ry~DaI~~l~s~~Er---~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY~A~i~A   95 (459)
T KOG4340|consen   21 IRDARYADAIQLLGSELER---SPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLYKACIYA   95 (459)
T ss_pred             HHHhhHHHHHHHHHHHHhc---CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHHHhcccH
Confidence            3556888899988888777   7777888888888888999999999999888653  4544444321 12233444444


Q ss_pred             hHHHHHHHHHhcC-----------------C---------c---cCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCC
Q 048737           82 HTVQLWDIMVGIG-----------------F---------N---LMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGA  132 (274)
Q Consensus        82 ~a~~~~~~~~~~~-----------------~---------~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  132 (274)
                      .|.++...|....                 .         +   -..+..+.+...-...+.|+++.|.+-|+...+-+-
T Consensus        96 DALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsG  175 (459)
T KOG4340|consen   96 DALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSG  175 (459)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcC
Confidence            4444443333210                 0         0   011233333344445577888899888888777544


Q ss_pred             CCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcc---------------------hHHHHHHH-------HHhc
Q 048737          133 FPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPL---------------------NCATAITM-------LLDA  184 (274)
Q Consensus       133 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---------------------~~~~l~~~-------~~~~  184 (274)
                      -.....||..+..| +.++++.|++...++++.|++..+.                     .-..++.+       +.+.
T Consensus       176 yqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~  254 (459)
T KOG4340|consen  176 YQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQL  254 (459)
T ss_pred             CCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhc
Confidence            44567787776655 5578888998888888776532211                     01222322       3456


Q ss_pred             CChHHHHHHHHHHHHC-CCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh
Q 048737          185 DEPEFAIEIWNYILEN-GILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS  257 (274)
Q Consensus       185 ~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~  257 (274)
                      ++++.|.+.+-.|.-+ ....|+.|...+.-.= ..+++-+..+-+.-+...+. ....||..++-.||+..-+
T Consensus       255 ~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyCKNeyf  326 (459)
T KOG4340|consen  255 RNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNP-FPPETFANLLLLYCKNEYF  326 (459)
T ss_pred             ccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCC-CChHHHHHHHHHHhhhHHH
Confidence            7777777777666432 2233445544433221 22344444444444454433 3446666666666666433

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.70  E-value=5.7e-05  Score=65.12  Aligned_cols=223  Identities=13%  Similarity=0.123  Sum_probs=154.0

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHH--HhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLIT--LIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      ..+++.+|+...+++.++   .| +. .|...+.+  +.+.|..++|..+++.....+.. |..|...+-.+|...++.+
T Consensus        21 d~~qfkkal~~~~kllkk---~P-n~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKK---HP-NA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             hhHHHHHHHHHHHHHHHH---CC-Cc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhh
Confidence            467889999999999888   77 33 34444444  57889999999888887765433 8889999999999999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC-C---------
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNK-K---------  151 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~---------  151 (274)
                      +|..+|++.....    |+......+..+|.|.+++.+-.++--++-+. .+-+...+-.+++...+.- .         
T Consensus        95 ~~~~~Ye~~~~~~----P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~  169 (932)
T KOG2053|consen   95 EAVHLYERANQKY----PSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPIL  169 (932)
T ss_pred             HHHHHHHHHHhhC----CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchh
Confidence            9999999999864    67788888888999988877655555444443 3334555555555544322 1         


Q ss_pred             HhHHHHHHHHHHhCC-CCCCcchHHHHHHHHHhcCChHHHHHHHH-HHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHH
Q 048737          152 VHEVENFFHEMIKNE-WQPTPLNCATAITMLLDADEPEFAIEIWN-YILENGILPLEASANVLLVGLRNLGRLSDVRRFA  229 (274)
Q Consensus       152 ~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  229 (274)
                      ..-|.+.++.+.+.+ -.-+..-...-...+...|.+++|.+++. ..-+.-...+...-+.-+..+...+++.+..++-
T Consensus       170 l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~  249 (932)
T KOG2053|consen  170 LALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELS  249 (932)
T ss_pred             HHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHH
Confidence            123555666666543 11122222333445567889999999984 4444333344455556677788889999999998


Q ss_pred             HHHHhCCC
Q 048737          230 EEMLNRRI  237 (274)
Q Consensus       230 ~~m~~~~~  237 (274)
                      .++...|.
T Consensus       250 ~~Ll~k~~  257 (932)
T KOG2053|consen  250 SRLLEKGN  257 (932)
T ss_pred             HHHHHhCC
Confidence            88888753

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

Probab=98.69  E-value=1.1e-05  Score=66.03  Aligned_cols=221  Identities=10%  Similarity=-0.011  Sum_probs=160.9

Q ss_pred             HHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcC
Q 048737           36 LITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNN  115 (274)
Q Consensus        36 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  115 (274)
                      ..-+.+.|++.+|.-.|+...+.+ +-+...|..|.......++-..|+..+++..+..   +-|..+.-.|.-.|...|
T Consensus       292 G~~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld---P~NleaLmaLAVSytNeg  367 (579)
T KOG1125|consen  292 GCNLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD---PTNLEALMALAVSYTNEG  367 (579)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC---CccHHHHHHHHHHHhhhh
Confidence            345678899999999999988764 5567899999999999999999999999999976   667888889999999999


Q ss_pred             ChhhHHHHHHHHHhcCCCC--------ChhhHHHHHHHHHhcCCHhHHHHHHHHH-HhCCCCCCcchHHHHHHHHHhcCC
Q 048737          116 DVDNVFRFFDQMVFHGAFP--------DSLTYNMIFECLIKNKKVHEVENFFHEM-IKNEWQPTPLNCATAITMLLDADE  186 (274)
Q Consensus       116 ~~~~a~~~~~~~~~~~~~~--------~~~~~~~li~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~  186 (274)
                      .-..|+..++.-....++-        +...-..  ..+.......+..++|-.+ ...+..+|+.....|.-.|--.|+
T Consensus       368 ~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~e  445 (579)
T KOG1125|consen  368 LQNQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGE  445 (579)
T ss_pred             hHHHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchH
Confidence            9999999998765432110        0000000  1111112233444444444 455656888899999999999999


Q ss_pred             hHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCH-HHHHHHHHHHHhcChh--HHHHHH
Q 048737          187 PEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYD-VTMQKLKKAFYNESRS--MRDRFD  263 (274)
Q Consensus       187 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~l~~~~~~~g~~--a~~~~~  263 (274)
                      +++|.+.|+..+...+ -|...||.|-..++...+.++|+..|.+.++.  +|+. +....|.-+|...|.+  |.+.|=
T Consensus       446 fdraiDcf~~AL~v~P-nd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL  522 (579)
T KOG1125|consen  446 FDRAVDCFEAALQVKP-NDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLL  522 (579)
T ss_pred             HHHHHHHHHHHHhcCC-chHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHH
Confidence            9999999999988653 56788999999999999999999999999876  4443 2233344556666655  444443


Q ss_pred             HH
Q 048737          264 SL  265 (274)
Q Consensus       264 ~~  265 (274)
                      .+
T Consensus       523 ~A  524 (579)
T KOG1125|consen  523 EA  524 (579)
T ss_pred             HH
Confidence            33

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

Probab=98.69  E-value=7.8e-06  Score=71.90  Aligned_cols=202  Identities=12%  Similarity=0.111  Sum_probs=139.7

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCH------------------
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTL------------------   64 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~------------------   64 (274)
                      -..|++++|.++.+...+.   .|.....|..+...+.+.++...+..+  .+... ++.+.                  
T Consensus        42 ~~~~~~deai~i~~~~l~~---~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~-~~~~~~~~~ve~~~~~i~~~~~~  115 (906)
T PRK14720         42 KSENLTDEAKDICEEHLKE---HKKSISALYISGILSLSRRPLNDSNLL--NLIDS-FSQNLKWAIVEHICDKILLYGEN  115 (906)
T ss_pred             HhcCCHHHHHHHHHHHHHh---CCcceehHHHHHHHHHhhcchhhhhhh--hhhhh-cccccchhHHHHHHHHHHhhhhh
Confidence            3678999999999977665   787777777777788888877777666  33332 22232                  


Q ss_pred             -HHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 048737           65 -KFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIF  143 (274)
Q Consensus        65 -~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  143 (274)
                       ..+..+..+|-+.|+.+++..+|+++.+..   +-|+.+.|.+...|... +.++|.+++.+....-+  +..-|+.+.
T Consensus       116 k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D---~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i--~~kq~~~~~  189 (906)
T PRK14720        116 KLALRTLAEAYAKLNENKKLKGVWERLVKAD---RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRFI--KKKQYVGIE  189 (906)
T ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHhcC---cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHH--hhhcchHHH
Confidence             566778888999999999999999999987   67899999999999999 99999999998876411  111122211


Q ss_pred             HH---HH--hcCCHhHHHHHHHHHHhC-CCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHH
Q 048737          144 EC---LI--KNKKVHEVENFFHEMIKN-EWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLR  217 (274)
Q Consensus       144 ~~---~~--~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  217 (274)
                      ..   ++  ...+++.-..+.+.+... |..--..++--+-..|-...+++++..+++.+.+... -|.....-++.+|.
T Consensus       190 e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~-~n~~a~~~l~~~y~  268 (906)
T PRK14720        190 EIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDN-KNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCC-cchhhHHHHHHHHH
Confidence            11   11  112233333333333332 2222234455566788888999999999999998764 46667777887776

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.65  E-value=4e-05  Score=69.90  Aligned_cols=268  Identities=9%  Similarity=0.027  Sum_probs=170.2

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCc--hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCC--C-CC--CHHHHHHHHHHHH
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPE--HVLAYETFLITLIRGKQVDEALKFLRVMKGEN--C-FP--TLKFFSNALDILV   75 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~-~~--~~~~~~~l~~~~~   75 (274)
                      ...|++++|...+++..........  ...+.+.+...+...|++++|...+.+.....  . .+  ...++..+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            3578999999999887652111110  12345666777888999999999998876421  1 11  1234556667788


Q ss_pred             hCCChhhHHHHHHHHHhc----CCc-cCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcC--CCC--ChhhHHHHHHHH
Q 048737           76 KLNDSTHTVQLWDIMVGI----GFN-LMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHG--AFP--DSLTYNMIFECL  146 (274)
Q Consensus        76 ~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~li~~~  146 (274)
                      ..|+++.|...+++....    +.. .......+..+...+...|++++|...+++.....  ..+  ....+..+...+
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            899999999998887653    200 01123345556667778899999999998875431  112  234455566778


Q ss_pred             HhcCCHhHHHHHHHHHHhCCCC-CCcchH-----HHHHHHHHhcCChHHHHHHHHHHHHCCCCcc---HHHHHHHHHHHH
Q 048737          147 IKNKKVHEVENFFHEMIKNEWQ-PTPLNC-----ATAITMLLDADEPEFAIEIWNYILENGILPL---EASANVLLVGLR  217 (274)
Q Consensus       147 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~-----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~  217 (274)
                      ...|++++|...+......... .....+     ...+..+...|+.+.|..++...........   ...+..+..++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            8899999999999887542111 111111     1122444567899999888766543221111   111345667788


Q ss_pred             hcCCcchHHHHHHHHHhC----CCccC-HHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          218 NLGRLSDVRRFAEEMLNR----RILIY-DVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       218 ~~g~~~~a~~~~~~m~~~----~~~~~-~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      ..|++++|...+++....    |..++ ..+...+..++...|+.  |.+.+.++++...
T Consensus       703 ~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la~  762 (903)
T PRK04841        703 LLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLAN  762 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhC
Confidence            899999999999887653    32222 24556666777888887  8888888776543

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.62  E-value=8.4e-05  Score=55.40  Aligned_cols=145  Identities=14%  Similarity=0.109  Sum_probs=91.5

Q ss_pred             HhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHH
Q 048737          102 IMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITML  181 (274)
Q Consensus       102 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  181 (274)
                      .....-...|++.+++++|++......      +......=...+.+..+++-|.+.+++|.+-   -+..|.+.|..++
T Consensus       109 i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~aw  179 (299)
T KOG3081|consen  109 IDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAW  179 (299)
T ss_pred             HHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHH
Confidence            333334456777788888887776622      2333333344556667777888888888763   3455666666665


Q ss_pred             Hhc----CChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh
Q 048737          182 LDA----DEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS  257 (274)
Q Consensus       182 ~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~  257 (274)
                      .+.    +.+..|.-+|++|.+. ..|+..+.+-...++...|++++|..++++...+... ++.|...++-+-...|+.
T Consensus       180 v~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd  257 (299)
T KOG3081|consen  180 VKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKD  257 (299)
T ss_pred             HHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCC
Confidence            542    4577777788777653 3477777777777777888888888888887766433 455555555544444533

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.61  E-value=1.1e-06  Score=70.96  Aligned_cols=120  Identities=18%  Similarity=0.195  Sum_probs=64.7

Q ss_pred             ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC--CCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHH
Q 048737          135 DSLTYNMIFECLIKNKKVHEVENFFHEMIKN--EWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVL  212 (274)
Q Consensus       135 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  212 (274)
                      +......++..+....+++.+..++.+.+..  ....-+.|.+++++.|.+.|..+.+..+++.=...|+-||..++|.|
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            4444555555555555555555555555543  11112234445556666666556555555555555555666666666


Q ss_pred             HHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhc
Q 048737          213 LVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNE  254 (274)
Q Consensus       213 ~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~  254 (274)
                      |..+.+.|++..|.++..+|..++...+..|+..-+.+|.+.
T Consensus       145 md~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            666666666666666555555555555555555555555444

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 [].

>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=98.61  E-value=1.3e-06  Score=70.20  Aligned_cols=124  Identities=15%  Similarity=0.190  Sum_probs=99.0

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHH
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGL  110 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~  110 (274)
                      .-..|+..+...++++.|+.+|+++.+..  |+.  ...+...+...++-.+|.+++++.++..   +.+......-...
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~---p~d~~LL~~Qa~f  243 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKEN---PQDSELLNLQAEF  243 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhC---CCCHHHHHHHHHH
Confidence            34556777777889999999999988764  543  4457777777888888999988888764   5677777777888


Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737          111 LCNNNDVDNVFRFFDQMVFHGAFPD-SLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      +.+.++++.|+.+.+++...  .|+ -.+|..|..+|...|+++.|+..++.+-
T Consensus       244 Ll~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  244 LLSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            88999999999999998885  454 5689999999999999999998888764

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

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

Probab=98.59  E-value=0.00013  Score=60.86  Aligned_cols=133  Identities=10%  Similarity=0.029  Sum_probs=79.6

Q ss_pred             HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC---hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCC---------
Q 048737          101 LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD---SLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQ---------  168 (274)
Q Consensus       101 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---------  168 (274)
                      ...|..+.+.|-..|+.+.|..+|++..+...+.-   ..+|......=.+..+++.|.++++.....--.         
T Consensus       387 ~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~  466 (835)
T KOG2047|consen  387 GTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNS  466 (835)
T ss_pred             hhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCC
Confidence            34678888889999999999999999877533211   345555555556677888888887776432111         


Q ss_pred             -C-------CcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          169 -P-------TPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       169 -~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                       |       +...|...++.--..|-++....+|+++.+..+ .++...-.....+-.+..++++++++++-+.
T Consensus       467 ~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLri-aTPqii~NyAmfLEeh~yfeesFk~YErgI~  539 (835)
T KOG2047|consen  467 EPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRI-ATPQIIINYAMFLEEHKYFEESFKAYERGIS  539 (835)
T ss_pred             CcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhhHHHHHHHHHHHcCCc
Confidence             1       112344555555666788888888888877654 2222222222223344445555555554433

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.58  E-value=1.7e-05  Score=58.93  Aligned_cols=194  Identities=16%  Similarity=0.086  Sum_probs=117.3

Q ss_pred             HhHHHHHHHHHhccCcHHHHHH-HHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           29 VLAYETFLITLIRGKQVDEALK-FLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      ..+...+...+...++.++-+. +.+.+.......+......-...|...+++++|.+......        +....-.=
T Consensus        72 lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~--------~lE~~Al~  143 (299)
T KOG3081|consen   72 LQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE--------NLEAAALN  143 (299)
T ss_pred             HHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc--------hHHHHHHH
Confidence            3444444444444555444443 34444433333333333334456778888888887776521        22233333


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHh
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK----NKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLD  183 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  183 (274)
                      +..+.+..+.+-|...+++|.+-   -+..|.+.|.+++.+    .+.+.+|.-+|++|-++ ..|++.+.+-...++..
T Consensus       144 VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~  219 (299)
T KOG3081|consen  144 VQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQ  219 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHH
Confidence            45566677788888888888763   356677767776654    34577888888888653 46788888888888888


Q ss_pred             cCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCc-chHHHHHHHHHhC
Q 048737          184 ADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRL-SDVRRFAEEMLNR  235 (274)
Q Consensus       184 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~m~~~  235 (274)
                      .|++++|..+++....... -++.+...++..-...|.. +-..+.+.++...
T Consensus       220 ~~~~eeAe~lL~eaL~kd~-~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  220 LGRYEEAESLLEEALDKDA-KDPETLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             hcCHHHHHHHHHHHHhccC-CCHHHHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            8888888888888887654 3344444444444444444 4445556665544

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

Probab=98.57  E-value=8.5e-06  Score=56.81  Aligned_cols=19  Identities=5%  Similarity=0.001  Sum_probs=7.7

Q ss_pred             HHhCCChhhHHHHHHHHHh
Q 048737           74 LVKLNDSTHTVQLWDIMVG   92 (274)
Q Consensus        74 ~~~~~~~~~a~~~~~~~~~   92 (274)
                      +...|++++|...|+.+..
T Consensus        58 ~~~~g~~~~A~~~l~~~~~   76 (145)
T PF09976_consen   58 AYEQGDYDEAKAALEKALA   76 (145)
T ss_pred             HHHCCCHHHHHHHHHHHHh
Confidence            3333444444444444433

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.57  E-value=1.6e-07  Score=47.97  Aligned_cols=31  Identities=32%  Similarity=0.613  Sum_probs=13.0

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhCCCCC
Q 048737          139 YNMIFECLIKNKKVHEVENFFHEMIKNEWQP  169 (274)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  169 (274)
                      |+.+|.+|++.|++++|.++|++|.+.|+.|
T Consensus         3 ~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p   33 (35)
T TIGR00756         3 YNTLIDGLCKAGRVEEALELFKEMLERGIEP   33 (35)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence            4444444444444444444444444444433

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.

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.57  E-value=0.0002  Score=60.88  Aligned_cols=253  Identities=14%  Similarity=0.046  Sum_probs=171.1

Q ss_pred             chHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHH
Q 048737            7 NVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQL   86 (274)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   86 (274)
                      ...++++.+++..+.   .|.|+.+...+.--|+..++++.|.+...+..+-+-.-+...|..|.-.+...+++..|+.+
T Consensus       459 ~h~kslqale~av~~---d~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~v  535 (799)
T KOG4162|consen  459 LHKKSLQALEEAVQF---DPTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDV  535 (799)
T ss_pred             HHHHHHHHHHHHHhc---CCCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHH
Confidence            345677888888665   55566555556667888999999999999999876667888999999999999999999999


Q ss_pred             HHHHHhcCCccCcc--------------------HHhHHHHHHHHHh-----------------------cCChhhHHHH
Q 048737           87 WDIMVGIGFNLMPN--------------------LIMYNAVVGLLCN-----------------------NNDVDNVFRF  123 (274)
Q Consensus        87 ~~~~~~~~~~~~~~--------------------~~~~~~l~~~~~~-----------------------~~~~~~a~~~  123 (274)
                      .+.....-   +.|                    ..|+..++...-.                       .++..+|.+.
T Consensus       536 vd~al~E~---~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~  612 (799)
T KOG4162|consen  536 VDAALEEF---GDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAIST  612 (799)
T ss_pred             HHHHHHHh---hhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchh
Confidence            98877542   111                    2222233222220                       0111112111


Q ss_pred             HHHH--------HhcC---------CCC--C------hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHH
Q 048737          124 FDQM--------VFHG---------AFP--D------SLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAI  178 (274)
Q Consensus       124 ~~~~--------~~~~---------~~~--~------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  178 (274)
                      ...+        ...|         +.|  +      ...|......+.+.++.++|...+.+..... +-....|....
T Consensus       613 sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G  691 (799)
T KOG4162|consen  613 SRYLSSLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRG  691 (799)
T ss_pred             hHHHHHHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhh
Confidence            1111        0000         011  1      1234455566777777888877777765532 23344566666


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHH--HHHHHHhCCCccCHHHHHHHHHHHHhcCh
Q 048737          179 TMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRR--FAEEMLNRRILIYDVTMQKLKKAFYNESR  256 (274)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~--~~~~m~~~~~~~~~~~~~~l~~~~~~~g~  256 (274)
                      ..+...|.+.+|.+.|......++ -++.+..++...+.+.|+..-|..  ++.++.+.+ +.+...|..+...+.+.|+
T Consensus       692 ~~~~~~~~~~EA~~af~~Al~ldP-~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd  769 (799)
T KOG4162|consen  692 LLLEVKGQLEEAKEAFLVALALDP-DHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGD  769 (799)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccc
Confidence            777788899999999988877552 456778889999999998887777  999998876 4478899999999999998


Q ss_pred             h--HHHHHHHHHHH
Q 048737          257 S--MRDRFDSLERR  268 (274)
Q Consensus       257 ~--a~~~~~~~~~~  268 (274)
                      .  |-+-|+...+.
T Consensus       770 ~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  770 SKQAAECFQAALQL  783 (799)
T ss_pred             hHHHHHHHHHHHhh
Confidence            8  77777766553

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.56  E-value=0.00017  Score=55.94  Aligned_cols=225  Identities=14%  Similarity=0.066  Sum_probs=167.6

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCch---HhHH------------HHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHH
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEH---VLAY------------ETFLITLIRGKQVDEALKFLRVMKGENCFPTLKF   66 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~---~~~~------------~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   66 (274)
                      +.+.|.+++|..=|+.+.+.   .|.+   ..++            ...+..+...|+...|+.....+++. .+-|...
T Consensus       116 llK~Gele~A~~DF~~vl~~---~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi-~~Wda~l  191 (504)
T KOG0624|consen  116 LLKQGELEQAEADFDQVLQH---EPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEI-QPWDASL  191 (504)
T ss_pred             hhhcccHHHHHHHHHHHHhc---CCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhc-CcchhHH
Confidence            35789999999999999776   4421   1122            12344566779999999999999885 3457778


Q ss_pred             HHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhh----HHH-
Q 048737           67 FSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLT----YNM-  141 (274)
Q Consensus        67 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~-  141 (274)
                      +..-..+|...|++..|..=+....+..   ..+..++.-+...+...|+.+.++...++.++.  .||...    |-. 
T Consensus       192 ~~~Rakc~i~~~e~k~AI~Dlk~askLs---~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKkl  266 (504)
T KOG0624|consen  192 RQARAKCYIAEGEPKKAIHDLKQASKLS---QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKL  266 (504)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcc---ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHH
Confidence            8888899999999999999998888875   567788888889999999999999999998874  566422    111 


Q ss_pred             ------H--HHHHHhcCCHhHHHHHHHHHHhCCCCCCcc---hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHH
Q 048737          142 ------I--FECLIKNKKVHEVENFFHEMIKNEWQPTPL---NCATAITMLLDADEPEFAIEIWNYILENGILPLEASAN  210 (274)
Q Consensus       142 ------l--i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  210 (274)
                            +  +......++|.++++-.+...+..-.....   .+..+-.++...+++.+|++...+..+.. +.|+.++.
T Consensus       267 kKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d-~~dv~~l~  345 (504)
T KOG0624|consen  267 KKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDID-PDDVQVLC  345 (504)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcC-chHHHHHH
Confidence                  1  223455678888888888877754221222   34456677778899999999999998754 24478888


Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHhCC
Q 048737          211 VLLVGLRNLGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       211 ~l~~~~~~~g~~~~a~~~~~~m~~~~  236 (274)
                      .-..+|.-...+|.|+.-|+...+.+
T Consensus       346 dRAeA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  346 DRAEAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHhcC
Confidence            88888988888999999888877653

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.56  E-value=0.00012  Score=54.19  Aligned_cols=190  Identities=10%  Similarity=0.031  Sum_probs=140.4

Q ss_pred             ccCcHHHHHHHHHHHhc---CC-CCCCHH-HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcC
Q 048737           41 RGKQVDEALKFLRVMKG---EN-CFPTLK-FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNN  115 (274)
Q Consensus        41 ~~~~~~~a~~~~~~~~~---~~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  115 (274)
                      ...+.++.++++.++..   .| ..++.. .|..++-+....|+.+.|...++++...   ++-+..+-..-.-.+-..|
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~---fp~S~RV~~lkam~lEa~~  100 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR---FPGSKRVGKLKAMLLEATG  100 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh---CCCChhHHHHHHHHHHHhh
Confidence            34567788888877764   23 445544 4556666777889999999999999876   3334333333333455679


Q ss_pred             ChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHH
Q 048737          116 DVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWN  195 (274)
Q Consensus       116 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  195 (274)
                      ++++|.++++.++... +.|..++-.=+...-..|+.-+|++-+....+. +..|...|.-+...|...|++++|.-.++
T Consensus       101 ~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClE  178 (289)
T KOG3060|consen  101 NYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLE  178 (289)
T ss_pred             chhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHH
Confidence            9999999999999875 446788877777777888888898888888765 46789999999999999999999999999


Q ss_pred             HHHHCCCCccHHHHHHHHHHHHhcC---CcchHHHHHHHHHhCC
Q 048737          196 YILENGILPLEASANVLLVGLRNLG---RLSDVRRFAEEMLNRR  236 (274)
Q Consensus       196 ~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~m~~~~  236 (274)
                      ++.-..+ .+...+..+...+.-.|   +.+-+.+.|.+..+.+
T Consensus       179 E~ll~~P-~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  179 ELLLIQP-FNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHHHcCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            9987542 34445555666554443   5667888888887764

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

Probab=98.56  E-value=0.00029  Score=58.93  Aligned_cols=260  Identities=12%  Similarity=0.061  Sum_probs=162.8

Q ss_pred             ccchHHHHHHHHHHHhccCCCCch-----HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC---HHHHHHHHHHHHh
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEH-----VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT---LKFFSNALDILVK   76 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~   76 (274)
                      .|+..+-..+|.+...+  +.|.-     ...|..+...|-..|+++.|..+|++..+...+.-   ..+|..-...=.+
T Consensus       360 e~~~~~~i~tyteAv~~--vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElr  437 (835)
T KOG2047|consen  360 EGNAAEQINTYTEAVKT--VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELR  437 (835)
T ss_pred             cCChHHHHHHHHHHHHc--cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHh
Confidence            45566667777776553  33311     23688889999999999999999998877543322   3445555555556


Q ss_pred             CCChhhHHHHHHHHHhcCC---------ccCc------cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHH
Q 048737           77 LNDSTHTVQLWDIMVGIGF---------NLMP------NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNM  141 (274)
Q Consensus        77 ~~~~~~a~~~~~~~~~~~~---------~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  141 (274)
                      ..+++.|.++.+.+...-.         ..++      +...|...++.--..|-++....+|+++.+..+- ++...-.
T Consensus       438 h~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~N  516 (835)
T KOG2047|consen  438 HENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIIN  516 (835)
T ss_pred             hhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHH
Confidence            7788888888877764210         0111      3445666777777778889999999998886543 3333222


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHHhCCCCCCc-chHHHHHHHHHh---cCChHHHHHHHHHHHHCCCCccHHHH--HHHHHH
Q 048737          142 IFECLIKNKKVHEVENFFHEMIKNEWQPTP-LNCATAITMLLD---ADEPEFAIEIWNYILENGILPLEASA--NVLLVG  215 (274)
Q Consensus       142 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~  215 (274)
                      ....+..+.-++++.++|++-+..=-.|+. ..|++.+.-+.+   ...++.|.++|++..+ |.+|...-+  -.....
T Consensus       517 yAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~l  595 (835)
T KOG2047|consen  517 YAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKL  595 (835)
T ss_pred             HHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHH
Confidence            333344556678888888876654334443 356655554443   2378899999999998 665543222  222222


Q ss_pred             HHhcCCcchHHHHHHHHHhCCCccCH--HHHHHHHHHHHh-cChh-HHHHHHHHHHHh
Q 048737          216 LRNLGRLSDVRRFAEEMLNRRILIYD--VTMQKLKKAFYN-ESRS-MRDRFDSLERRW  269 (274)
Q Consensus       216 ~~~~g~~~~a~~~~~~m~~~~~~~~~--~~~~~l~~~~~~-~g~~-a~~~~~~~~~~~  269 (274)
                      --+.|-...|++++++.... +.+..  ..|+..|.--.. -|-. .+++++++++..
T Consensus       596 EEe~GLar~amsiyerat~~-v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~L  652 (835)
T KOG2047|consen  596 EEEHGLARHAMSIYERATSA-VKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESL  652 (835)
T ss_pred             HHHhhHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhC
Confidence            24558888899999886543 33332  456666654433 3433 788888888764

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.55  E-value=1.3e-07  Score=48.32  Aligned_cols=34  Identities=29%  Similarity=0.638  Sum_probs=27.4

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCCh
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDS  136 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  136 (274)
                      +||+++.+|++.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            6788888888888888888888888888887763

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=98.54  E-value=5.3e-06  Score=66.81  Aligned_cols=127  Identities=13%  Similarity=0.101  Sum_probs=105.3

Q ss_pred             CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHH
Q 048737           63 TLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMI  142 (274)
Q Consensus        63 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  142 (274)
                      +......|+..+...++++.|..+++++.+..    |+  ....+++.+...++..+|.+++++..+.. +-+......-
T Consensus       168 ~NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~~----pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Q  240 (395)
T PF09295_consen  168 NNYLVDTLLKYLSLTQRYDEAIELLEKLRERD----PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQ  240 (395)
T ss_pred             chHHHHHHHHHHhhcccHHHHHHHHHHHHhcC----Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            34555677888888899999999999998864    54  44557888888999999999999988752 3366777777


Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhCCCCCCc-chHHHHHHHHHhcCChHHHHHHHHHHH
Q 048737          143 FECLIKNKKVHEVENFFHEMIKNEWQPTP-LNCATAITMLLDADEPEFAIEIWNYIL  198 (274)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~  198 (274)
                      ...|...++++.|+.+.+++.+.  .|+. .+|..|..+|...|+++.|...++.+.
T Consensus       241 a~fLl~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  241 AEFLLSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            78899999999999999999885  4665 599999999999999999999988765

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

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.53  E-value=1.7e-06  Score=55.56  Aligned_cols=79  Identities=15%  Similarity=0.261  Sum_probs=60.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCC-CccHHHHHHHHHHHHhcC--------CcchHHHHHHHHHhCCCccCHHHHHH
Q 048737          176 TAITMLLDADEPEFAIEIWNYILENGI-LPLEASANVLLVGLRNLG--------RLSDVRRFAEEMLNRRILIYDVTMQK  246 (274)
Q Consensus       176 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g--------~~~~a~~~~~~m~~~~~~~~~~~~~~  246 (274)
                      .-|.-|...+++...-.+|+.++..|+ .|+..+|+.++.+..+..        ++-+.+.+|+.|+..+++|+..||+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            445555666888888888888888887 788888888887776553        24456778888888889999999999


Q ss_pred             HHHHHHhc
Q 048737          247 LKKAFYNE  254 (274)
Q Consensus       247 l~~~~~~~  254 (274)
                      ++.++.+.
T Consensus       110 vl~~Llkg  117 (120)
T PF08579_consen  110 VLGSLLKG  117 (120)
T ss_pred             HHHHHHHh
Confidence            88887654

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 [, , ].

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.53  E-value=9.1e-06  Score=62.92  Aligned_cols=213  Identities=10%  Similarity=0.065  Sum_probs=121.1

Q ss_pred             HHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHH-----HHhCCChhhH
Q 048737            9 VEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDI-----LVKLNDSTHT   83 (274)
Q Consensus         9 ~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~~~a   83 (274)
                      +.|++++-.+...   -|   .+-..|+-.|.+.+++.+|..+..++.-  ..|-....-.+..+     ......+.-|
T Consensus       271 EgALqVLP~L~~~---IP---EARlNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aalGQe~gSreHlKiA  342 (557)
T KOG3785|consen  271 EGALQVLPSLMKH---IP---EARLNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAALGQETGSREHLKIA  342 (557)
T ss_pred             ccHHHhchHHHhh---Ch---HhhhhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHhhhhcCcHHHHHHH
Confidence            4455555555333   33   3556677788889999999888876532  22322222222211     1122235556


Q ss_pred             HHHHHHHHhcCCccCcc-HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737           84 VQLWDIMVGIGFNLMPN-LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus        84 ~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      .+.|+..-+++  ...| ..--.++...+.-..++++.+-.+..+..- +.-|....-.+.++++..|++.+|+++|-..
T Consensus       343 qqffqlVG~Sa--~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sY-F~NdD~Fn~N~AQAk~atgny~eaEelf~~i  419 (557)
T KOG3785|consen  343 QQFFQLVGESA--LECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESY-FTNDDDFNLNLAQAKLATGNYVEAEELFIRI  419 (557)
T ss_pred             HHHHHHhcccc--cccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCcchhhhHHHHHHHHhcChHHHHHHHhhh
Confidence            66666555555  3333 223445556666666777777777776654 2223333334667788888888888888666


Q ss_pred             HhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHH-HHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          163 IKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASA-NVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       163 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      ....++.+..-...|.++|.+++.++.|++++-++.   .+.+..+. ..+..-|.+.+.+--|.+.|+++...
T Consensus       420 s~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~---t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l  490 (557)
T KOG3785|consen  420 SGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTN---TPSERFSLLQLIANDCYKANEFYYAAKAFDELEIL  490 (557)
T ss_pred             cChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcC---CchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHcc
Confidence            544433333333456677788888888877654432   22222333 33345666777777777777766654

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.52  E-value=3.4e-06  Score=68.27  Aligned_cols=125  Identities=13%  Similarity=0.087  Sum_probs=72.0

Q ss_pred             CCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhh
Q 048737           59 NCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLT  138 (274)
Q Consensus        59 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  138 (274)
                      +.+.+...+..+++.+....+++.+..++-+..........-..|..++++.|.+.|..+.++++++.=...|+-||..+
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            34455555566666666666666666666665543100112233445666666666666666666666666666666666


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHh
Q 048737          139 YNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLD  183 (274)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  183 (274)
                      +|.+|..+.+.|++..|.++...|...+...+..|+..-+.+|.+
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK  185 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence            666666666666666666666666655555555555444444433

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 [].

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

Probab=98.51  E-value=5.7e-06  Score=57.70  Aligned_cols=117  Identities=12%  Similarity=0.069  Sum_probs=90.2

Q ss_pred             cccchHHHHHHHHHHHhccCCCCch---HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC--HHHHHHHHHHHHhCC
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEH---VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT--LKFFSNALDILVKLN   78 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~   78 (274)
                      ..++...+.+.++.+...   .|++   ..+.-.+...+...|++++|...|+........|+  ......|...+...|
T Consensus        23 ~~~~~~~~~~~~~~l~~~---~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~   99 (145)
T PF09976_consen   23 QAGDPAKAEAAAEQLAKD---YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQG   99 (145)
T ss_pred             HCCCHHHHHHHHHHHHHH---CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcC
Confidence            367888888899999887   5534   34455577888999999999999999998652222  224445678888999


Q ss_pred             ChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHH
Q 048737           79 DSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQM  127 (274)
Q Consensus        79 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  127 (274)
                      ++++|...++.....    ......+....++|.+.|++++|...|+..
T Consensus       100 ~~d~Al~~L~~~~~~----~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  100 QYDEALATLQQIPDE----AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             CHHHHHHHHHhccCc----chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            999999999775433    345567778889999999999999999864

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.50  E-value=0.00039  Score=63.58  Aligned_cols=266  Identities=9%  Similarity=-0.016  Sum_probs=165.0

Q ss_pred             cccchHHHHHHHHHHHhccCCC----Cch--HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCH----HHHHHHHHH
Q 048737            4 KEGNVVEANKTFGEMVERFEWN----PEH--VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTL----KFFSNALDI   73 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~----p~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~   73 (274)
                      ..|++++|...+........-.    +..  ......+...+...|++++|...+++..+.--..+.    ...+.+...
T Consensus       421 ~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~  500 (903)
T PRK04841        421 SQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEV  500 (903)
T ss_pred             HCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHH
Confidence            4678889888888765421110    101  122233345567889999999999988763111121    234556667


Q ss_pred             HHhCCChhhHHHHHHHHHhcCCcc-Cc--cHHhHHHHHHHHHhcCChhhHHHHHHHHHhc----CCC--C-ChhhHHHHH
Q 048737           74 LVKLNDSTHTVQLWDIMVGIGFNL-MP--NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH----GAF--P-DSLTYNMIF  143 (274)
Q Consensus        74 ~~~~~~~~~a~~~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~li  143 (274)
                      +...|+++.|...+++........ .+  ...++..+...+...|+++.|...+++....    +..  + ....+..+.
T Consensus       501 ~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la  580 (903)
T PRK04841        501 HHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRA  580 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHH
Confidence            788999999999998887532000 11  2345566677888999999999998876542    211  1 223345556


Q ss_pred             HHHHhcCCHhHHHHHHHHHHhCC--CCCC--cchHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCccHH--HH--HHHH
Q 048737          144 ECLIKNKKVHEVENFFHEMIKNE--WQPT--PLNCATAITMLLDADEPEFAIEIWNYILEN--GILPLEA--SA--NVLL  213 (274)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~~~--~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~--~~--~~l~  213 (274)
                      ..+...|++++|...+.+.....  ..+.  ...+..+...+...|+++.|.+.+......  .......  ..  ...+
T Consensus       581 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~  660 (903)
T PRK04841        581 QLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRL  660 (903)
T ss_pred             HHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHH
Confidence            66778899999999998876531  1121  234445666778899999999999887542  1111110  11  1122


Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCCccCH---HHHHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          214 VGLRNLGRLSDVRRFAEEMLNRRILIYD---VTMQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       214 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~---~~~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      ..+...|+.+.|..++............   ..+..+..++...|+.  |...++.+....
T Consensus       661 ~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~  721 (903)
T PRK04841        661 IYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENA  721 (903)
T ss_pred             HHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            4455689999999998776543221111   1134566677777876  888888877653

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.49  E-value=2.4e-07  Score=46.98  Aligned_cols=32  Identities=31%  Similarity=0.541  Sum_probs=14.4

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP  134 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  134 (274)
                      +|+.++.+|++.|+++.|.++|++|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            34444444444444444444444444444433

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.49  E-value=0.00015  Score=56.48  Aligned_cols=89  Identities=13%  Similarity=-0.008  Sum_probs=62.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHH-HHHHHHhcCCcchHHHHHHHHHhCCCccCHHHH-HHHHHHHHh
Q 048737          176 TAITMLLDADEPEFAIEIWNYILENGILPLEASANV-LLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTM-QKLKKAFYN  253 (274)
Q Consensus       176 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~-~~l~~~~~~  253 (274)
                      .+.++++..|++.+|+++|-++..-.+ .|..+|.+ |.++|.+.+.++.|++++-.+..   +.+..+. ..+.+-|.+
T Consensus       398 N~AQAk~atgny~eaEelf~~is~~~i-kn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk  473 (557)
T KOG3785|consen  398 NLAQAKLATGNYVEAEELFIRISGPEI-KNKILYKSMLARCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCYK  473 (557)
T ss_pred             HHHHHHHHhcChHHHHHHHhhhcChhh-hhhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHHH
Confidence            467788888999999999987765555 34456654 66888999999999887765543   2233333 335567888


Q ss_pred             cChh--HHHHHHHHHHH
Q 048737          254 ESRS--MRDRFDSLERR  268 (274)
Q Consensus       254 ~g~~--a~~~~~~~~~~  268 (274)
                      ++++  |-+.|+.+...
T Consensus       474 ~~eFyyaaKAFd~lE~l  490 (557)
T KOG3785|consen  474 ANEFYYAAKAFDELEIL  490 (557)
T ss_pred             HHHHHHHHHhhhHHHcc
Confidence            8887  77777776543

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.46  E-value=3.9e-07  Score=46.14  Aligned_cols=32  Identities=25%  Similarity=0.402  Sum_probs=16.0

Q ss_pred             hHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCC
Q 048737          138 TYNMIFECLIKNKKVHEVENFFHEMIKNEWQP  169 (274)
Q Consensus       138 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  169 (274)
                      +|+.++.+|.+.|+++.|.++|+.|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            44555555555555555555555555444443

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.41  E-value=0.00044  Score=53.69  Aligned_cols=156  Identities=11%  Similarity=0.026  Sum_probs=85.9

Q ss_pred             HHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHh
Q 048737           74 LVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVH  153 (274)
Q Consensus        74 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  153 (274)
                      +...|+...|+.....+++..   +=|...+..-..+|...|++..|+.=+....+.. .-+..++-.+-..+...|+.+
T Consensus       165 ~~~~GD~~~ai~~i~~llEi~---~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~  240 (504)
T KOG0624|consen  165 ASGSGDCQNAIEMITHLLEIQ---PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAE  240 (504)
T ss_pred             HhcCCchhhHHHHHHHHHhcC---cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHH
Confidence            334455555555555555532   2244445555556666666666665555544431 123444555555556666666


Q ss_pred             HHHHHHHHHHhCCCCCCcch----HHHH---------HHHHHhcCChHHHHHHHHHHHHCCCCccH---HHHHHHHHHHH
Q 048737          154 EVENFFHEMIKNEWQPTPLN----CATA---------ITMLLDADEPEFAIEIWNYILENGILPLE---ASANVLLVGLR  217 (274)
Q Consensus       154 ~a~~~~~~~~~~~~~~~~~~----~~~l---------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~  217 (274)
                      .++..+++.++.  .||...    |-.|         +....+.++|.++....+...+.......   ..+..+-.++.
T Consensus       241 ~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~  318 (504)
T KOG0624|consen  241 NSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYR  318 (504)
T ss_pred             HHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeeccc
Confidence            666666666553  344322    1111         22334556777777777776665433122   33444556667


Q ss_pred             hcCCcchHHHHHHHHHhC
Q 048737          218 NLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       218 ~~g~~~~a~~~~~~m~~~  235 (274)
                      ..|++-+|+....+..+.
T Consensus       319 ~d~~~~eAiqqC~evL~~  336 (504)
T KOG0624|consen  319 EDEQFGEAIQQCKEVLDI  336 (504)
T ss_pred             ccCCHHHHHHHHHHHHhc
Confidence            778888888888887764

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

Probab=98.37  E-value=0.00019  Score=59.32  Aligned_cols=195  Identities=13%  Similarity=0.073  Sum_probs=124.4

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHH
Q 048737           33 ETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLC  112 (274)
Q Consensus        33 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  112 (274)
                      -+=++.+...+++++|.+...++...+ +-+...+..-+-+..+.+.+++|..+.+.-...    ..+.+-+..=.-+..
T Consensus        16 ~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~----~~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   16 LTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL----LVINSFFFEKAYCEY   90 (652)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh----hhcchhhHHHHHHHH
Confidence            345677888999999999999999865 556777888888889999999998655433221    111111122233445


Q ss_pred             hcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCC-----------------------
Q 048737          113 NNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQP-----------------------  169 (274)
Q Consensus       113 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-----------------------  169 (274)
                      +.+..|+|+..++-...    .|..+...-.+.+.+.|++++|.++|..+.+.+.+-                       
T Consensus        91 rlnk~Dealk~~~~~~~----~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~  166 (652)
T KOG2376|consen   91 RLNKLDEALKTLKGLDR----LDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQS  166 (652)
T ss_pred             HcccHHHHHHHHhcccc----cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHh
Confidence            78899999999983322    234466677778889999999999999886543110                       


Q ss_pred             ----CcchHHHHH---HHHHhcCChHHHHHHHHHHHHC-------C------CCccHH-HHHHHHHHHHhcCCcchHHHH
Q 048737          170 ----TPLNCATAI---TMLLDADEPEFAIEIWNYILEN-------G------ILPLEA-SANVLLVGLRNLGRLSDVRRF  228 (274)
Q Consensus       170 ----~~~~~~~l~---~~~~~~~~~~~a~~~~~~~~~~-------~------~~~~~~-~~~~l~~~~~~~g~~~~a~~~  228 (274)
                          ...+|..+.   ..+...|++.+|++++....+.       +      +.-... .--.+.-.+...|+.++|..+
T Consensus       167 v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~i  246 (652)
T KOG2376|consen  167 VPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSI  246 (652)
T ss_pred             ccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHH
Confidence                011333322   2344567888888887776211       0      111111 122344455677888888888


Q ss_pred             HHHHHhCC
Q 048737          229 AEEMLNRR  236 (274)
Q Consensus       229 ~~~m~~~~  236 (274)
                      +...+..+
T Consensus       247 y~~~i~~~  254 (652)
T KOG2376|consen  247 YVDIIKRN  254 (652)
T ss_pred             HHHHHHhc
Confidence            87777764

>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=98.36  E-value=1.2e-05  Score=51.06  Aligned_cols=92  Identities=10%  Similarity=0.074  Sum_probs=44.0

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHH
Q 048737           33 ETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLC  112 (274)
Q Consensus        33 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  112 (274)
                      ..+...+...|++++|...+++..+.. +.+...+..+...+...++++.|.+.++......   +.+..++..+...+.
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~~~~~~   79 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD---PDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC---CcchhHHHHHHHHHH
Confidence            334444555555555555555554431 2223344444445555555555555555554443   223344444445555


Q ss_pred             hcCChhhHHHHHHHHH
Q 048737          113 NNNDVDNVFRFFDQMV  128 (274)
Q Consensus       113 ~~~~~~~a~~~~~~~~  128 (274)
                      ..|+++.|...+....
T Consensus        80 ~~~~~~~a~~~~~~~~   95 (100)
T cd00189          80 KLGKYEEALEAYEKAL   95 (100)
T ss_pred             HHHhHHHHHHHHHHHH
Confidence            5555555555554443

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.36  E-value=9.7e-06  Score=52.13  Aligned_cols=78  Identities=18%  Similarity=0.423  Sum_probs=47.5

Q ss_pred             HHHHHHHhCCChhhHHHHHHHHHhcCCcc-CccHHhHHHHHHHHHhcC--------ChhhHHHHHHHHHhcCCCCChhhH
Q 048737           69 NALDILVKLNDSTHTVQLWDIMVGIGFNL-MPNLIMYNAVVGLLCNNN--------DVDNVFRFFDQMVFHGAFPDSLTY  139 (274)
Q Consensus        69 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~  139 (274)
                      ..|..|...+++...-.+|+.+++.|  + .|+..+|+.++.+.++..        +.-..+.+|+.|...+++|+..+|
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~--i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNG--ITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcC--CCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            34444555566666666666666666  5 666666666666655542        123445566666666666777777


Q ss_pred             HHHHHHHHh
Q 048737          140 NMIFECLIK  148 (274)
Q Consensus       140 ~~li~~~~~  148 (274)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            666666543

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 [, , ].

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.35  E-value=3.7e-05  Score=51.40  Aligned_cols=22  Identities=5%  Similarity=0.220  Sum_probs=9.1

Q ss_pred             HHHHHhccCcHHHHHHHHHHHh
Q 048737           35 FLITLIRGKQVDEALKFLRVMK   56 (274)
Q Consensus        35 li~~~~~~~~~~~a~~~~~~~~   56 (274)
                      ++..+.+.|++++|.+.|..+.
T Consensus         8 ~~~~~~~~~~~~~A~~~~~~~~   29 (119)
T TIGR02795         8 AALLVLKAGDYADAIQAFQAFL   29 (119)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Confidence            3333444444444444444443

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.

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.35  E-value=5.3e-05  Score=54.50  Aligned_cols=96  Identities=8%  Similarity=0.002  Sum_probs=69.6

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC--HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHH
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT--LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLI  102 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  102 (274)
                      .|.....+..+...+...|++++|+..|++..+....+.  ...+..+..++.+.|+++.|...+++..+..   +.+..
T Consensus        31 ~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~---p~~~~  107 (172)
T PRK02603         31 KAKEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN---PKQPS  107 (172)
T ss_pred             HhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---cccHH
Confidence            334555677888888888999999999998876432222  3577788888888999999999998888864   44566


Q ss_pred             hHHHHHHHHHhcCChhhHHHH
Q 048737          103 MYNAVVGLLCNNNDVDNVFRF  123 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~  123 (274)
                      .+..+..++...|+...+..-
T Consensus       108 ~~~~lg~~~~~~g~~~~a~~~  128 (172)
T PRK02603        108 ALNNIAVIYHKRGEKAEEAGD  128 (172)
T ss_pred             HHHHHHHHHHHcCChHhHhhC
Confidence            677777777777765544433

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.33  E-value=5.4e-05  Score=57.45  Aligned_cols=195  Identities=13%  Similarity=0.142  Sum_probs=144.4

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHH-HHH
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNA-VVG  109 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-l~~  109 (274)
                      -+++.+..+.+..++..|++++..-.++. +-+......|..+|....++..|-..|+++...    -|...-|.. -..
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql----~P~~~qYrlY~AQ   86 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL----HPELEQYRLYQAQ   86 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh----ChHHHHHHHHHHH
Confidence            36777888889999999999998877763 336777888999999999999999999999885    366555543 246


Q ss_pred             HHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH--HHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCh
Q 048737          110 LLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC--LIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEP  187 (274)
Q Consensus       110 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  187 (274)
                      .+.+.+.+.+|+++...|.+.   |+...-..-+++  ....+++..+..+.++....   .+..+.+.......+.|++
T Consensus        87 SLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e---n~Ad~~in~gCllykegqy  160 (459)
T KOG4340|consen   87 SLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE---NEADGQINLGCLLYKEGQY  160 (459)
T ss_pred             HHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC---CccchhccchheeeccccH
Confidence            677889999999999998763   332222222222  34567888888888876532   2444555555556789999


Q ss_pred             HHHHHHHHHHHH-CCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCc
Q 048737          188 EFAIEIWNYILE-NGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRIL  238 (274)
Q Consensus       188 ~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  238 (274)
                      +.|.+-|+...+ .|..|- ..||..+ +..+.|+++.|++...+++++|+.
T Consensus       161 EaAvqkFqaAlqvsGyqpl-lAYniAL-aHy~~~qyasALk~iSEIieRG~r  210 (459)
T KOG4340|consen  161 EAAVQKFQAALQVSGYQPL-LAYNLAL-AHYSSRQYASALKHISEIIERGIR  210 (459)
T ss_pred             HHHHHHHHHHHhhcCCCch-hHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhh
Confidence            999999999887 566554 5676554 456779999999999999987753

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.32  E-value=0.00032  Score=57.55  Aligned_cols=185  Identities=11%  Similarity=0.109  Sum_probs=131.9

Q ss_pred             HHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH---hCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHH
Q 048737           45 VDEALKFLRVMKGENCFPTLKFFSNALDILV---KLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVF  121 (274)
Q Consensus        45 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  121 (274)
                      .+++.++++.....-..-+..+|..+...--   ..+..+.....++++...-  ...-..+|..+++.-.+..-...|.
T Consensus       309 t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~--~~~~tLv~~~~mn~irR~eGlkaaR  386 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIE--DIDLTLVYCQYMNFIRRAEGLKAAR  386 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhh--ccCCceehhHHHHHHHHhhhHHHHH
Confidence            4566666666654322333444443332211   1123666777777777653  2223467888888888888899999


Q ss_pred             HHHHHHHhcCCCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCC-cchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048737          122 RFFDQMVFHGAFP-DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT-PLNCATAITMLLDADEPEFAIEIWNYILE  199 (274)
Q Consensus       122 ~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  199 (274)
                      .+|.+..+.+..+ ++..+++++.-||. ++.+-|.++|+.-.+.  -+| +.-....++.+...++-..+..+|++...
T Consensus       387 ~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk--f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~  463 (656)
T KOG1914|consen  387 KIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKK--FGDSPEYVLKYLDFLSHLNDDNNARALFERVLT  463 (656)
T ss_pred             HHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHh--cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHh
Confidence            9999999887666 67788888887765 6788999999876653  234 34446778888889999999999999998


Q ss_pred             CCCCcc--HHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          200 NGILPL--EASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       200 ~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      .++.|+  ...|..++..-+..|+...+.++-+++..
T Consensus       464 s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  464 SVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             ccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            865544  47899999988999999999888777654

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.32  E-value=0.00031  Score=59.82  Aligned_cols=228  Identities=14%  Similarity=0.115  Sum_probs=158.2

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcC-CCC---C-----------C---
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGE-NCF---P-----------T---   63 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~---~-----------~---   63 (274)
                      |+..++++.|.+...+..+- +-. +++..|..|+-.+.-.+++.+|+.+.+..... |..   .           |   
T Consensus       488 ~A~~R~l~sAl~~~~eaL~l-~~~-~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i~~~~~~~e~  565 (799)
T KOG4162|consen  488 YAEQRQLTSALDYAREALAL-NRG-DSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHIELTFNDREE  565 (799)
T ss_pred             HHHHHhHHHHHHHHHHHHHh-cCC-ccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhhhhhcccHHH
Confidence            45567888999888887663 222 37789999999999999999999999877653 110   0           0   


Q ss_pred             -HHHHHHHHHHHHh-----------------------CCChhhHHHHHHHHH--------hcC-------CccCc--c--
Q 048737           64 -LKFFSNALDILVK-----------------------LNDSTHTVQLWDIMV--------GIG-------FNLMP--N--  100 (274)
Q Consensus        64 -~~~~~~l~~~~~~-----------------------~~~~~~a~~~~~~~~--------~~~-------~~~~~--~--  100 (274)
                       ..|...++..+-.                       ..+..++.+....+.        ..+       +.+.|  +  
T Consensus       566 ~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~  645 (799)
T KOG4162|consen  566 ALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPDSL  645 (799)
T ss_pred             HHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcccccCCCCch
Confidence             1122222221110                       001111111111111        001       00111  1  


Q ss_pred             ----HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCC-cchHH
Q 048737          101 ----LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT-PLNCA  175 (274)
Q Consensus       101 ----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~  175 (274)
                          ...|......+.+.+..++|...+.+..+. .+.....|......+...|.+++|.+.|......  .|+ +...+
T Consensus       646 ~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~l--dP~hv~s~~  722 (799)
T KOG4162|consen  646 WYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALAL--DPDHVPSMT  722 (799)
T ss_pred             HHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhc--CCCCcHHHH
Confidence                234666777888899999999888887765 2345677777778888899999999999988774  454 56889


Q ss_pred             HHHHHHHhcCChHHHHH--HHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          176 TAITMLLDADEPEFAIE--IWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       176 ~l~~~~~~~~~~~~a~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      ++..++.+.|+...|..  ++..+.+.+. .+...|-.+-..+-+.|+.++|-+.|....+.
T Consensus       723 Ala~~lle~G~~~la~~~~~L~dalr~dp-~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  723 ALAELLLELGSPRLAEKRSLLSDALRLDP-LNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             HHHHHHHHhCCcchHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            99999999999888888  9999998874 67889999999999999999999999987654

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.32  E-value=0.00045  Score=59.87  Aligned_cols=192  Identities=11%  Similarity=0.060  Sum_probs=139.2

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   82 (274)
                      .|.|+.++|..+++....   ..|+|..+...+-.+|-+.++.++|..+|++..+.  -|+......+..+|.+.+++.+
T Consensus        54 ~r~gk~~ea~~~Le~~~~---~~~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~  128 (932)
T KOG2053|consen   54 FRLGKGDEALKLLEALYG---LKGTDDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKK  128 (932)
T ss_pred             HHhcCchhHHHHHhhhcc---CCCCchHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHH
Confidence            578999999999988844   47778889999999999999999999999999874  5778888899999999998877


Q ss_pred             HHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCC----------hhhHHHHHHHHHhcC-CCCChhhHHHHHHHHHhcCC
Q 048737           83 TVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNND----------VDNVFRFFDQMVFHG-AFPDSLTYNMIFECLIKNKK  151 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~  151 (274)
                      -.++--++-+.   ++.+...+-++++.+.+.-.          ..-|...++.+.+.+ ..-+..-...-...+...|+
T Consensus       129 qQkaa~~LyK~---~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k  205 (932)
T KOG2053|consen  129 QQKAALQLYKN---FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGK  205 (932)
T ss_pred             HHHHHHHHHHh---CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhccc
Confidence            66665555553   45666777777776665422          223556666666543 22222223333445567889


Q ss_pred             HhHHHHHH-HHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 048737          152 VHEVENFF-HEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGI  202 (274)
Q Consensus       152 ~~~a~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  202 (274)
                      +++|++++ ....+.-..-+...-+.-+..+...+++.+..++..++...|.
T Consensus       206 ~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~  257 (932)
T KOG2053|consen  206 YQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGN  257 (932)
T ss_pred             HHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCC
Confidence            99999999 4444433333444555677888889999999999999888773

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.31  E-value=4.4e-05  Score=51.06  Aligned_cols=102  Identities=9%  Similarity=-0.035  Sum_probs=73.4

Q ss_pred             HHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCC--CChhhHHHH
Q 048737           65 KFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAF--PDSLTYNMI  142 (274)
Q Consensus        65 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l  142 (274)
                      .++..+...+.+.|++++|.+.|+.+.+...+.+.....+..+..++.+.|+++.|...|+.+......  ....++..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            455667777788888888888888888754111222456677888888888888888888888764321  124567777


Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhCC
Q 048737          143 FECLIKNKKVHEVENFFHEMIKNE  166 (274)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~~~  166 (274)
                      ..++...|++++|...++++.+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHC
Confidence            778888888888888888887753

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.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.28  E-value=0.0012  Score=54.04  Aligned_cols=84  Identities=18%  Similarity=0.150  Sum_probs=49.0

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC-HHHHHHHHHHHHhCCChh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT-LKFFSNALDILVKLNDST   81 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~   81 (274)
                      +.+|+++.|..+|.+..   .+.|.|...|..-..+|+..|++++|++=-.+.++  +.|+ +..|.....++.-.|+++
T Consensus        13 ~s~~d~~~ai~~~t~ai---~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~~   87 (539)
T KOG0548|consen   13 FSSGDFETAIRLFTEAI---MLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDYE   87 (539)
T ss_pred             cccccHHHHHHHHHHHH---ccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccHH
Confidence            45677777777777763   33666666666666666666666666555544443  2333 345555555555555555


Q ss_pred             hHHHHHHHHH
Q 048737           82 HTVQLWDIMV   91 (274)
Q Consensus        82 ~a~~~~~~~~   91 (274)
                      +|..-|.+-+
T Consensus        88 eA~~ay~~GL   97 (539)
T KOG0548|consen   88 EAILAYSEGL   97 (539)
T ss_pred             HHHHHHHHHh
Confidence            5555554443

>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=7.5e-05  Score=58.09  Aligned_cols=145  Identities=10%  Similarity=0.107  Sum_probs=105.2

Q ss_pred             hHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh-CCChhhHHHHHHHHHhcCCccCccHHhHHHHH
Q 048737           30 LAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVK-LNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVV  108 (274)
Q Consensus        30 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~  108 (274)
                      .+|-.+++..-+.+..+.|..+|.+.++.+ ..+...|......-.. .++.+.|.++|+...+.   ++.+...|...+
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~---f~~~~~~~~~Y~   77 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK---FPSDPDFWLEYL   77 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH---HTT-HHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH---CCCCHHHHHHHH
Confidence            368888888888888999999999998643 3345555555444233 56777799999999886   577888899999


Q ss_pred             HHHHhcCChhhHHHHHHHHHhcCCCCCh---hhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHH
Q 048737          109 GLLCNNNDVDNVFRFFDQMVFHGAFPDS---LTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITML  181 (274)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  181 (274)
                      +.+.+.++.+.|..+|++.... +.++.   ..|...+..=.+.|+.+.+.++..++.+.  .|+...+..+++-|
T Consensus        78 ~~l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~ry  150 (280)
T PF05843_consen   78 DFLIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDRY  150 (280)
T ss_dssp             HHHHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCCT
T ss_pred             HHHHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHHh
Confidence            9999999999999999998765 33222   48888888888889999999999888773  45545555554443

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

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

Probab=98.28  E-value=2.6e-05  Score=49.42  Aligned_cols=92  Identities=11%  Similarity=0.127  Sum_probs=48.3

Q ss_pred             HHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 048737           68 SNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLI  147 (274)
Q Consensus        68 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  147 (274)
                      ..+...+...|+++.|...++++.+..   +.+...+..+..++...+++++|.+.++...+.. +.+..++..+...+.
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~   79 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELD---PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcC---CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHH
Confidence            334445555566666666666655543   2333445555555555566666666665555432 122344555555555


Q ss_pred             hcCCHhHHHHHHHHHH
Q 048737          148 KNKKVHEVENFFHEMI  163 (274)
Q Consensus       148 ~~~~~~~a~~~~~~~~  163 (274)
                      ..|++++|...+....
T Consensus        80 ~~~~~~~a~~~~~~~~   95 (100)
T cd00189          80 KLGKYEEALEAYEKAL   95 (100)
T ss_pred             HHHhHHHHHHHHHHHH
Confidence            5555555555555544

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

Probab=98.28  E-value=2.2e-05  Score=63.25  Aligned_cols=88  Identities=10%  Similarity=0.037  Sum_probs=76.3

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   82 (274)
                      ...|++++|++.|++..+.   .|.+...|..+..+|.+.|++++|+..++++++.. +.+...|..+..+|...|+++.
T Consensus        13 ~~~~~~~~Ai~~~~~Al~~---~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~e   88 (356)
T PLN03088         13 FVDDDFALAVDLYTQAIDL---DPNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQT   88 (356)
T ss_pred             HHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHHH
Confidence            4678999999999999776   88888899999999999999999999999998753 4467788888899999999999


Q ss_pred             HHHHHHHHHhcC
Q 048737           83 TVQLWDIMVGIG   94 (274)
Q Consensus        83 a~~~~~~~~~~~   94 (274)
                      |...|++.++..
T Consensus        89 A~~~~~~al~l~  100 (356)
T PLN03088         89 AKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHhC
Confidence            999999999865

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.28  E-value=3.4e-05  Score=53.34  Aligned_cols=91  Identities=5%  Similarity=0.017  Sum_probs=44.9

Q ss_pred             HHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 048737           70 ALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKN  149 (274)
Q Consensus        70 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  149 (274)
                      +...+...|++++|+++|+.+...+   +-+..-|-.|.-++-..|++++|+..|.......+ -|...+-.+..++...
T Consensus        41 ~A~~ly~~G~l~~A~~~f~~L~~~D---p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         41 YAMQLMEVKEFAGAARLFQLLTIYD---AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC---cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHc
Confidence            3344445555555555555555543   23334444455555555555555555555544432 2344455555555555


Q ss_pred             CCHhHHHHHHHHHHh
Q 048737          150 KKVHEVENFFHEMIK  164 (274)
Q Consensus       150 ~~~~~a~~~~~~~~~  164 (274)
                      |+.+.|.+.|+..+.
T Consensus       117 G~~~~A~~aF~~Ai~  131 (157)
T PRK15363        117 DNVCYAIKALKAVVR  131 (157)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555554443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.27  E-value=3.2e-05  Score=60.12  Aligned_cols=131  Identities=11%  Similarity=0.050  Sum_probs=98.4

Q ss_pred             HHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHH-HHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 048737           65 KFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGL-LCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIF  143 (274)
Q Consensus        65 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  143 (274)
                      .+|..+++..-+.+.++.|..+|.++.+.+   ..+..+|-..... |...++.+.|.++|+...+. ...+...|...+
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~---~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~   77 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK---RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYL   77 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC---CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC---CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHH
Confidence            467888888888888999999999998654   3344455555544 33356777799999998876 556788889999


Q ss_pred             HHHHhcCCHhHHHHHHHHHHhCCCCCCc---chHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 048737          144 ECLIKNKKVHEVENFFHEMIKNEWQPTP---LNCATAITMLLDADEPEFAIEIWNYILEN  200 (274)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  200 (274)
                      ..+...++.+.|..+|++.... +.++.   ..|...++.=.+.|+++.+..+.+++.+.
T Consensus        78 ~~l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   78 DFLIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999998865 32322   47888888888899999999999888874

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.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.25  E-value=1.5e-06  Score=42.91  Aligned_cols=28  Identities=21%  Similarity=0.514  Sum_probs=12.3

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      +|++++++|++.|++++|.++|++|.+.
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~   29 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRER   29 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHC
Confidence            3444444444444444444444444433

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.

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

Probab=98.24  E-value=6.4e-05  Score=60.61  Aligned_cols=104  Identities=7%  Similarity=-0.002  Sum_probs=87.0

Q ss_pred             HHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhc
Q 048737           35 FLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNN  114 (274)
Q Consensus        35 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  114 (274)
                      -...+...|++++|++.|++.++.. +-+...|..+..++...|+++.|...++++++..   +.+...|..+..+|...
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~---P~~~~a~~~lg~~~~~l   83 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD---PSLAKAYLRKGTACMKL   83 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---cCCHHHHHHHHHHHHHh
Confidence            4566778899999999999999864 4567888899999999999999999999999976   55788899999999999


Q ss_pred             CChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 048737          115 NDVDNVFRFFDQMVFHGAFPDSLTYNMIFE  144 (274)
Q Consensus       115 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  144 (274)
                      |++++|...|++..+.  .|+.......+.
T Consensus        84 g~~~eA~~~~~~al~l--~P~~~~~~~~l~  111 (356)
T PLN03088         84 EEYQTAKAALEKGASL--APGDSRFTKLIK  111 (356)
T ss_pred             CCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            9999999999999885  455444444443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.22  E-value=2e-06  Score=42.41  Aligned_cols=29  Identities=28%  Similarity=0.358  Sum_probs=16.0

Q ss_pred             hHHHHHHHHHhcCCHhHHHHHHHHHHhCC
Q 048737          138 TYNMIFECLIKNKKVHEVENFFHEMIKNE  166 (274)
Q Consensus       138 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~  166 (274)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555544

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.21  E-value=2.4e-05  Score=56.65  Aligned_cols=106  Identities=12%  Similarity=0.028  Sum_probs=64.8

Q ss_pred             CCChhhHHHHHHHHHhc-----CCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHH
Q 048737          133 FPDSLTYNMIFECLIKN-----KKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEA  207 (274)
Q Consensus       133 ~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  207 (274)
                      ..|..+|..++..|.+.     |..+=....+..|.+-|+.-|..+|+.|++.+=+ |.+-               |.. 
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv---------------p~n-  106 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV---------------PRN-  106 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc---------------ccc-
Confidence            34777788888777654     4555566667777777777778888888777654 2221               110 


Q ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh
Q 048737          208 SANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS  257 (274)
Q Consensus       208 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~  257 (274)
                      .+.++..-|  -.+.+-|++++++|...|+.||..|+..|++.+.+.+..
T Consensus       107 ~fQ~~F~hy--p~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  107 FFQAEFMHY--PRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HHHHHhccC--cHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHH
Confidence            111111101  123445677777777777777777777777777766655

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

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

Probab=98.20  E-value=5.8e-06  Score=51.69  Aligned_cols=80  Identities=15%  Similarity=0.186  Sum_probs=45.8

Q ss_pred             ccchHHHHHHHHHHHhccCCCCc--hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhh
Q 048737            5 EGNVVEANKTFGEMVERFEWNPE--HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   82 (274)
                      .|+++.|+.+|+++.+.   .|.  +...+..+..++.+.|++++|+.++++ .+.+ +.+....-.+..++.+.|++++
T Consensus         2 ~~~y~~Ai~~~~k~~~~---~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~e   76 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLEL---DPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEE   76 (84)
T ss_dssp             TT-HHHHHHHHHHHHHH---HCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHH
T ss_pred             CccHHHHHHHHHHHHHH---CCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHH
Confidence            46677777777777665   331  334455567777777777777777766 2221 1122333344666667777777


Q ss_pred             HHHHHHH
Q 048737           83 TVQLWDI   89 (274)
Q Consensus        83 a~~~~~~   89 (274)
                      |.+++++
T Consensus        77 Ai~~l~~   83 (84)
T PF12895_consen   77 AIKALEK   83 (84)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            7776654

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.19  E-value=9.6e-05  Score=52.93  Aligned_cols=81  Identities=11%  Similarity=-0.064  Sum_probs=41.5

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCC--CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHH
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGENCFP--TLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNA  106 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  106 (274)
                      ...|..+...+...|++++|+..|++.......+  ...++..+...+...|++++|...+++.....   +....++..
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~---~~~~~~~~~  111 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN---PFLPQALNN  111 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---cCcHHHHHH
Confidence            4445555555556666666666666655432111  12345555555666666666666666655532   223334444


Q ss_pred             HHHHHH
Q 048737          107 VVGLLC  112 (274)
Q Consensus       107 l~~~~~  112 (274)
                      +...+.
T Consensus       112 la~i~~  117 (168)
T CHL00033        112 MAVICH  117 (168)
T ss_pred             HHHHHH
Confidence            444444

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.19  E-value=2.7e-05  Score=53.77  Aligned_cols=101  Identities=7%  Similarity=0.030  Sum_probs=85.3

Q ss_pred             CchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHH
Q 048737           26 PEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYN  105 (274)
Q Consensus        26 p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  105 (274)
                      +++......+...+...|++++|.++|+.+...+ +-+..-|-.|.-++-..|++++|...|.......   +.|+..+-
T Consensus        32 ~~~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~---~ddp~~~~  107 (157)
T PRK15363         32 TQPLNTLYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK---IDAPQAPW  107 (157)
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC---CCCchHHH
Confidence            4467777778888899999999999999988754 3356667788888889999999999999999876   56788899


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhc
Q 048737          106 AVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       106 ~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      .+..++...|+.+.|.+.|+.....
T Consensus       108 ~ag~c~L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        108 AAAECYLACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999999987765

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

Probab=98.18  E-value=0.00047  Score=59.52  Aligned_cols=197  Identities=12%  Similarity=0.040  Sum_probs=120.1

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhc-CC--------CCCCHHHHHHHHH
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKG-EN--------CFPTLKFFSNALD   72 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~--------~~~~~~~~~~l~~   72 (274)
                      |...|+.+.|.+-.+.++.        ...|..+.+.|.+..+.+-|.-.+-.|.. +|        ..|+ .+-....-
T Consensus       738 yvtiG~MD~AfksI~~IkS--------~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAv  808 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIKS--------DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAV  808 (1416)
T ss_pred             EEEeccHHHHHHHHHHHhh--------hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHH
Confidence            5567889999888777654        34799999999999998888777766643 22        1122 22222333


Q ss_pred             HHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH
Q 048737           73 ILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKV  152 (274)
Q Consensus        73 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  152 (274)
                      .....|.+++|+.+|.+-.+.+           .|=+.|-..|.+++|.++-+.--.-.   -..||.....-+...+|.
T Consensus       809 LAieLgMlEeA~~lYr~ckR~D-----------LlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di  874 (1416)
T KOG3617|consen  809 LAIELGMLEEALILYRQCKRYD-----------LLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDI  874 (1416)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHH-----------HHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccH
Confidence            4457788899999988876543           33355666788888888765432211   235666666666677777


Q ss_pred             hHHHHHHHHHH----------hCC---------CCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHH
Q 048737          153 HEVENFFHEMI----------KNE---------WQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLL  213 (274)
Q Consensus       153 ~~a~~~~~~~~----------~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  213 (274)
                      +.|++.|++..          ...         -..|...|.-.....-..|+.+.|+.+|....+         |-+++
T Consensus       875 ~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~V  945 (1416)
T KOG3617|consen  875 EAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMV  945 (1416)
T ss_pred             HHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhhe
Confidence            77777776431          110         122334444555555567777777777766543         23334


Q ss_pred             HHHHhcCCcchHHHHHH
Q 048737          214 VGLRNLGRLSDVRRFAE  230 (274)
Q Consensus       214 ~~~~~~g~~~~a~~~~~  230 (274)
                      +..|-.|+.++|-++-+
T Consensus       946 rI~C~qGk~~kAa~iA~  962 (1416)
T KOG3617|consen  946 RIKCIQGKTDKAARIAE  962 (1416)
T ss_pred             eeEeeccCchHHHHHHH
Confidence            44444455555544433

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

Probab=98.18  E-value=5.8e-06  Score=49.35  Aligned_cols=63  Identities=22%  Similarity=0.243  Sum_probs=47.7

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHH
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNA   70 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   70 (274)
                      .+.|++++|+++|+++...   .|++...+..++.+|.+.|++++|.++++++...  .|+...|..+
T Consensus         2 l~~~~~~~A~~~~~~~l~~---~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l   64 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQR---NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQL   64 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHH---TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHH
Confidence            3578888888888888776   7878888888888888888888888888888774  3564444444

...

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

Probab=98.17  E-value=4.2e-06  Score=52.33  Aligned_cols=82  Identities=9%  Similarity=0.196  Sum_probs=41.9

Q ss_pred             CCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHH
Q 048737           77 LNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVE  156 (274)
Q Consensus        77 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  156 (274)
                      .|+++.|..+++++.+.... .++...+..+..+|.+.|++++|..++++ .+.+. .+......+..+|.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~-~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPT-NPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCG-THHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHH
Confidence            35566666666666654300 11334444456666666666666666665 22211 12233334456666666666666


Q ss_pred             HHHHH
Q 048737          157 NFFHE  161 (274)
Q Consensus       157 ~~~~~  161 (274)
                      +++++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            66654

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.16  E-value=0.00055  Score=52.03  Aligned_cols=184  Identities=11%  Similarity=0.040  Sum_probs=105.2

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHH---HHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKF---FSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMY  104 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  104 (274)
                      ++..+......+.+.|++++|++.|+++...- +-+...   .-.+..++.+.++++.|...+++.++...+. | ...+
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~y-P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~-~-~~~~  107 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRY-PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTH-P-NIDY  107 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCC-C-chHH
Confidence            34445556777788999999999999998753 222222   2456788899999999999999999875211 1 2223


Q ss_pred             HHHHHHHH--hcC---------------C---hhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737          105 NAVVGLLC--NNN---------------D---VDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       105 ~~l~~~~~--~~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      -..+.+.+  ..+               |   ..+|+..|+++.+.  -|+..             -..+|...+..+..
T Consensus       108 a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S~-------------ya~~A~~rl~~l~~  172 (243)
T PRK10866        108 VLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNSQ-------------YTTDATKRLVFLKD  172 (243)
T ss_pred             HHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCCh-------------hHHHHHHHHHHHHH
Confidence            33333322  111               2   23466667776664  34432             12233322222221


Q ss_pred             CCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCccHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 048737          165 NEWQPTPLNCATAITMLLDADEPEFAIEIWNYILEN--GILPLEASANVLLVGLRNLGRLSDVRRFAEEML  233 (274)
Q Consensus       165 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  233 (274)
                      .   .-... -.+.+.|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|.++...+.
T Consensus       173 ~---la~~e-~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        173 R---LAKYE-LSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             H---HHHHH-HHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            0   00001 13455566667777777777776653  233344555566677777777777776665543

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.13  E-value=0.0013  Score=54.15  Aligned_cols=183  Identities=11%  Similarity=0.095  Sum_probs=131.0

Q ss_pred             hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcC---ChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHH
Q 048737           81 THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNN---DVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVEN  157 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  157 (274)
                      +++..++++.+..-  ...+..+|..+.+---..-   +.+...+.+++++..-..--..+|...+..-.+..-++.|..
T Consensus       310 ~e~~~~yEr~I~~l--~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~  387 (656)
T KOG1914|consen  310 DEAASIYERAIEGL--LKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARK  387 (656)
T ss_pred             HHHHHHHHHHHHHH--HHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHH
Confidence            45556666666543  3344555555544322222   366777788887765333335678888888888888999999


Q ss_pred             HHHHHHhCCCCC-CcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC
Q 048737          158 FFHEMIKNEWQP-TPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       158 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  236 (274)
                      +|.++.+.+..+ +....++++..+| .++..-|.++|+--.+. ..-++.--...+..+...|+-..+..+|++....+
T Consensus       388 iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~  465 (656)
T KOG1914|consen  388 IFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSV  465 (656)
T ss_pred             HHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhcc
Confidence            999999988777 6777888998887 56888899999865553 22333455678888899999999999999999986


Q ss_pred             CccCH--HHHHHHHHHHHhcChh--HHHHHHHHHH
Q 048737          237 ILIYD--VTMQKLKKAFYNESRS--MRDRFDSLER  267 (274)
Q Consensus       237 ~~~~~--~~~~~l~~~~~~~g~~--a~~~~~~~~~  267 (274)
                      +.|+.  ..|..+|.-=+.-|+.  +.++-++...
T Consensus       466 l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  466 LSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             CChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            66554  7899999988888988  4444444433

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.12  E-value=0.00016  Score=51.78  Aligned_cols=83  Identities=5%  Similarity=-0.080  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 048737           64 LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIF  143 (274)
Q Consensus        64 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  143 (274)
                      ...+..+...+...|++++|...|++......+......++..+..++...|++++|...+++..... +....++..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            34445555566666777777777766665430000123456666666666666666666666665531 11233444444


Q ss_pred             HHHH
Q 048737          144 ECLI  147 (274)
Q Consensus       144 ~~~~  147 (274)
                      ..+.
T Consensus       114 ~i~~  117 (168)
T CHL00033        114 VICH  117 (168)
T ss_pred             HHHH
Confidence            4444

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.09  E-value=0.0032  Score=51.76  Aligned_cols=213  Identities=11%  Similarity=0.083  Sum_probs=129.9

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH----
Q 048737           32 YETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV----  107 (274)
Q Consensus        32 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l----  107 (274)
                      ...+.+..-+..+++.|++.+....+..  -+..-++..-.++...|.+......-+..++.|   .-...-|+.+    
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~g---re~rad~klIak~~  301 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVG---RELRADYKLIAKAL  301 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHh---HHHHHHHHHHHHHH
Confidence            3445566666666666666666666543  344444555556666666665555555555544   1112222222    


Q ss_pred             ---HHHHHhcCChhhHHHHHHHHHhcCCCCChhh-------------------------HHHHHHHHHhcCCHhHHHHHH
Q 048737          108 ---VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLT-------------------------YNMIFECLIKNKKVHEVENFF  159 (274)
Q Consensus       108 ---~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------------------------~~~li~~~~~~~~~~~a~~~~  159 (274)
                         ..+|.+.++++.|+..|++.+.....|+..+                         .-.-...+.+.|++..|...|
T Consensus       302 ~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~Y  381 (539)
T KOG0548|consen  302 ARLGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHY  381 (539)
T ss_pred             HHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHH
Confidence               2234445566666666666544333333211                         111244567789999999999


Q ss_pred             HHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCcc
Q 048737          160 HEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILI  239 (274)
Q Consensus       160 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  239 (274)
                      .+++... +-|...|..-.-+|.+.|.+..|..-.+...+.+. +....|..=..++....++++|.+.|.+..+.+  |
T Consensus       382 teAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p-~~~kgy~RKg~al~~mk~ydkAleay~eale~d--p  457 (539)
T KOG0548|consen  382 TEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDP-NFIKAYLRKGAALRAMKEYDKALEAYQEALELD--P  457 (539)
T ss_pred             HHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--c
Confidence            9988875 55678899999999999999999888877777642 444555555566666678899999998888764  5


Q ss_pred             CHHHHHHHHHHHHh
Q 048737          240 YDVTMQKLKKAFYN  253 (274)
Q Consensus       240 ~~~~~~~l~~~~~~  253 (274)
                      +..-+.--+.-|..
T Consensus       458 ~~~e~~~~~~rc~~  471 (539)
T KOG0548|consen  458 SNAEAIDGYRRCVE  471 (539)
T ss_pred             hhHHHHHHHHHHHH
Confidence            54444444444443

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

Probab=98.08  E-value=0.00025  Score=54.06  Aligned_cols=102  Identities=9%  Similarity=0.019  Sum_probs=57.2

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhC---CChhhHHHHHHHHHhcCCccCccH
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKL---NDSTHTVQLWDIMVGIGFNLMPNL  101 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~  101 (274)
                      +|.|+..|-.|...|...|+.+.|..-|.+..+. -++++..+..+..++...   ..-.++..+|+++...+   +.|+
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL-~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D---~~~i  227 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRL-AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD---PANI  227 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC---CccH
Confidence            5666666666666666666666666666666553 133444444444443322   12345556666666654   4445


Q ss_pred             HhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737          102 IMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       102 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      .+...|...+...|++.+|...|+.|.+.
T Consensus       228 ral~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         228 RALSLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            55555555666666666666666666654

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

Probab=98.08  E-value=0.0029  Score=49.44  Aligned_cols=198  Identities=12%  Similarity=0.076  Sum_probs=122.1

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcC----CCCC-CHHHHHHHHHHHHhCCChhhHHHHHHHHHh----cCCccCc
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGE----NCFP-TLKFFSNALDILVKLNDSTHTVQLWDIMVG----IGFNLMP   99 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~   99 (274)
                      ...|......|...|++++|.+.|.+....    +-+. -...|.....+|.+ .+++.|...+++...    .|   .|
T Consensus        35 a~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~-~~~~~Ai~~~~~A~~~y~~~G---~~  110 (282)
T PF14938_consen   35 ADLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKK-GDPDEAIECYEKAIEIYREAG---RF  110 (282)
T ss_dssp             HHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH-TTHHHHHHHHHHHHHHHHHCT----H
T ss_pred             HHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh-hCHHHHHHHHHHHHHHHHhcC---cH
Confidence            345777788888889999999988876432    1111 12344555555544 488899888888764    34   33


Q ss_pred             c--HHhHHHHHHHHHhc-CChhhHHHHHHHHHhc----CCCCC--hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCC
Q 048737          100 N--LIMYNAVVGLLCNN-NDVDNVFRFFDQMVFH----GAFPD--SLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT  170 (274)
Q Consensus       100 ~--~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~  170 (274)
                      +  ...+..+...|... |++++|.+.|++..+.    | .+.  ..++..+...+.+.|++++|.++|++....-...+
T Consensus       111 ~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~  189 (282)
T PF14938_consen  111 SQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENN  189 (282)
T ss_dssp             HHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHC
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhccc
Confidence            3  44677788888888 8999999999886542    2 111  34566778888999999999999998876532221


Q ss_pred             -----cc-hHHHHHHHHHhcCChHHHHHHHHHHHHCC--CCcc--HHHHHHHHHHHHhcCCcchHHHHHHHH
Q 048737          171 -----PL-NCATAITMLLDADEPEFAIEIWNYILENG--ILPL--EASANVLLVGLRNLGRLSDVRRFAEEM  232 (274)
Q Consensus       171 -----~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m  232 (274)
                           .. .|-..+-++...||+..|...+++.....  +..+  ......|+.+| ..|+.+...+.+.+.
T Consensus       190 l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~-~~~D~e~f~~av~~~  260 (282)
T PF14938_consen  190 LLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAY-EEGDVEAFTEAVAEY  260 (282)
T ss_dssp             TTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHH-HTT-CCCHHHHCHHH
T ss_pred             ccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHH-HhCCHHHHHHHHHHH
Confidence                 11 23334446667889999999999887642  2212  33445555554 445555555444444

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.07  E-value=0.00099  Score=58.63  Aligned_cols=180  Identities=8%  Similarity=-0.028  Sum_probs=108.0

Q ss_pred             hHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHH
Q 048737            8 VVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLW   87 (274)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   87 (274)
                      ...|+..|-+..   .+.|.-...|..|...|....+...|.+.|+...+.+ ..+......+...|+...+++.|..+.
T Consensus       474 ~~~al~ali~al---rld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~  549 (1238)
T KOG1127|consen  474 SALALHALIRAL---RLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEIC  549 (1238)
T ss_pred             HHHHHHHHHHHH---hcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHH
Confidence            344444443332   2355445577777777777777777777777776643 334556666777777777777777774


Q ss_pred             HHHHhcCCccCcc--HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC
Q 048737           88 DIMVGIGFNLMPN--LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus        88 ~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                      -..-+..   +.-  ...|....-.|...++..+|+.-|+......+ .|...|..+..+|-+.|++..|.++|.+....
T Consensus       550 l~~~qka---~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dP-kD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L  625 (1238)
T KOG1127|consen  550 LRAAQKA---PAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDP-KDYNLWLGLGEAYPESGRYSHALKVFTKASLL  625 (1238)
T ss_pred             HHHhhhc---hHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCc-hhHHHHHHHHHHHHhcCceehHHHhhhhhHhc
Confidence            3333322   111  12233333446666777777777777766532 36677777888888888888888888776652


Q ss_pred             CCCCCcchHHHH--HHHHHhcCChHHHHHHHHHHH
Q 048737          166 EWQPTPLNCATA--ITMLLDADEPEFAIEIWNYIL  198 (274)
Q Consensus       166 ~~~~~~~~~~~l--~~~~~~~~~~~~a~~~~~~~~  198 (274)
                        .|+. +|...  .-.-+..|.+.+|...+....
T Consensus       626 --rP~s-~y~~fk~A~~ecd~GkYkeald~l~~ii  657 (1238)
T KOG1127|consen  626 --RPLS-KYGRFKEAVMECDNGKYKEALDALGLII  657 (1238)
T ss_pred             --CcHh-HHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence              3432 22222  222345677777777766654

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.06  E-value=7.7e-05  Score=56.59  Aligned_cols=87  Identities=11%  Similarity=0.097  Sum_probs=42.9

Q ss_pred             HhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChh
Q 048737           39 LIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVD  118 (274)
Q Consensus        39 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  118 (274)
                      +.+.+++.+|+..|.+.++.. +-|..-|..-..+|.+.|.++.|.+--+..+..+   +....+|..|-.+|...|+++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD---p~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID---PHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC---hHHHHHHHHHHHHHHccCcHH
Confidence            344455555555555555431 2334444444555555555555555555554433   223445555555555555555


Q ss_pred             hHHHHHHHHHh
Q 048737          119 NVFRFFDQMVF  129 (274)
Q Consensus       119 ~a~~~~~~~~~  129 (274)
                      +|++.|++.++
T Consensus       167 ~A~~aykKaLe  177 (304)
T KOG0553|consen  167 EAIEAYKKALE  177 (304)
T ss_pred             HHHHHHHhhhc
Confidence            55555555544

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.05  E-value=0.0002  Score=60.39  Aligned_cols=144  Identities=10%  Similarity=0.033  Sum_probs=102.9

Q ss_pred             CCchHhHHHHHHHHHh-----ccCcHHHHHHHHHHHhcCCCCCC-HHHHHHHHHHHHhC--------CChhhHHHHHHHH
Q 048737           25 NPEHVLAYETFLITLI-----RGKQVDEALKFLRVMKGENCFPT-LKFFSNALDILVKL--------NDSTHTVQLWDIM   90 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~-----~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~--------~~~~~a~~~~~~~   90 (274)
                      .|.+..+|...+.+..     ..++...|..+|++..+..  |+ ...+..+..++...        .++..+.+..++.
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld--P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE--PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            4558888888887753     3588999999999999853  55 44444443333221        1234445555554


Q ss_pred             HhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCC
Q 048737           91 VGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT  170 (274)
Q Consensus        91 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~  170 (274)
                      ..... .+.+...|.++.-.....|++++|...+++....  .|+...|..+...+...|+.++|.+.+++....  .|.
T Consensus       411 ~al~~-~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~  485 (517)
T PRK10153        411 VALPE-LNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPG  485 (517)
T ss_pred             hhccc-CcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCC
Confidence            44210 2445677888877777789999999999999986  478889999999999999999999999998874  466


Q ss_pred             cchHH
Q 048737          171 PLNCA  175 (274)
Q Consensus       171 ~~~~~  175 (274)
                      ..+|.
T Consensus       486 ~pt~~  490 (517)
T PRK10153        486 ENTLY  490 (517)
T ss_pred             CchHH
Confidence            66654

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.05  E-value=0.0024  Score=56.61  Aligned_cols=158  Identities=12%  Similarity=0.076  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC  145 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (274)
                      .|..+..+-.+.|.+.+|.+-|-+.        .|+..|..+++...+.|.|++-.+++....+..-+|.+  =+.+|-+
T Consensus      1106 vWsqlakAQL~~~~v~dAieSyika--------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~A 1175 (1666)
T KOG0985|consen 1106 VWSQLAKAQLQGGLVKDAIESYIKA--------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFA 1175 (1666)
T ss_pred             HHHHHHHHHHhcCchHHHHHHHHhc--------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHH
Confidence            4444444444444444444333211        13344555555555555555555555444443322222  2344445


Q ss_pred             HHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchH
Q 048737          146 LIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDV  225 (274)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  225 (274)
                      |.+.++..+.++++       .-||......+.+-|...+.++.|.-+|..         +.-|..|...+...|++..|
T Consensus      1176 yAkt~rl~elE~fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~LgeyQ~A 1239 (1666)
T KOG0985|consen 1176 YAKTNRLTELEEFI-------AGPNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLGEYQGA 1239 (1666)
T ss_pred             HHHhchHHHHHHHh-------cCCCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHHHHH
Confidence            55555544433332       124444444445555555555544444432         23445555555556665555


Q ss_pred             HHHHHHHHhCCCccCHHHHHHHHHHHHhcC
Q 048737          226 RRFAEEMLNRRILIYDVTMQKLKKAFYNES  255 (274)
Q Consensus       226 ~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g  255 (274)
                      .+.-++..      +..||..+-.+|...+
T Consensus      1240 VD~aRKAn------s~ktWK~VcfaCvd~~ 1263 (1666)
T KOG0985|consen 1240 VDAARKAN------STKTWKEVCFACVDKE 1263 (1666)
T ss_pred             HHHhhhcc------chhHHHHHHHHHhchh
Confidence            54433321      3344554444554443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=98.04  E-value=0.00064  Score=45.31  Aligned_cols=106  Identities=9%  Similarity=-0.006  Sum_probs=62.1

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHhcCCCCCC--HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCc---cHHhHHHHH
Q 048737           34 TFLITLIRGKQVDEALKFLRVMKGENCFPT--LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMP---NLIMYNAVV  108 (274)
Q Consensus        34 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~~l~  108 (274)
                      .+..++-..|+.++|+.+|++....|....  ...+..+...+...|++++|..+++......   +.   +......+.
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~---p~~~~~~~l~~f~A   82 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF---PDDELNAALRVFLA   82 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---CCccccHHHHHHHH
Confidence            355566667777777777777777665443  2345556666777777777777777776642   11   222223333


Q ss_pred             HHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048737          109 GLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECL  146 (274)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  146 (274)
                      .++...|+.++|++.+-....    ++...|..-|..|
T Consensus        83 l~L~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~y  116 (120)
T PF12688_consen   83 LALYNLGRPKEALEWLLEALA----ETLPRYRRAIRFY  116 (120)
T ss_pred             HHHHHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHH
Confidence            456666777777776655543    2333444444444

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.03  E-value=0.00088  Score=58.93  Aligned_cols=183  Identities=10%  Similarity=0.024  Sum_probs=129.7

Q ss_pred             cHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHH
Q 048737           44 QVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRF  123 (274)
Q Consensus        44 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  123 (274)
                      +...|+..|-+..+.... =...|..|...|...-+...|.+.|+.+.+.+   ..+...+....+.|++..+++.|..+
T Consensus       473 ~~~~al~ali~alrld~~-~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD---atdaeaaaa~adtyae~~~we~a~~I  548 (1238)
T KOG1127|consen  473 NSALALHALIRALRLDVS-LAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD---ATDAEAAAASADTYAEESTWEEAFEI  548 (1238)
T ss_pred             hHHHHHHHHHHHHhcccc-hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---chhhhhHHHHHHHhhccccHHHHHHH
Confidence            355666666555543211 13467788888887778889999999998876   56778888999999999999999988


Q ss_pred             HHHHHhcC-CCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 048737          124 FDQMVFHG-AFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGI  202 (274)
Q Consensus       124 ~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  202 (274)
                      .-..-+.. ...-...|....-.|...++..++..-|....+.. +.|...|..+..+|.+.|++..|.++|.+..... 
T Consensus       549 ~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~Lr-  626 (1238)
T KOG1127|consen  549 CLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLR-  626 (1238)
T ss_pred             HHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcC-
Confidence            43332221 01112233444445677888888888888877654 4467789999999999999999999999887744 


Q ss_pred             CccHHHHHHH--HHHHHhcCCcchHHHHHHHHHh
Q 048737          203 LPLEASANVL--LVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       203 ~~~~~~~~~l--~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                       |+. .|...  ....+..|.+.++.+.+...+.
T Consensus       627 -P~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  627 -PLS-KYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             -cHh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence             442 33332  2335678999999998888764

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.02  E-value=0.0035  Score=55.66  Aligned_cols=219  Identities=10%  Similarity=0.071  Sum_probs=131.9

Q ss_pred             cchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHH
Q 048737            6 GNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQ   85 (274)
Q Consensus         6 g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   85 (274)
                      +.+++|.+.-++..        .+..|..+..+-.+.|.+.+|++-|-+.      -|+..|..++....+.|.+++-.+
T Consensus      1089 ~~ldRA~efAe~~n--------~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~ 1154 (1666)
T KOG0985|consen 1089 GSLDRAYEFAERCN--------EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVK 1154 (1666)
T ss_pred             hhHHHHHHHHHhhC--------ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHH
Confidence            56667766555442        3468999999999999999998877332      367889999999999999999999


Q ss_pred             HHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh-
Q 048737           86 LWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK-  164 (274)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-  164 (274)
                      ++....+..  -.|.  +=+.|+-+|++.++..+.++++.       -||......+..-|...+.++.|.-+|..... 
T Consensus      1155 yL~MaRkk~--~E~~--id~eLi~AyAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~ 1223 (1666)
T KOG0985|consen 1155 YLLMARKKV--REPY--IDSELIFAYAKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNF 1223 (1666)
T ss_pred             HHHHHHHhh--cCcc--chHHHHHHHHHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhH
Confidence            988887765  3444  44678888998888777655441       24444444444444444444444333322110 


Q ss_pred             ------------------C-CCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchH
Q 048737          165 ------------------N-EWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDV  225 (274)
Q Consensus       165 ------------------~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  225 (274)
                                        . .-..+..||..+-.+|...+.+.-|.     |-..++.....-..-++..|...|-+++.
T Consensus      1224 a~La~TLV~LgeyQ~AVD~aRKAns~ktWK~VcfaCvd~~EFrlAQ-----iCGL~iivhadeLeeli~~Yq~rGyFeEl 1298 (1666)
T KOG0985|consen 1224 AKLASTLVYLGEYQGAVDAARKANSTKTWKEVCFACVDKEEFRLAQ-----ICGLNIIVHADELEELIEYYQDRGYFEEL 1298 (1666)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHhchhhhhHHH-----hcCceEEEehHhHHHHHHHHHhcCcHHHH
Confidence                              0 00123445555555555555444332     22233344455666777888888888887


Q ss_pred             HHHHHHHHhCCCccCHHHHHHHHHHHHhcC
Q 048737          226 RRFAEEMLNRRILIYDVTMQKLKKAFYNES  255 (274)
Q Consensus       226 ~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g  255 (274)
                      +.+++.-.... ....-.|+-|.-.|++-.
T Consensus      1299 Isl~Ea~LGLE-RAHMgmfTELaiLYskyk 1327 (1666)
T KOG0985|consen 1299 ISLLEAGLGLE-RAHMGMFTELAILYSKYK 1327 (1666)
T ss_pred             HHHHHhhhchh-HHHHHHHHHHHHHHHhcC
Confidence            77776543221 112234444444454443

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

Probab=98.02  E-value=1.5e-05  Score=47.07  Aligned_cols=51  Identities=22%  Similarity=0.306  Sum_probs=27.1

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhc
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKG   57 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~   57 (274)
                      +.|++++|++.|+++.+.   .|.+..+|..+..++...|++++|...|+++.+
T Consensus         9 ~~g~~~~A~~~~~~~l~~---~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    9 QQGDYDEAIAAFEQALKQ---DPDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HCTHHHHHHHHHHHHHCC---STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            445555555555555444   455555555555555555555555555555543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.00  E-value=0.00099  Score=47.90  Aligned_cols=90  Identities=9%  Similarity=0.048  Sum_probs=65.5

Q ss_pred             HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCc--cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHH
Q 048737           64 LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMP--NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNM  141 (274)
Q Consensus        64 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  141 (274)
                      ...+..+...+...|++++|...|++..+..  ..+  ....+..+..++.+.|++++|...+++...... -+...+..
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~  111 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLE--EDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNP-KQPSALNN  111 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh--hccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHH
Confidence            4456777788888899999999999888754  122  246788888888999999999999988877532 24566666


Q ss_pred             HHHHHHhcCCHhHHH
Q 048737          142 IFECLIKNKKVHEVE  156 (274)
Q Consensus       142 li~~~~~~~~~~~a~  156 (274)
                      +...+...|+...+.
T Consensus       112 lg~~~~~~g~~~~a~  126 (172)
T PRK02603        112 IAVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHHcCChHhHh
Confidence            777777777654443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.98  E-value=0.0015  Score=55.31  Aligned_cols=138  Identities=9%  Similarity=-0.063  Sum_probs=81.0

Q ss_pred             CCCCCHHHHHHHHHHHHhC-----CChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcC--------ChhhHHHHHH
Q 048737           59 NCFPTLKFFSNALDILVKL-----NDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNN--------DVDNVFRFFD  125 (274)
Q Consensus        59 ~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~  125 (274)
                      +.+.+...|...+.+....     ++...|..+|+++++..   |-....|..+..++....        +...+.+..+
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld---P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE---PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            3456677777777765432     23667888888888864   333444554444333221        1223333333


Q ss_pred             HHHhc-CCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 048737          126 QMVFH-GAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENG  201 (274)
Q Consensus       126 ~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  201 (274)
                      +.... ....+...|..+.-.....|++++|...+++..+.+  |+...|..+...+...|+.++|.+.+++....+
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            32221 122344556666555556677777777777777654  566677777777777777777777777766643

>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=97.96  E-value=0.00014  Score=52.87  Aligned_cols=103  Identities=14%  Similarity=0.177  Sum_probs=71.2

Q ss_pred             hHhHHHHHHHHHhcc-----CcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHH
Q 048737           28 HVLAYETFLITLIRG-----KQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLI  102 (274)
Q Consensus        28 ~~~~~~~li~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  102 (274)
                      +-.+|..++..+.+.     |..+=....+..|.+-|+.-|..+|+.|++.+=+ |.+- -..+|+.+--.         
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~F~h---------  114 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAEFMH---------  114 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHHhcc---------
Confidence            667777777777544     6677777777888888888888888888887654 3321 22222222211         


Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKK  151 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  151 (274)
                              |  -.+-+-|++++++|+..|+-||..++..+++.+++.+.
T Consensus       115 --------y--p~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  115 --------Y--PRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             --------C--cHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                    1  12356678899999999999999999999999887764

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.94  E-value=0.00023  Score=54.12  Aligned_cols=103  Identities=12%  Similarity=0.171  Sum_probs=87.1

Q ss_pred             HHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcC
Q 048737           72 DILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD-SLTYNMIFECLIKNK  150 (274)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~  150 (274)
                      +-+.+.+++.+|...|.++++..   +.|.+-|..-..+|++.|.++.|++-.+..+..  .|. ..+|..|..+|...|
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~---P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~g  163 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELD---PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALG  163 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcC---CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccC
Confidence            45667899999999999999975   667888889999999999999999999888774  344 789999999999999


Q ss_pred             CHhHHHHHHHHHHhCCCCCCcchHHHHHHHH
Q 048737          151 KVHEVENFFHEMIKNEWQPTPLNCATAITML  181 (274)
Q Consensus       151 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  181 (274)
                      ++++|++.|.+.++  +.|+..+|-.=+...
T Consensus       164 k~~~A~~aykKaLe--ldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  164 KYEEAIEAYKKALE--LDPDNESYKSNLKIA  192 (304)
T ss_pred             cHHHHHHHHHhhhc--cCCCcHHHHHHHHHH
Confidence            99999999999887  578887776555443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.93  E-value=0.0047  Score=47.00  Aligned_cols=179  Identities=7%  Similarity=-0.012  Sum_probs=110.2

Q ss_pred             CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhH---HHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhH
Q 048737           63 TLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMY---NAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTY  139 (274)
Q Consensus        63 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  139 (274)
                      +...+-.....+...|+++.|.+.|+.+....   +-+...-   -.+..++.+.++++.|...+++..+..+.-...-|
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~y---P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~  107 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRY---PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDY  107 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHH
Confidence            33334345555667899999999999999864   3233332   45667889999999999999999886432223344


Q ss_pred             HHHHHHHHh--cC---------------CH---hHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048737          140 NMIFECLIK--NK---------------KV---HEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILE  199 (274)
Q Consensus       140 ~~li~~~~~--~~---------------~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  199 (274)
                      ...+.+.+.  .+               |.   .+|...|+.++               +-|-...-..+|..-+..+..
T Consensus       108 a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li---------------~~yP~S~ya~~A~~rl~~l~~  172 (243)
T PRK10866        108 VLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLV---------------RGYPNSQYTTDATKRLVFLKD  172 (243)
T ss_pred             HHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHH---------------HHCcCChhHHHHHHHHHHHHH
Confidence            444444331  11               11   22333444443               333333344455544444433


Q ss_pred             CCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC--CCccCHHHHHHHHHHHHhcChh--HHHHHH
Q 048737          200 NGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR--RILIYDVTMQKLKKAFYNESRS--MRDRFD  263 (274)
Q Consensus       200 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~--~~~~~~~~~~~l~~~~~~~g~~--a~~~~~  263 (274)
                      . +  - ..--.+...|.+.|.+..|..-++.+.+.  +.+........++.+|...|..  |.....
T Consensus       173 ~-l--a-~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~  236 (243)
T PRK10866        173 R-L--A-KYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAK  236 (243)
T ss_pred             H-H--H-HHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            1 0  0 11124567789999999999999999875  4455667788899999999877  544443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.90  E-value=0.002  Score=55.23  Aligned_cols=106  Identities=15%  Similarity=0.092  Sum_probs=53.1

Q ss_pred             HhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHH
Q 048737          112 CNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAI  191 (274)
Q Consensus       112 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  191 (274)
                      .+..+|.+|+.+++.+.+..  .-..-|..+...|...|+++.|+++|-+.-         .++-.|..|.+.|+|..|.
T Consensus       743 i~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~  811 (1636)
T KOG3616|consen  743 IGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAF  811 (1636)
T ss_pred             hhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHH
Confidence            34445555555555554431  123334555555666666666665553321         2334555566666666665


Q ss_pred             HHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHH
Q 048737          192 EIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAE  230 (274)
Q Consensus       192 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  230 (274)
                      ++-.+.  .|.......|-+-..-+-.+|++.+|.++|-
T Consensus       812 kla~e~--~~~e~t~~~yiakaedldehgkf~eaeqlyi  848 (1636)
T KOG3616|consen  812 KLAEEC--HGPEATISLYIAKAEDLDEHGKFAEAEQLYI  848 (1636)
T ss_pred             HHHHHh--cCchhHHHHHHHhHHhHHhhcchhhhhheeE
Confidence            554332  2333344445444445555566666655544

>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=97.86  E-value=8e-05  Score=44.34  Aligned_cols=51  Identities=10%  Similarity=0.086  Sum_probs=23.9

Q ss_pred             hCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHh
Q 048737           76 KLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus        76 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                      +.|++++|.++|+.+....   |-+...+..+..+|.+.|++++|..+++++..
T Consensus         3 ~~~~~~~A~~~~~~~l~~~---p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN---PDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT---TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hccCHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444555555555554443   33444444445555555555555555554444

...

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.86  E-value=0.0019  Score=55.32  Aligned_cols=111  Identities=14%  Similarity=0.214  Sum_probs=72.6

Q ss_pred             HHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhc
Q 048737           35 FLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNN  114 (274)
Q Consensus        35 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  114 (274)
                      -+.+....++|.+|+.+++.+..+.  .-..-|..+..-|...|+++.|+++|-+.           ..++-.|.+|.+.
T Consensus       738 aieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~-----------~~~~dai~my~k~  804 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA-----------DLFKDAIDMYGKA  804 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc-----------chhHHHHHHHhcc
Confidence            4556667778888888888776653  22344666777788888888888777543           1345567778888


Q ss_pred             CChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHH
Q 048737          115 NDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFH  160 (274)
Q Consensus       115 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (274)
                      |+|++|.++-.+..  |.......|..-..-+-..|++.+|+++|-
T Consensus       805 ~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyi  848 (1636)
T KOG3616|consen  805 GKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYI  848 (1636)
T ss_pred             ccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeE
Confidence            88888887766553  334445556555555666666666666553

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.85  E-value=0.0045  Score=44.02  Aligned_cols=128  Identities=13%  Similarity=0.071  Sum_probs=65.8

Q ss_pred             CCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCC-CCChhhH
Q 048737           61 FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGA-FPDSLTY  139 (274)
Q Consensus        61 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~  139 (274)
                      .|+...--.|..+....|+..+|...|++...--  +--|....-.+.++....+++..|...++++-+... .-++.+.
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 APTVQNRYRLANALAELGRYHEAVPHYQQALSGI--FAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccc--cCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            3444444555556666666666666666655433  344555555555566666666666666665544320 0012334


Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHH
Q 048737          140 NMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIE  192 (274)
Q Consensus       140 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  192 (274)
                      -.+.+.+...|.+..|+.-|+...+.  -|+...-......+.+.|+.+++..
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHH
Confidence            44455555566666666666655552  3444433333444445555444443

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

Probab=97.83  E-value=0.00013  Score=42.91  Aligned_cols=50  Identities=8%  Similarity=0.194  Sum_probs=19.1

Q ss_pred             HhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHH
Q 048737           75 VKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQM  127 (274)
Q Consensus        75 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  127 (274)
                      .+.|++++|...|+++++..   +-+...+..+..++.+.|++++|...|+++
T Consensus         8 ~~~g~~~~A~~~~~~~l~~~---P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a   57 (65)
T PF13432_consen    8 YQQGDYDEAIAAFEQALKQD---PDNPEAWYLLGRILYQQGRYDEALAYYERA   57 (65)
T ss_dssp             HHCTHHHHHHHHHHHHHCCS---TTHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33344444444444444332   223333333334444444444444444433

>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=97.80  E-value=0.00018  Score=42.94  Aligned_cols=24  Identities=13%  Similarity=0.249  Sum_probs=9.1

Q ss_pred             HHHHHHHhCCChhhHHHHHHHHHh
Q 048737           69 NALDILVKLNDSTHTVQLWDIMVG   92 (274)
Q Consensus        69 ~l~~~~~~~~~~~~a~~~~~~~~~   92 (274)
                      .+...+...|++++|+..|++.++
T Consensus         8 ~~g~~~~~~~~~~~A~~~~~~ai~   31 (69)
T PF13414_consen    8 NLGQIYFQQGDYEEAIEYFEKAIE   31 (69)
T ss_dssp             HHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH
Confidence            333333333333333333333333

...

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

Probab=97.80  E-value=0.0022  Score=47.45  Aligned_cols=63  Identities=10%  Similarity=0.059  Sum_probs=35.5

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhcCC--CCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhc
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKGEN--CFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGI   93 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   93 (274)
                      .+-.....+...|++.+|++.|+.+...-  -+--....-.++.++.+.|+++.|...+++.++.
T Consensus         7 ~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen    7 ALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            33445556666677777777777666531  1111334445566666777777777777776664

>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=97.78  E-value=0.0012  Score=46.10  Aligned_cols=70  Identities=13%  Similarity=0.252  Sum_probs=38.2

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh-----CCCCCCcch
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK-----NEWQPTPLN  173 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  173 (274)
                      +...++..+...|+++.|..+.+.+.... +.|...|..+|.+|...|+...|.+.|+++.+     .|+.|+..+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            44555556666666666666666666543 23566666666666666666666666666532     366665544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

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

Probab=97.77  E-value=0.0046  Score=47.39  Aligned_cols=102  Identities=5%  Similarity=-0.011  Sum_probs=77.3

Q ss_pred             CccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC---CHhHHHHHHHHHHhCCCCCCcchH
Q 048737           98 MPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNK---KVHEVENFFHEMIKNEWQPTPLNC  174 (274)
Q Consensus        98 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~  174 (274)
                      +-|...|-.|...|...|+.+.|...|.+..+.. .+|...+..+..++....   ...++..+|+++.... +.|..+.
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            6678889999999999999999999998887752 345666666666655433   3457888888888754 3455666


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCC
Q 048737          175 ATAITMLLDADEPEFAIEIWNYILENG  201 (274)
Q Consensus       175 ~~l~~~~~~~~~~~~a~~~~~~~~~~~  201 (274)
                      ..|...+...|++.+|...|+.|.+..
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            677778888899999999999888865

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.77  E-value=0.0044  Score=41.35  Aligned_cols=53  Identities=8%  Similarity=0.049  Sum_probs=21.5

Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCCC--hhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737          111 LCNNNDVDNVFRFFDQMVFHGAFPD--SLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      +-..|+.++|+.+|++....|....  ...+..+.+.+...|++++|..+++...
T Consensus        11 ~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~   65 (120)
T PF12688_consen   11 HDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEAL   65 (120)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3334444444444444444333222  2233333344444444444444444443

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

Probab=97.70  E-value=0.0047  Score=48.30  Aligned_cols=193  Identities=10%  Similarity=0.076  Sum_probs=115.3

Q ss_pred             cHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCc--cC-ccHHhHHHHHHHHHhcCChhhH
Q 048737           44 QVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFN--LM-PNLIMYNAVVGLLCNNNDVDNV  120 (274)
Q Consensus        44 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~-~~~~~~~~l~~~~~~~~~~~~a  120 (274)
                      ++++|..+|++.               ...|-..+++++|...|.+.......  -+ .-...|.....+|.+. ++++|
T Consensus        30 ~~e~Aa~~y~~A---------------a~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~A   93 (282)
T PF14938_consen   30 DYEEAADLYEKA---------------ANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEA   93 (282)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHH
T ss_pred             CHHHHHHHHHHH---------------HHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHH
Confidence            666666666543               45555667777777666665432100  01 1123344444444444 77777


Q ss_pred             HHHHHHHHh----cCCCCC--hhhHHHHHHHHHhc-CCHhHHHHHHHHHHhC----CCCCC--cchHHHHHHHHHhcCCh
Q 048737          121 FRFFDQMVF----HGAFPD--SLTYNMIFECLIKN-KKVHEVENFFHEMIKN----EWQPT--PLNCATAITMLLDADEP  187 (274)
Q Consensus       121 ~~~~~~~~~----~~~~~~--~~~~~~li~~~~~~-~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~  187 (274)
                      ...+++...    .| .|+  ...+..+...|... |++++|.+.|.+..+.    + .+.  ...+..+...+.+.|++
T Consensus        94 i~~~~~A~~~y~~~G-~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y  171 (282)
T PF14938_consen   94 IECYEKAIEIYREAG-RFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRY  171 (282)
T ss_dssp             HHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHHHHhcC-cHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCH
Confidence            777776543    22 222  34566677778787 8999999999987643    3 111  23566778889999999


Q ss_pred             HHHHHHHHHHHHCCC-----CccHH-HHHHHHHHHHhcCCcchHHHHHHHHHhC--CCccC--HHHHHHHHHHHHhc
Q 048737          188 EFAIEIWNYILENGI-----LPLEA-SANVLLVGLRNLGRLSDVRRFAEEMLNR--RILIY--DVTMQKLKKAFYNE  254 (274)
Q Consensus       188 ~~a~~~~~~~~~~~~-----~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~m~~~--~~~~~--~~~~~~l~~~~~~~  254 (274)
                      ++|.++|++....-.     +.+.. .+-..+-++...||...|...+++....  ++..+  ......|+.++-..
T Consensus       172 ~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~  248 (282)
T PF14938_consen  172 EEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEG  248 (282)
T ss_dssp             HHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhC
Confidence            999999999876432     22232 2334445667789999999999998765  33322  34556677777543

>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=97.69  E-value=0.00021  Score=42.64  Aligned_cols=65  Identities=11%  Similarity=0.121  Sum_probs=55.0

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCC-ChhhHHHHHHHHHhc
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLN-DSTHTVQLWDIMVGI   93 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~   93 (274)
                      ++..|..+...+...|++++|+..|++..+.. +-+...|..+..++...| ++++|.+.+++.++.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            56788899999999999999999999998864 446778888888899998 799999999988774

...

>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=97.67  E-value=0.002  Score=44.88  Aligned_cols=71  Identities=21%  Similarity=0.112  Sum_probs=49.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHh-----CCCccCHHHH
Q 048737          173 NCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLN-----RRILIYDVTM  244 (274)
Q Consensus       173 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~~  244 (274)
                      ....++..+...|+++.|..+.+.+....+ .+...|..+|.+|...|+..+|.++|+.+.+     .|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP-~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDP-YDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHST-T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            344566777788899999998888888663 6778888899999999999999888888743     4888887653

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.67  E-value=0.004  Score=46.81  Aligned_cols=132  Identities=10%  Similarity=0.148  Sum_probs=85.4

Q ss_pred             HHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH--
Q 048737           67 FSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFE--  144 (274)
Q Consensus        67 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~--  144 (274)
                      .+.++.++.-.+.+.-....+...++..  .+.++.....|.+.-.+.||.+.|...|++..+..-+.|..+++.++.  
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~--~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYY--PEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhC--CcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhh
Confidence            3455666666777777777787777765  455677777788888888888888888887766544444444444332  


Q ss_pred             ---HHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 048737          145 ---CLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENG  201 (274)
Q Consensus       145 ---~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  201 (274)
                         .|.-.+++..|...+.+..... ..|+...|.=.-+..-.|+...|.+....|....
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~  316 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQD  316 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhccC
Confidence               3444566777777777776543 2344444444444445677777888777777654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.66  E-value=0.0054  Score=46.12  Aligned_cols=141  Identities=12%  Similarity=0.109  Sum_probs=107.4

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHH--
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVV--  108 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~--  108 (274)
                      .-+.++..+...|.+.-...++.+.++..-+.++.....|++.-.+.|+.+.|...|++..+..  -..|..+.+.++  
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~--~kL~~~q~~~~V~~  256 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVT--QKLDGLQGKIMVLM  256 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH--hhhhccchhHHHHh
Confidence            3466788888889999999999999998767788888999999999999999999999887654  344544444443  


Q ss_pred             ---HHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHH
Q 048737          109 ---GLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCAT  176 (274)
Q Consensus       109 ---~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  176 (274)
                         ..|...+++..|...+++....+. .|+...|.=.-+....|+...|.+.++.|...  .|...+-++
T Consensus       257 n~a~i~lg~nn~a~a~r~~~~i~~~D~-~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es  324 (366)
T KOG2796|consen  257 NSAFLHLGQNNFAEAHRFFTEILRMDP-RNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHES  324 (366)
T ss_pred             hhhhheecccchHHHHHHHhhccccCC-CchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhh
Confidence               446667889999999998887643 35555565555556678999999999999874  465554443

>PRK11906 transcriptional regulator; Provisional

Probab=97.61  E-value=0.0079  Score=49.14  Aligned_cols=148  Identities=9%  Similarity=0.039  Sum_probs=83.2

Q ss_pred             chHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhcc---------CcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhC
Q 048737            7 NVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRG---------KQVDEALKFLRVMKGENCFPTLKFFSNALDILVKL   77 (274)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   77 (274)
                      ..+.|+.+|.+......+.|....+|..+..++...         ....+|.++.++..+.+ +-|+.....+..+..-.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            345677777777633355676666666555444322         23345556666666554 44566666666666666


Q ss_pred             CChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCCh---hhHHHHHHHHHhcCCHhH
Q 048737           78 NDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDS---LTYNMIFECLIKNKKVHE  154 (274)
Q Consensus        78 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~  154 (274)
                      ++++.|...|++....+   |....+|........-.|+.++|.+.+++..+.  .|..   ...-..+..|+.++ .+.
T Consensus       352 ~~~~~a~~~f~rA~~L~---Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~~~~~~~~~~~~~~~~~-~~~  425 (458)
T PRK11906        352 GQAKVSHILFEQAKIHS---TDIASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRRKAVVIKECVDMYVPNP-LKN  425 (458)
T ss_pred             cchhhHHHHHHHHhhcC---CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--CchhhHHHHHHHHHHHHcCCc-hhh
Confidence            66777777777777654   333444555555555567777777777775543  2332   22223333554443 566


Q ss_pred             HHHHHHH
Q 048737          155 VENFFHE  161 (274)
Q Consensus       155 a~~~~~~  161 (274)
                      |.++|-+
T Consensus       426 ~~~~~~~  432 (458)
T PRK11906        426 NIKLYYK  432 (458)
T ss_pred             hHHHHhh
Confidence            6666543

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

Probab=97.61  E-value=0.016  Score=50.56  Aligned_cols=28  Identities=4%  Similarity=0.195  Sum_probs=18.2

Q ss_pred             HHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          243 TMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       243 ~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      ....+...|.+.|.+  |-+-|.++-.+.+
T Consensus      1147 vLeqvae~c~qQG~Yh~AtKKfTQAGdKl~ 1176 (1416)
T KOG3617|consen 1147 VLEQVAELCLQQGAYHAATKKFTQAGDKLS 1176 (1416)
T ss_pred             HHHHHHHHHHhccchHHHHHHHhhhhhHHH
Confidence            344556677788887  7777766655543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.60  E-value=0.0026  Score=48.87  Aligned_cols=101  Identities=9%  Similarity=0.036  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCC--CCChhhHHHH
Q 048737           65 KFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGA--FPDSLTYNMI  142 (274)
Q Consensus        65 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l  142 (274)
                      ..|...+....+.|++++|...|+.+++...+..-....+..+..+|...|++++|...|+.+.+.-.  +.....+-.+
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            34444444445556777777777777665310000124555666666777777777777777665311  1113344445


Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhC
Q 048737          143 FECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                      ...+...|+.++|..+|+.+++.
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            55566667777777777766653

>PRK15331 chaperone protein SicA; Provisional

Probab=97.60  E-value=0.0037  Score=43.68  Aligned_cols=103  Identities=8%  Similarity=-0.015  Sum_probs=68.3

Q ss_pred             CCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHH
Q 048737           23 EWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLI  102 (274)
Q Consensus        23 ~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  102 (274)
                      |+.++..........-+-..|++++|..+|..+...+ .-+..-+..|..++-..+++++|...|......+   ..|+.
T Consensus        31 gis~~~le~iY~~Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~---~~dp~  106 (165)
T PRK15331         31 GIPQDMMDGLYAHAYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL---KNDYR  106 (165)
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---cCCCC
Confidence            4444444445555566667778888888777776643 2344555666666777777788877777776654   34555


Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHh
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                      .+-....+|...|+.+.|...|+....
T Consensus       107 p~f~agqC~l~l~~~~~A~~~f~~a~~  133 (165)
T PRK15331        107 PVFFTGQCQLLMRKAAKARQCFELVNE  133 (165)
T ss_pred             ccchHHHHHHHhCCHHHHHHHHHHHHh
Confidence            566667777777777777777777665

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.56  E-value=0.028  Score=45.19  Aligned_cols=172  Identities=13%  Similarity=0.085  Sum_probs=112.7

Q ss_pred             CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcC-CccCccHHhHHHHHHHHHh---cCChhhHHHHHHHHHhcCCCCChhh
Q 048737           63 TLKFFSNALDILVKLNDSTHTVQLWDIMVGIG-FNLMPNLIMYNAVVGLLCN---NNDVDNVFRFFDQMVFHGAFPDSLT  138 (274)
Q Consensus        63 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~  138 (274)
                      +..+...++-+|....+++...++.+.+...- .++..+..+-....-++.+   .|+.++|+.++..+......++..+
T Consensus       140 s~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~  219 (374)
T PF13281_consen  140 SPDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDT  219 (374)
T ss_pred             ChhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHH
Confidence            34455567777889999999999999998752 0012233334455566677   8999999999999766667788899


Q ss_pred             HHHHHHHHHhc---------CCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCC-hH---HHHHHH---HH-HHHCC
Q 048737          139 YNMIFECLIKN---------KKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADE-PE---FAIEIW---NY-ILENG  201 (274)
Q Consensus       139 ~~~li~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~---~a~~~~---~~-~~~~~  201 (274)
                      |..+...|-..         ...++|+..|.+.-+.  .||..+=..+...+...|. .+   +..++-   .. +.+.|
T Consensus       220 ~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg  297 (374)
T PF13281_consen  220 LGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKG  297 (374)
T ss_pred             HHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhc
Confidence            99888876542         2356777777766553  3554432222222333332 11   222222   22 21233


Q ss_pred             ---CCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC
Q 048737          202 ---ILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       202 ---~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  236 (274)
                         -..+-..+.+++.+..-.|+.++|.+..++|.+..
T Consensus       298 ~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  298 SLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             cccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence               33566778889999999999999999999999774

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.54  E-value=0.0005  Score=41.50  Aligned_cols=54  Identities=17%  Similarity=0.120  Sum_probs=33.5

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcC
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGE   58 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~   58 (274)
                      |.+.+++++|.++++.+...   .|+++..|......+.+.|++++|.+.|+...+.
T Consensus         5 ~~~~~~~~~A~~~~~~~l~~---~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    5 YLQQEDYEEALEVLERALEL---DPDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHhCCCHHHHHHHHHHHHHh---CcccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            34556666666666666444   5656666666666666666666666666666653

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.51  E-value=0.017  Score=41.24  Aligned_cols=132  Identities=9%  Similarity=0.003  Sum_probs=82.6

Q ss_pred             CccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCC-CCCcchHHH
Q 048737           98 MPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEW-QPTPLNCAT  176 (274)
Q Consensus        98 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~  176 (274)
                      -|++.---.|..+..+.|+..+|...|++...--.--|....-.+.++....+++..|...++++.+... .-++.+.-.
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            4666666667777777788888888887776543444566667777777777777777777777766431 012334455


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHH
Q 048737          177 AITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEE  231 (274)
Q Consensus       177 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  231 (274)
                      +.+.+...|.+..|+..|+...+.-  |+...-.-.-..+.+.|+.+++..-+.+
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~y--pg~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISYY--PGPQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHhC--CCHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            6677777777777777777777643  3333333333445566665555443333

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.48  E-value=0.02  Score=45.91  Aligned_cols=222  Identities=14%  Similarity=0.021  Sum_probs=125.0

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   82 (274)
                      -+..++..|+..+....+.   -|+++..|..-+..+...+++++|+--.++-.+.. +..+......-.++...++..+
T Consensus        60 yk~k~Y~nal~~yt~Ai~~---~pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~k-d~~~k~~~r~~~c~~a~~~~i~  135 (486)
T KOG0550|consen   60 YKQKTYGNALKNYTFAIDM---CPDNASYYSNRAATLMMLGRFEEALGDARQSVRLK-DGFSKGQLREGQCHLALSDLIE  135 (486)
T ss_pred             HHHhhHHHHHHHHHHHHHh---CccchhhhchhHHHHHHHHhHhhcccchhhheecC-CCccccccchhhhhhhhHHHHH
Confidence            3456778888888887665   77788888888888888888888887766655421 0111122222222222233222


Q ss_pred             HHHHH---------------HHHHhcCCccCccHHhHHHHH-HHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH-
Q 048737           83 TVQLW---------------DIMVGIGFNLMPNLIMYNAVV-GLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC-  145 (274)
Q Consensus        83 a~~~~---------------~~~~~~~~~~~~~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-  145 (274)
                      |.+.+               +......+ -+|...+|-.+- .++.-.+++++|...--..++..   ....+...+++ 
T Consensus       136 A~~~~~~~~~~~~anal~~~~~~~~s~s-~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld---~~n~~al~vrg~  211 (486)
T KOG0550|consen  136 AEEKLKSKQAYKAANALPTLEKLAPSHS-REPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD---ATNAEALYVRGL  211 (486)
T ss_pred             HHHHhhhhhhhHHhhhhhhhhccccccc-CCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc---cchhHHHHhccc
Confidence            22222               22222221 123334444333 44556788888877776666542   12233333333 


Q ss_pred             -HHhcCCHhHHHHHHHHHHhCCCCCCcchHH-------------HHHHHHHhcCChHHHHHHHHHHHHC---CCCccHHH
Q 048737          146 -LIKNKKVHEVENFFHEMIKNEWQPTPLNCA-------------TAITMLLDADEPEFAIEIWNYILEN---GILPLEAS  208 (274)
Q Consensus       146 -~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-------------~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~  208 (274)
                       +...++.+.+...|.+.+..+  |+...--             .=.+-..+.|++..|.+.|.+.+..   +..|+...
T Consensus       212 ~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~nakl  289 (486)
T KOG0550|consen  212 CLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKL  289 (486)
T ss_pred             ccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHH
Confidence             334566777777777766543  4432211             1123345667777888877777653   34556666


Q ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          209 ANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       209 ~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      |.....+..+.|+.++|+.-.++..+
T Consensus       290 Y~nra~v~~rLgrl~eaisdc~~Al~  315 (486)
T KOG0550|consen  290 YGNRALVNIRLGRLREAISDCNEALK  315 (486)
T ss_pred             HHHhHhhhcccCCchhhhhhhhhhhh
Confidence            66666677777777777777666554

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.46  E-value=0.0057  Score=47.04  Aligned_cols=86  Identities=14%  Similarity=0.205  Sum_probs=36.6

Q ss_pred             HhcCChhhHHHHHHHHHhcCCCCCh----hhHHHHHHHHHhcCCHhHHHHHHHHHHhCC--CCCCcchHHHHHHHHHhcC
Q 048737          112 CNNNDVDNVFRFFDQMVFHGAFPDS----LTYNMIFECLIKNKKVHEVENFFHEMIKNE--WQPTPLNCATAITMLLDAD  185 (274)
Q Consensus       112 ~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~  185 (274)
                      .+.|++++|...|+.+.+.  .|+.    ..+--+...|...|++++|...|..+.+.-  .+.....+-.+...+...|
T Consensus       154 ~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g  231 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKG  231 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcC
Confidence            3345555555555555443  1221    234444444455555555555555544321  0011122223333444445


Q ss_pred             ChHHHHHHHHHHHH
Q 048737          186 EPEFAIEIWNYILE  199 (274)
Q Consensus       186 ~~~~a~~~~~~~~~  199 (274)
                      +.+.|..+|+.+.+
T Consensus       232 ~~~~A~~~~~~vi~  245 (263)
T PRK10803        232 DTAKAKAVYQQVIK  245 (263)
T ss_pred             CHHHHHHHHHHHHH
Confidence            55555555544444

>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=97.45  E-value=0.0042  Score=41.86  Aligned_cols=49  Identities=16%  Similarity=0.155  Sum_probs=21.6

Q ss_pred             cCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc-CCCCChhhHHHHHHH
Q 048737           97 LMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH-GAFPDSLTYNMIFEC  145 (274)
Q Consensus        97 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~  145 (274)
                      ..|+..+..+++.+|+..+++..|.++.+.+.+. +++.+..+|..|++-
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            3444444444444444444444444444443322 333334444444443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.44  E-value=0.0036  Score=42.16  Aligned_cols=50  Identities=8%  Similarity=-0.003  Sum_probs=23.9

Q ss_pred             CCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC-CCCCCcchHHHHHHHH
Q 048737          132 AFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN-EWQPTPLNCATAITML  181 (274)
Q Consensus       132 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~  181 (274)
                      ..|+..+..+++.+|+..+++..|.++++...+. +++.+..+|..|++-+
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            3444555555555555555555555555544433 3444444444444433

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.39  E-value=0.0016  Score=39.20  Aligned_cols=52  Identities=4%  Similarity=0.084  Sum_probs=21.2

Q ss_pred             HhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHh
Q 048737           75 VKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus        75 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                      .+.++++.|.++++.++..+   |.+...|.....++.+.|++++|.+.|++..+
T Consensus         6 ~~~~~~~~A~~~~~~~l~~~---p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    6 LQQEDYEEALEVLERALELD---PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HhCCCHHHHHHHHHHHHHhC---cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            33444444444444444432   22333333344444444444444444444433

>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=97.32  E-value=0.00078  Score=41.26  Aligned_cols=64  Identities=14%  Similarity=0.127  Sum_probs=34.2

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcC--CCCCC----HHHHHHHHHHHHhCCChhhHHHHHHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGE--NCFPT----LKFFSNALDILVKLNDSTHTVQLWDIMV   91 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~   91 (274)
                      ...+|+.+...|...|++++|++.|++..+.  ...++    ..++..+..++...|++++|.+.+++..
T Consensus         4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    4 TANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4456666666666667776666666665532  01111    2344455555555555555555555544

...

>PRK15331 chaperone protein SicA; Provisional

Probab=97.31  E-value=0.018  Score=40.29  Aligned_cols=87  Identities=6%  Similarity=0.014  Sum_probs=50.3

Q ss_pred             HHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHh
Q 048737           74 LVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVH  153 (274)
Q Consensus        74 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  153 (274)
                      +...|++++|+.+|+-+...+   +-+..-|..|..++-..+++++|...|......+. -|...+--...+|...|+.+
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d---~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~  122 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYD---FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAA  122 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC---cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHH
Confidence            345667777777776666654   23344455555556666666666666665444322 23444444555666666666


Q ss_pred             HHHHHHHHHHh
Q 048737          154 EVENFFHEMIK  164 (274)
Q Consensus       154 ~a~~~~~~~~~  164 (274)
                      .|...|....+
T Consensus       123 ~A~~~f~~a~~  133 (165)
T PRK15331        123 KARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHh
Confidence            66666666555

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.30  E-value=0.01  Score=48.38  Aligned_cols=68  Identities=9%  Similarity=-0.009  Sum_probs=60.1

Q ss_pred             CCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCH----HHHHHHHHHHHhCCChhhHHHHHHHHHhc
Q 048737           24 WNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTL----KFFSNALDILVKLNDSTHTVQLWDIMVGI   93 (274)
Q Consensus        24 ~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   93 (274)
                      ..|++...|+.+..+|...|++++|+..|++.++.  .|+.    .+|..+..+|...|+.++|...++++++.
T Consensus        70 ~dP~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         70 ADVKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            46778999999999999999999999999998874  4663    35899999999999999999999999885

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

Probab=97.29  E-value=0.04  Score=40.79  Aligned_cols=172  Identities=8%  Similarity=0.006  Sum_probs=96.4

Q ss_pred             HHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048737           67 FSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECL  146 (274)
Q Consensus        67 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  146 (274)
                      +-.....+...|++++|.+.|+.+.......+--....-.++.++.+.|+++.|...++++.+.-+.-....+...+.+.
T Consensus         8 lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~   87 (203)
T PF13525_consen    8 LYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGL   87 (203)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHH
Confidence            33445566788999999999999998642122334556677888999999999999999988753221222233333332


Q ss_pred             HhcCC-------------HhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHH
Q 048737          147 IKNKK-------------VHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLL  213 (274)
Q Consensus       147 ~~~~~-------------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  213 (274)
                      +.-..             ..+|...               +..++.-|-...-...|...+..+.+.-   - ..--.+.
T Consensus        88 ~~~~~~~~~~~~~~D~~~~~~A~~~---------------~~~li~~yP~S~y~~~A~~~l~~l~~~l---a-~~e~~ia  148 (203)
T PF13525_consen   88 SYYKQIPGILRSDRDQTSTRKAIEE---------------FEELIKRYPNSEYAEEAKKRLAELRNRL---A-EHELYIA  148 (203)
T ss_dssp             HHHHHHHHHH-TT---HHHHHHHHH---------------HHHHHHH-TTSTTHHHHHHHHHHHHHHH---H-HHHHHHH
T ss_pred             HHHHhCccchhcccChHHHHHHHHH---------------HHHHHHHCcCchHHHHHHHHHHHHHHHH---H-HHHHHHH
Confidence            22111             1223333               3344444444555555555554443310   0 1112245


Q ss_pred             HHHHhcCCcchHHHHHHHHHhC--CCccCHHHHHHHHHHHHhcChh
Q 048737          214 VGLRNLGRLSDVRRFAEEMLNR--RILIYDVTMQKLKKAFYNESRS  257 (274)
Q Consensus       214 ~~~~~~g~~~~a~~~~~~m~~~--~~~~~~~~~~~l~~~~~~~g~~  257 (274)
                      ..|.+.|.+..|..-++.+++.  +..........++.++.+.|..
T Consensus       149 ~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~  194 (203)
T PF13525_consen  149 RFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLK  194 (203)
T ss_dssp             HHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-H
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCCh
Confidence            6678888888888888888775  2222234556677777777765

>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=97.24  E-value=0.063  Score=41.93  Aligned_cols=225  Identities=11%  Similarity=0.119  Sum_probs=124.1

Q ss_pred             ccccchHHHHHHHHHHHhcc-CCCCchHh-----HHHHHHHHHhccC-cHHHHHHHHHHHhcC--------CCCCCH---
Q 048737            3 EKEGNVVEANKTFGEMVERF-EWNPEHVL-----AYETFLITLIRGK-QVDEALKFLRVMKGE--------NCFPTL---   64 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~-~~~p~~~~-----~~~~li~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~~---   64 (274)
                      .+.|+++.|...+.+..... ...|+...     .|+ +.......+ +++.|..++++..+.        ...|+.   
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn-~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYN-IGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHH-HHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            46899999999999887642 33442222     233 233334445 888888777765432        123332   


Q ss_pred             --HHHHHHHHHHHhCCChh---hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhH
Q 048737           65 --KFFSNALDILVKLNDST---HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTY  139 (274)
Q Consensus        65 --~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  139 (274)
                        .++..++.++...+..+   +|.++.+.+....   +..+.++..-+..+.+.++.+.+.+.+.+|... +.-....+
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~---~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~-~~~~e~~~  158 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEY---GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS-VDHSESNF  158 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC---CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh-cccccchH
Confidence              35667778887777655   4555555664443   333556666677777788899999999999876 22234555


Q ss_pred             HHHHHHHHh--cCCHhHHHHHHHHHHhCCCCCCcc-hHHH-HHH---HHHhcCC------hHHHHHHHHHHHH-CCCCcc
Q 048737          140 NMIFECLIK--NKKVHEVENFFHEMIKNEWQPTPL-NCAT-AIT---MLLDADE------PEFAIEIWNYILE-NGILPL  205 (274)
Q Consensus       140 ~~li~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~-~~~~-l~~---~~~~~~~------~~~a~~~~~~~~~-~~~~~~  205 (274)
                      ..++..+..  ......+...+..+....+.|... .... ++.   .....++      ++....++....+ .+.+.+
T Consensus       159 ~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls  238 (278)
T PF08631_consen  159 DSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLS  238 (278)
T ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCC
Confidence            555555422  223456667776666555555543 1111 111   1112111      3444444553332 222233


Q ss_pred             HHHHHHH---H----HHHHhcCCcchHHHHHHHH
Q 048737          206 EASANVL---L----VGLRNLGRLSDVRRFAEEM  232 (274)
Q Consensus       206 ~~~~~~l---~----~~~~~~g~~~~a~~~~~~m  232 (274)
                      ..+-.++   +    ..+.+.++++.|..+|+-.
T Consensus       239 ~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  239 AEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHH
Confidence            3332222   2    2245678888888887743

It is also involved in sporulation [].

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.20  E-value=0.076  Score=42.20  Aligned_cols=109  Identities=15%  Similarity=0.152  Sum_probs=82.4

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHH
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLL  182 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  182 (274)
                      +.+.-+.-+...|+...|.++-.+..    .|+..-|-..+.+++..++|++-.++-..      +-++.-|..++.+|.
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            44555666777888888888877764    37888999999999999999887765432      234678899999999


Q ss_pred             hcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHH
Q 048737          183 DADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEE  231 (274)
Q Consensus       183 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  231 (274)
                      +.|+..+|..+..+     +     .+..-+..|.+.|++.+|.+.-.+
T Consensus       249 ~~~~~~eA~~yI~k-----~-----~~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  249 KYGNKKEASKYIPK-----I-----PDEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HCCCHHHHHHHHHh-----C-----ChHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999998887766     2     225567788889999988876544

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

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=97.18  E-value=0.11  Score=43.76  Aligned_cols=164  Identities=13%  Similarity=0.104  Sum_probs=110.8

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhcCC-CCCCH-----HHHHHHHHHHHh----CCChhhHHHHHHHHHhcCCccCcc
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKGEN-CFPTL-----KFFSNALDILVK----LNDSTHTVQLWDIMVGIGFNLMPN  100 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-----~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~  100 (274)
                      ....++....-.|+-+.+++.+.+..+.+ +....     -.|...+..++.    ..+.+.+.++++.+.+.-    |+
T Consensus       190 ~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~y----P~  265 (468)
T PF10300_consen  190 KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRY----PN  265 (468)
T ss_pred             HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhC----CC
Confidence            45678888888999999999999877632 22211     133333333332    456788999999999864    66


Q ss_pred             HHhHHHH-HHHHHhcCChhhHHHHHHHHHhcC---CCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHH
Q 048737          101 LIMYNAV-VGLLCNNNDVDNVFRFFDQMVFHG---AFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCAT  176 (274)
Q Consensus       101 ~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  176 (274)
                      ...|... .+.+...|+.++|++.|++.....   .......+-.+.-.+....+|++|...|..+.+.. .-+..+|.-
T Consensus       266 s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y  344 (468)
T PF10300_consen  266 SALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAY  344 (468)
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHH
Confidence            6665544 366778899999999999765321   11233445566667888899999999999998754 233344443


Q ss_pred             HHH-HHHhcCCh-------HHHHHHHHHHHH
Q 048737          177 AIT-MLLDADEP-------EFAIEIWNYILE  199 (274)
Q Consensus       177 l~~-~~~~~~~~-------~~a~~~~~~~~~  199 (274)
                      +.- ++...|+.       ++|.+++.+...
T Consensus       345 ~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  345 LAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            333 33456777       888888877653

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.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=97.18  E-value=0.01  Score=39.66  Aligned_cols=90  Identities=19%  Similarity=0.137  Sum_probs=55.1

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCH---HHHHHHHHHHHhCC
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTL---KFFSNALDILVKLN   78 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~   78 (274)
                      .+..|+++.|++.|.+...-   -|..+.+||.-..++--.|+.++|++=+++..+..-.-+.   ..|..-...|...|
T Consensus        53 laE~g~Ld~AlE~F~qal~l---~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCL---APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHhccchHHHHHHHHHHHHh---cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            34567777777777766443   5556667777777777777777777777766653211111   22333344555667


Q ss_pred             ChhhHHHHHHHHHhcC
Q 048737           79 DSTHTVQLWDIMVGIG   94 (274)
Q Consensus        79 ~~~~a~~~~~~~~~~~   94 (274)
                      +.+.|..=|+...+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            7777777777766666

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=97.12  E-value=0.01  Score=45.19  Aligned_cols=111  Identities=8%  Similarity=-0.006  Sum_probs=68.7

Q ss_pred             CCChhhHHHHHHHHHhc-----CCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHH
Q 048737          133 FPDSLTYNMIFECLIKN-----KKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEA  207 (274)
Q Consensus       133 ~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  207 (274)
                      +-|..+|-..+..+...     ++++=....++.|.+-|+.-|..+|+.|++.+-+..                +.|. .
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgk----------------fiP~-n  126 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGK----------------FIPQ-N  126 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccc----------------cccH-H
Confidence            34667777777776543     445555566677777788888888888777654321                2222 1


Q ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChhHHHHH
Q 048737          208 SANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRSMRDRF  262 (274)
Q Consensus       208 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~a~~~~  262 (274)
                      .+.....-|-+  +-+=+++++++|...|+.||..+-..|++++.+.+-..++++
T Consensus       127 vfQ~~F~HYP~--QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~  179 (406)
T KOG3941|consen  127 VFQKVFLHYPQ--QQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVK  179 (406)
T ss_pred             HHHHHHhhCch--hhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHH
Confidence            22222222322  223367788888888888888888888888877775533433

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=97.12  E-value=0.078  Score=40.82  Aligned_cols=154  Identities=9%  Similarity=0.001  Sum_probs=100.5

Q ss_pred             HHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhc
Q 048737           35 FLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNN  114 (274)
Q Consensus        35 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  114 (274)
                      -.......|++.+|...|....+.. +-+...-..+..+|...|+.+.|..++..+....  -.........-+..+.+.
T Consensus       140 ~~~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~--~~~~~~~l~a~i~ll~qa  216 (304)
T COG3118         140 EAKELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQA--QDKAAHGLQAQIELLEQA  216 (304)
T ss_pred             HhhhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccc--hhhHHHHHHHHHHHHHHH
Confidence            4456677888888888888887753 2335566677888888888888888888876543  122222233445566666


Q ss_pred             CChhhHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCC-CCCcchHHHHHHHHHhcCChHHHHH
Q 048737          115 NDVDNVFRFFDQMVFHGAFP-DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEW-QPTPLNCATAITMLLDADEPEFAIE  192 (274)
Q Consensus       115 ~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~  192 (274)
                      ....+...+-.+.-..   | |...-..+...+...|+.+.|.+.+-.+.+... .-|...-..|+..+.-.|.-+.+.-
T Consensus       217 a~~~~~~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~~~  293 (304)
T COG3118         217 AATPEIQDLQRRLAAD---PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPLVL  293 (304)
T ss_pred             hcCCCHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHHHH
Confidence            6666655555555542   4 566667777888888888888877776665422 3455667778888777774444333


Q ss_pred             HH
Q 048737          193 IW  194 (274)
Q Consensus       193 ~~  194 (274)
                      .+
T Consensus       294 ~~  295 (304)
T COG3118         294 AY  295 (304)
T ss_pred             HH
Confidence            33

>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=97.11  E-value=0.0036  Score=38.22  Aligned_cols=64  Identities=11%  Similarity=0.251  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHhCCChhhHHHHHHHHHhcCCcc---Ccc-HHhHHHHHHHHHhcCChhhHHHHHHHHH
Q 048737           65 KFFSNALDILVKLNDSTHTVQLWDIMVGIGFNL---MPN-LIMYNAVVGLLCNNNDVDNVFRFFDQMV  128 (274)
Q Consensus        65 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  128 (274)
                      .+++.+...|...|++++|...|++..+.....   .|+ ..+++.+..+|...|++++|++.+++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            455666666777777777777776665321001   122 4456666666666677777666666654

...

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.11  E-value=0.047  Score=46.93  Aligned_cols=69  Identities=12%  Similarity=0.108  Sum_probs=35.1

Q ss_pred             cchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC----HHHHHHHHHHHHhCCChh
Q 048737            6 GNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT----LKFFSNALDILVKLNDST   81 (274)
Q Consensus         6 g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~   81 (274)
                      |++++|+++|-.+.++      |.     -|..+.+.|+|-.+.++++.   .|-..|    ...++.+...++....++
T Consensus       748 g~feeaek~yld~drr------DL-----Aielr~klgDwfrV~qL~r~---g~~d~dD~~~e~A~r~ig~~fa~~~~We  813 (1189)
T KOG2041|consen  748 GEFEEAEKLYLDADRR------DL-----AIELRKKLGDWFRVYQLIRN---GGSDDDDEGKEDAFRNIGETFAEMMEWE  813 (1189)
T ss_pred             cchhHhhhhhhccchh------hh-----hHHHHHhhhhHHHHHHHHHc---cCCCcchHHHHHHHHHHHHHHHHHHHHH
Confidence            5566666666655544      32     34455555666555555432   111111    235555555565555566


Q ss_pred             hHHHHHH
Q 048737           82 HTVQLWD   88 (274)
Q Consensus        82 ~a~~~~~   88 (274)
                      +|.+.|.
T Consensus       814 ~A~~yY~  820 (1189)
T KOG2041|consen  814 EAAKYYS  820 (1189)
T ss_pred             HHHHHHH
Confidence            6555554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.10  E-value=0.014  Score=46.66  Aligned_cols=123  Identities=14%  Similarity=0.135  Sum_probs=62.3

Q ss_pred             cccccchHHHHHHHHHHHhccC----CCCc--------hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHH
Q 048737            2 WEKEGNVVEANKTFGEMVERFE----WNPE--------HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSN   69 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~----~~p~--------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   69 (274)
                      |.+.|++..|..-|++...-..    ..+.        -..+++.+..++.+.+.+.+|+...++.+..+ ++|...+-.
T Consensus       218 ~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyR  296 (397)
T KOG0543|consen  218 LFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYR  296 (397)
T ss_pred             HHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHH
Confidence            5677888888888777543211    1110        12244455555566666666666666555543 444555555


Q ss_pred             HHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChh-hHHHHHHHHH
Q 048737           70 ALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVD-NVFRFFDQMV  128 (274)
Q Consensus        70 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~  128 (274)
                      -..++...|+++.|+..|+++.+..   |.|-.+-+.|+.+-.+..... +..++|..|.
T Consensus       297 rG~A~l~~~e~~~A~~df~ka~k~~---P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF  353 (397)
T KOG0543|consen  297 RGQALLALGEYDLARDDFQKALKLE---PSNKAARAELIKLKQKIREYEEKEKKMYANMF  353 (397)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            5555556666666666666665543   233333333444333333222 2244455443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.06  E-value=0.046  Score=44.78  Aligned_cols=64  Identities=9%  Similarity=0.009  Sum_probs=55.8

Q ss_pred             CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCcc-H---HhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737           63 TLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPN-L---IMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus        63 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      +...++.+..+|...|++++|...|++.++..    |+ .   .+|..+..+|...|+.++|++.+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~----Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELN----PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC----CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            56788999999999999999999999999865    54 3   45999999999999999999999998874

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.00  E-value=0.13  Score=41.44  Aligned_cols=165  Identities=11%  Similarity=0.018  Sum_probs=106.0

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHhcCC---CCCCHHHHHHHHHHHHh---CCChhhHHHHHHHHHhcCCccCccHHhHHH
Q 048737           33 ETFLITLIRGKQVDEALKFLRVMKGEN---CFPTLKFFSNALDILVK---LNDSTHTVQLWDIMVGIGFNLMPNLIMYNA  106 (274)
Q Consensus        33 ~~li~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  106 (274)
                      ..++-.|-...+++..+++++.+....   +.-.+..--...-++.+   .|+.++|++++..+....  -.++..+|..
T Consensus       145 ~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~--~~~~~d~~gL  222 (374)
T PF13281_consen  145 INLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESD--ENPDPDTLGL  222 (374)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhcc--CCCChHHHHH
Confidence            345557899999999999999998742   11122222233344556   899999999999966555  4788889988


Q ss_pred             HHHHHHhc---------CChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH----hHHHHHH----HHHHhCCC--
Q 048737          107 VVGLLCNN---------NDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKV----HEVENFF----HEMIKNEW--  167 (274)
Q Consensus       107 l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~----~~a~~~~----~~~~~~~~--  167 (274)
                      +...|-..         ...++|...|.+.-+.  .||..+=-.+...+...|..    .+..++-    ..+.+.|.  
T Consensus       223 ~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~  300 (374)
T PF13281_consen  223 LGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLE  300 (374)
T ss_pred             HHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccc
Confidence            88877542         2367788888876653  35543322222233333321    1222322    12223332  


Q ss_pred             -CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 048737          168 -QPTPLNCATAITMLLDADEPEFAIEIWNYILENG  201 (274)
Q Consensus       168 -~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  201 (274)
                       ..+--.+.+++.++.-.|+.++|.+..++|.+..
T Consensus       301 ~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  301 KMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence             2344466899999999999999999999999864

>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=96.96  E-value=0.042  Score=45.67  Aligned_cols=56  Identities=0%  Similarity=-0.025  Sum_probs=24.3

Q ss_pred             cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737          100 NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       100 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      +...|..|.+...+.|+.+-|++.|++..+         |..|+-.|.-.|+.++..++.+....
T Consensus       346 ~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~  401 (443)
T PF04053_consen  346 DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEE  401 (443)
T ss_dssp             THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHH
Confidence            334455555555555555555554444321         33333344444444444444444333

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.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.93  E-value=0.15  Score=40.95  Aligned_cols=213  Identities=12%  Similarity=0.044  Sum_probs=103.8

Q ss_pred             ccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHh--HHHHHHHHH---hcC
Q 048737           41 RGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIM--YNAVVGLLC---NNN  115 (274)
Q Consensus        41 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~~~l~~~~~---~~~  115 (274)
                      +.|..+.|..+-++.-..- +--.......+...+..|+++.|+++.+.-..... +.++..-  --.|+.+-.   -..
T Consensus       166 r~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~v-ie~~~aeR~rAvLLtAkA~s~lda  243 (531)
T COG3898         166 RLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKV-IEKDVAERSRAVLLTAKAMSLLDA  243 (531)
T ss_pred             hcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHh-hchhhHHHHHHHHHHHHHHHHhcC
Confidence            3344444444444443321 11233445555566666666666666655543321 2222211  111111111   112


Q ss_pred             ChhhHHHHHHHHHhcCCCCCh-hhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHH
Q 048737          116 DVDNVFRFFDQMVFHGAFPDS-LTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIW  194 (274)
Q Consensus       116 ~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  194 (274)
                      +...|...-.+..+  ..||. ..-..-..++.+.|+..++-.+++.+-+..  |.+..+.  +..+.+.|+.  +.+-+
T Consensus       244 dp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~e--PHP~ia~--lY~~ar~gdt--a~dRl  315 (531)
T COG3898         244 DPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAE--PHPDIAL--LYVRARSGDT--ALDRL  315 (531)
T ss_pred             ChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcC--CChHHHH--HHHHhcCCCc--HHHHH
Confidence            33444444333333  35553 233444567888888888888888887754  4433332  2223344443  33333


Q ss_pred             HHHHH-CCCCcc-HHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhc-Chh--HHHHHHHH
Q 048737          195 NYILE-NGILPL-EASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNE-SRS--MRDRFDSL  265 (274)
Q Consensus       195 ~~~~~-~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~-g~~--a~~~~~~~  265 (274)
                      ++..+ ..++|| ..+-..+..+-...|++..|..--+.....  .|....|..|.+.-.-. |+.  ++..+.+.
T Consensus       316 kRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~--~pres~~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         316 KRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAARE--APRESAYLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             HHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhh--CchhhHHHHHHHHHhhccCchHHHHHHHHHH
Confidence            33332 123333 345555666677777777776655554443  56666666666654433 555  44444443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.91  E-value=0.11  Score=39.14  Aligned_cols=64  Identities=9%  Similarity=0.041  Sum_probs=48.6

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhcCC--CCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcC
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKGEN--CFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIG   94 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   94 (274)
                      .+..=+..-.+.|++++|.+.|+.+..+-  -+-...+...++.++.+.++++.|....++..+.-
T Consensus        36 ~LY~~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~ly  101 (254)
T COG4105          36 ELYNEGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLY  101 (254)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhC
Confidence            34445556678899999999999998642  12235566777888889999999999999998864

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.89  E-value=0.13  Score=42.06  Aligned_cols=129  Identities=12%  Similarity=0.131  Sum_probs=62.7

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhcCC-CCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHH
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKGEN-CFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVG  109 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~  109 (274)
                      +|..+++...+..-.+.|..+|-+..+.| +.++...+++.+..++ .|+..-|.++|+.-...-   +.+..--+..+.
T Consensus       399 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         399 VFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKF---PDSTLYKEKYLL  474 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhC---CCchHHHHHHHH
Confidence            34444555555555555555665555555 3445555555555442 355555555555444321   222222334445


Q ss_pred             HHHhcCChhhHHHHHHHHHhcCCCCC--hhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737          110 LLCNNNDVDNVFRFFDQMVFHGAFPD--SLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       110 ~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      .+.+.++-..|..+|+....+ +..+  ...|..+|.--..-|+...+..+=++|.+
T Consensus       475 fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         475 FLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            555555555555555533322 1112  34455555555555555555555555544

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.88  E-value=0.076  Score=41.67  Aligned_cols=153  Identities=11%  Similarity=-0.048  Sum_probs=101.8

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcC---CCCCCHHHHHHHHHHHHhCCChh
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGE---NCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      .|++.+|-..++++.+.   .|.|..+++-.=.+|.-.|+.+.-...+++....   +++.....-..+.-++..+|-++
T Consensus       116 ~g~~h~a~~~wdklL~d---~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD---YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             cccccHHHHHHHHHHHh---CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccch
Confidence            56777788888888777   7778888887778888888888888888777653   22222222233334455778888


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHhHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP---DSLTYNMIFECLIKNKKVHEVENF  158 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~  158 (274)
                      +|++.-++..+.+   +.|...-.++...+--.++..++.++..+-...--..   -..-|--..-.+...+.++.|+.+
T Consensus       193 dAEk~A~ralqiN---~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleI  269 (491)
T KOG2610|consen  193 DAEKQADRALQIN---RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEI  269 (491)
T ss_pred             hHHHHHHhhccCC---CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHH
Confidence            8888888888776   6677777777888888888888888877654321100   011122222334555788888888


Q ss_pred             HHHHH
Q 048737          159 FHEMI  163 (274)
Q Consensus       159 ~~~~~  163 (274)
                      |+.-+
T Consensus       270 yD~ei  274 (491)
T KOG2610|consen  270 YDREI  274 (491)
T ss_pred             HHHHH
Confidence            87643

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.69  E-value=0.031  Score=42.40  Aligned_cols=99  Identities=12%  Similarity=-0.009  Sum_probs=75.7

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhcCC--CCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHH
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKGEN--CFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVV  108 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~  108 (274)
                      .|+.-+ .+.+.|++..|...|...++..  -.-.+..+-.|..++...|+++.|..+|..+.+.-...+--+..+--|.
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 LYNAAL-DLYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHH-HHHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            566544 5566777999999999888753  1112345566899999999999999999999886532233457788888


Q ss_pred             HHHHhcCChhhHHHHHHHHHhc
Q 048737          109 GLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      .+..+.|+.++|..+|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            8899999999999999999886

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.62  E-value=0.058  Score=41.00  Aligned_cols=101  Identities=18%  Similarity=0.128  Sum_probs=79.9

Q ss_pred             HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCC-CC-ChhhHHH
Q 048737           64 LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGA-FP-DSLTYNM  141 (274)
Q Consensus        64 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~-~~~~~~~  141 (274)
                      ...|+.-+..+ +.|++..|...|...++...+-.-....+--|..++...|++++|..+|..+.+.-. .| -+.++--
T Consensus       142 ~~~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         142 TKLYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             hHHHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            44677766655 778899999999999988633333455677789999999999999999999887521 11 2467788


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHHhC
Q 048737          142 IFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus       142 li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                      |..+..+.|+.++|..+|++..+.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHH
Confidence            888899999999999999999875

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.50  E-value=0.37  Score=39.62  Aligned_cols=145  Identities=10%  Similarity=0.147  Sum_probs=107.5

Q ss_pred             HHhHHHHHHHHHhcCChhhHHHHHHHHHhcC-CCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchH-HHHH
Q 048737          101 LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHG-AFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNC-ATAI  178 (274)
Q Consensus       101 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~  178 (274)
                      ..+|..+++.-.+..-.+.|..+|-+..+.| +.+++..+++++..++. |++.-|.++|+.-...  -||...| .-.+
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  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            3567788888888888999999999999988 67788999999987754 7788899999876543  3555444 5667


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCcc--HHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHH
Q 048737          179 TMLLDADEPEFAIEIWNYILENGILPL--EASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAF  251 (274)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~  251 (274)
                      ..+...++-..|..+|+....+ +..+  ...|..+|..-...|+...+..+=+.|.+.  .|...+......-|
T Consensus       474 ~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry  545 (660)
T COG5107         474 LFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRY  545 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHH
Confidence            7778889999999999855442 1111  368999999889999998888887777664  44444444444333

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.46  E-value=0.33  Score=38.64  Aligned_cols=109  Identities=14%  Similarity=0.209  Sum_probs=86.5

Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC  145 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (274)
                      +.+..+.-+...|+...|.++-.+..      .|+..-|...+.+++..++|++-..+...      +-++.-|-..+.+
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk------v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~  246 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK------VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEA  246 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC------CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHH
Confidence            45556777788899888888866662      58899999999999999999987775432      2356889999999


Q ss_pred             HHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHH
Q 048737          146 LIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNY  196 (274)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  196 (274)
                      |...|+..+|..++.++          .+..-+..|.+.|++.+|.+.-.+
T Consensus       247 ~~~~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  247 CLKYGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHHCCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999999988772          236678888999999998776433

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

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.44  E-value=0.17  Score=39.88  Aligned_cols=155  Identities=13%  Similarity=0.006  Sum_probs=90.9

Q ss_pred             ccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhc-CCccCccHHhHHHHHHHHHhcCChhh
Q 048737           41 RGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGI-GFNLMPNLIMYNAVVGLLCNNNDVDN  119 (274)
Q Consensus        41 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~  119 (274)
                      ..|+..+|-..++++.+. .|.|...+...-.+|...|+.+.....++++... +.++|....+-..+.-++..+|-+++
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            345555665666666653 4556666666667777778777777777777654 21122233334444555667788888


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC---CCCCCcchHHHHHHHHHhcCChHHHHHHHHH
Q 048737          120 VFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN---EWQPTPLNCATAITMLLDADEPEFAIEIWNY  196 (274)
Q Consensus       120 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  196 (274)
                      |++.-++..+.+ +.|.-.-......+...|+.+++.++..+-...   +.-.-.+.|=...-.+...+.++.|+++|+.
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            888877776643 235556666777777778888887776543321   0000011122223334555778888887765


Q ss_pred             H
Q 048737          197 I  197 (274)
Q Consensus       197 ~  197 (274)
                      -
T Consensus       273 e  273 (491)
T KOG2610|consen  273 E  273 (491)
T ss_pred             H
Confidence            3

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=96.40  E-value=0.0037  Score=31.26  Aligned_cols=32  Identities=22%  Similarity=0.422  Sum_probs=26.0

Q ss_pred             HHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHH
Q 048737           15 FGEMVERFEWNPEHVLAYETFLITLIRGKQVDEAL   49 (274)
Q Consensus        15 ~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~   49 (274)
                      |++..+.   .|+++.+|+.+...|...|++++|+
T Consensus         2 y~kAie~---~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIEL---NPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHH---CCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            3444443   8989999999999999999999886

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.38  E-value=0.12  Score=41.59  Aligned_cols=125  Identities=9%  Similarity=0.043  Sum_probs=69.8

Q ss_pred             HHHHhCCChhhHHHHHHHHHhcC---CccC---------ccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhH
Q 048737           72 DILVKLNDSTHTVQLWDIMVGIG---FNLM---------PNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTY  139 (274)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~~~~~~---~~~~---------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  139 (274)
                      +.+.+.|++..|..-|++++..=   ...+         .-..+++.+.-+|.+.+++..|++.-.+.+..+ ++|+...
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            56778888888888887765421   0011         123345666666666666766666666666653 3456666


Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHH-HHHHHHHhcCCh-HHHHHHHHHHHH
Q 048737          140 NMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCA-TAITMLLDADEP-EFAIEIWNYILE  199 (274)
Q Consensus       140 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~-~~a~~~~~~~~~  199 (274)
                      -.-..+|...|+++.|...|.++++.  .|+..... .|+.+-.+.... +...++|..|..
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            66666666666777777777666663  34443333 333333333322 223455555553

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.38  E-value=0.41  Score=39.85  Aligned_cols=61  Identities=7%  Similarity=0.064  Sum_probs=41.3

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCC-CChhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737          104 YNAVVGLLCNNNDVDNVFRFFDQMVFHGAF-PDSLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       104 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      -..+..+..+.|+.++|++.|.+|.+.... -+......|+.++...+.+.++..++.+.-+
T Consensus       262 KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  262 KRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            344556666778888888888887654221 1234566777888888888888888877644

The molecular function of this protein is uncertain.

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.38  E-value=0.14  Score=41.38  Aligned_cols=265  Identities=12%  Similarity=-0.007  Sum_probs=148.4

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCc--hHhHHHHHHHHHhccCcHHHHHHHHHH--HhcC--C-CCCCHHHHHHHHHHH
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPE--HVLAYETFLITLIRGKQVDEALKFLRV--MKGE--N-CFPTLKFFSNALDIL   74 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~~li~~~~~~~~~~~a~~~~~~--~~~~--~-~~~~~~~~~~l~~~~   74 (274)
                      +++.|+...-..+|+...+. |..--  -...|..|.++|.-.+++++|+++-..  ...+  | .......-..|.+.+
T Consensus        27 Lck~gdcraGv~ff~aA~qv-GTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtl  105 (639)
T KOG1130|consen   27 LCKMGDCRAGVDFFKAALQV-GTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTL  105 (639)
T ss_pred             HHhccchhhhHHHHHHHHHh-cchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchh
Confidence            46788999999999988774 53210  123467777778888888888876431  1110  1 001111222334444


Q ss_pred             HhCCChhhHHHHHH----HHHhcCCccCccHHhHHHHHHHHHhcCC--------------------hhhHHHHHHHH---
Q 048737           75 VKLNDSTHTVQLWD----IMVGIGFNLMPNLIMYNAVVGLLCNNND--------------------VDNVFRFFDQM---  127 (274)
Q Consensus        75 ~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~---  127 (274)
                      --.|.+++|...-.    ...+.|-. ......+..+...|...|+                    ++.|.++|..=   
T Consensus       106 Kv~G~fdeA~~cc~rhLd~areLgDr-v~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l  184 (639)
T KOG1130|consen  106 KVKGAFDEALTCCFRHLDFARELGDR-VLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLEL  184 (639)
T ss_pred             hhhcccchHHHHHHHHhHHHHHHhHH-HhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHH
Confidence            44555665543322    22222210 1123445556666655443                    23344444331   


Q ss_pred             -HhcCCC-CChhhHHHHHHHHHhcCCHhHHHHHHHHHH----hCCCC-CCcchHHHHHHHHHhcCChHHHHHHHHHHHH-
Q 048737          128 -VFHGAF-PDSLTYNMIFECLIKNKKVHEVENFFHEMI----KNEWQ-PTPLNCATAITMLLDADEPEFAIEIWNYILE-  199 (274)
Q Consensus       128 -~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~----~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-  199 (274)
                       .+.|-. .-...|..|...|.-.|+++.|+...+.-+    +-|-. .....+..+.+++.-.|+++.|.+.|+.-.. 
T Consensus       185 ~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~L  264 (639)
T KOG1130|consen  185 SEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNL  264 (639)
T ss_pred             HHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHH
Confidence             122211 112456667777777888998887665432    22322 2235677888999999999999988876543 


Q ss_pred             ---CCC-CccHHHHHHHHHHHHhcCCcchHHHHHHHHHh----C-CCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          200 ---NGI-LPLEASANVLLVGLRNLGRLSDVRRFAEEMLN----R-RILIYDVTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       200 ---~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~----~-~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                         .|- .....+.-+|...|.-..++++|++.+.+=..    . ...-....+.+|-.++...|..  |....+..++.
T Consensus       265 Aielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~  344 (639)
T KOG1130|consen  265 AIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRS  344 (639)
T ss_pred             HHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence               221 23345556677778777888888887665322    1 1122456788888888887765  55555444443

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.35  E-value=0.036  Score=42.32  Aligned_cols=87  Identities=16%  Similarity=0.177  Sum_probs=63.8

Q ss_pred             hHhHHHHHHHHHhcc-----CcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCC----------------ChhhHHHH
Q 048737           28 HVLAYETFLITLIRG-----KQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLN----------------DSTHTVQL   86 (274)
Q Consensus        28 ~~~~~~~li~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------~~~~a~~~   86 (274)
                      |-.+|-+.+..+...     +.++-....++.|.+.|+.-|..+|..|++.+-+..                +-+-+.++
T Consensus        66 dK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~v  145 (406)
T KOG3941|consen   66 DKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKV  145 (406)
T ss_pred             cHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHH
Confidence            666787777777544     567777777888999999999999999988764432                22346677


Q ss_pred             HHHHHhcCCccCccHHhHHHHHHHHHhcCC
Q 048737           87 WDIMVGIGFNLMPNLIMYNAVVGLLCNNND  116 (274)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  116 (274)
                      +++|...|  +.||..+-..|++++.+.+-
T Consensus       146 LeqME~hG--VmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  146 LEQMEWHG--VMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHcC--CCCchHHHHHHHHHhccccc
Confidence            77777777  77777777777777776654

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.35  E-value=0.12  Score=43.51  Aligned_cols=131  Identities=12%  Similarity=0.154  Sum_probs=80.0

Q ss_pred             HHHHHHHHHhc----cCcHHHHHHHHHHHhcCCCCCCHHHHHHH-HHHHHhCCChhhHHHHHHHHHhcCCc-cCccHHhH
Q 048737           31 AYETFLITLIR----GKQVDEALKFLRVMKGENCFPTLKFFSNA-LDILVKLNDSTHTVQLWDIMVGIGFN-LMPNLIMY  104 (274)
Q Consensus        31 ~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~  104 (274)
                      .|+..+..++.    ....+.|.+++..+.++  -|+...|... .+.+...|+++.|.+.|+........ -+.....+
T Consensus       231 ~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~  308 (468)
T PF10300_consen  231 WYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCY  308 (468)
T ss_pred             HHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHH
Confidence            44444444333    45677888888888774  4665555433 35566778888888888876542100 12234455


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH-HHhcCCH-------hHHHHHHHHHHh
Q 048737          105 NAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC-LIKNKKV-------HEVENFFHEMIK  164 (274)
Q Consensus       105 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~~~~-------~~a~~~~~~~~~  164 (274)
                      --+.-.+.-.++|++|...|..+.+..- =+..+|.-+..+ +...++.       ++|.++|.+...
T Consensus       309 ~El~w~~~~~~~w~~A~~~f~~L~~~s~-WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  309 FELAWCHMFQHDWEEAAEYFLRLLKESK-WSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHHchHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            5666777778888888888888887532 234444433333 3456666       788888877643

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.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.34  E-value=0.37  Score=37.94  Aligned_cols=131  Identities=11%  Similarity=0.204  Sum_probs=85.1

Q ss_pred             hhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHh--cC----ChhhHHHHHHHHHhcCC---CCChhhHHHHHHHHHhcC
Q 048737           80 STHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCN--NN----DVDNVFRFFDQMVFHGA---FPDSLTYNMIFECLIKNK  150 (274)
Q Consensus        80 ~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~li~~~~~~~  150 (274)
                      ++....+++.+.+.|  +..+..+|-+..-....  ..    ...+|.++|+.|.+...   .++...+..++..  ...
T Consensus        78 ~~~~~~~y~~L~~~g--Fk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~  153 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAG--FKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSE  153 (297)
T ss_pred             HHHHHHHHHHHHHhc--cCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccc
Confidence            456678899999999  67776666653333333  22    35678999999998753   3455666666654  333


Q ss_pred             C----HhHHHHHHHHHHhCCCCCCcc--hHHHHHHHHHhcCC--hHHHHHHHHHHHHCCCCccHHHHHHHHH
Q 048737          151 K----VHEVENFFHEMIKNEWQPTPL--NCATAITMLLDADE--PEFAIEIWNYILENGILPLEASANVLLV  214 (274)
Q Consensus       151 ~----~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~  214 (274)
                      +    .+.++.+|+.+.+.|...+..  ....++..+.....  ..++.++++.+.+.|+++....|..+.-
T Consensus       154 ~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  154 DVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             cHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHH
Confidence            3    356788888888877755433  33333333322222  4478889999999999888777766543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.34  E-value=0.086  Score=36.12  Aligned_cols=62  Identities=11%  Similarity=0.046  Sum_probs=41.9

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHhcCCCCC---CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcC
Q 048737           32 YETFLITLIRGKQVDEALKFLRVMKGENCFP---TLKFFSNALDILVKLNDSTHTVQLWDIMVGIG   94 (274)
Q Consensus        32 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   94 (274)
                      +..-.....+.|++++|.+.|+.+..+ .+.   ....-..|+.++.+.++++.|...+++.++..
T Consensus        13 ly~~a~~~l~~~~Y~~A~~~le~L~~r-yP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh   77 (142)
T PF13512_consen   13 LYQEAQEALQKGNYEEAIKQLEALDTR-YPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH   77 (142)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            334555666777788888888777764 222   23455667777778888888888888877765

>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=96.33  E-value=0.2  Score=41.86  Aligned_cols=158  Identities=12%  Similarity=0.134  Sum_probs=104.4

Q ss_pred             HHHHhccCcHHHHHHHHH--HHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHh
Q 048737           36 LITLIRGKQVDEALKFLR--VMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCN  113 (274)
Q Consensus        36 i~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  113 (274)
                      .....-.++++++.++..  ++.. .+  +....+.++..+.+.|-.+.|+++-..         |+     .-.....+
T Consensus       268 fk~av~~~d~~~v~~~i~~~~ll~-~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D---------~~-----~rFeLAl~  330 (443)
T PF04053_consen  268 FKTAVLRGDFEEVLRMIAASNLLP-NI--PKDQGQSIARFLEKKGYPELALQFVTD---------PD-----HRFELALQ  330 (443)
T ss_dssp             HHHHHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS----------HH-----HHHHHHHH
T ss_pred             HHHHHHcCChhhhhhhhhhhhhcc-cC--ChhHHHHHHHHHHHCCCHHHHHhhcCC---------hH-----HHhHHHHh
Confidence            344566788888777775  2221 12  255678888888899999888776432         21     22445667


Q ss_pred             cCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHH
Q 048737          114 NNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEI  193 (274)
Q Consensus       114 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  193 (274)
                      .|+.+.|.++.++.      ++...|..|.......|+++-|++.|.+..         -|..|+-.|.-.|+.+.-.++
T Consensus       331 lg~L~~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl  395 (443)
T PF04053_consen  331 LGNLDIALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKL  395 (443)
T ss_dssp             CT-HHHHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHH
T ss_pred             cCCHHHHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHH
Confidence            89999998876554      377899999999999999999999998754         356777888889999888888


Q ss_pred             HHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHH
Q 048737          194 WNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEE  231 (274)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  231 (274)
                      .+.....|-      ++....++...|+.++..+++.+
T Consensus       396 ~~~a~~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  396 AKIAEERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            877777662      44455556667888888877654

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.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.31  E-value=0.23  Score=35.22  Aligned_cols=52  Identities=12%  Similarity=0.119  Sum_probs=23.2

Q ss_pred             hcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737          113 NNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       113 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      ..|.+++.....+.+...+-+.....-..|.-+-.+.|++.+|.+.|..+..
T Consensus       144 D~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         144 DNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             ccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            3455555555544444332222222233343444455555555555555544

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.29  E-value=0.4  Score=37.75  Aligned_cols=139  Identities=14%  Similarity=0.135  Sum_probs=89.8

Q ss_pred             HHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh--C----CChhhHHHHHHHHHhcCCc-cCccHHhHHHHHHHHHhcCC-
Q 048737           45 VDEALKFLRVMKGENCFPTLKFFSNALDILVK--L----NDSTHTVQLWDIMVGIGFN-LMPNLIMYNAVVGLLCNNND-  116 (274)
Q Consensus        45 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~----~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~-  116 (274)
                      +++.+.+++.|.+.|++-+..+|-+..-....  .    .....|..+|+.|++..+- ..++..++..++..  ..++ 
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            45667788999999988887776654333332  2    2356789999999986411 13455666666554  3333 


Q ss_pred             ---hhhHHHHHHHHHhcCCCCCh--hhHHHHHHHHHhcCC--HhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcC
Q 048737          117 ---VDNVFRFFDQMVFHGAFPDS--LTYNMIFECLIKNKK--VHEVENFFHEMIKNEWQPTPLNCATAITMLLDAD  185 (274)
Q Consensus       117 ---~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  185 (274)
                         .+.++.+|+.+.+.|+..+-  ...+.++..+....+  ...+.++++.+.+.|+++....|..+.-...-.+
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~  231 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLED  231 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCC
Confidence               36678888889888876542  334444443333322  3478899999999999988888776655443333

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.26  E-value=0.21  Score=34.36  Aligned_cols=125  Identities=12%  Similarity=0.092  Sum_probs=64.9

Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc
Q 048737          105 NAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDA  184 (274)
Q Consensus       105 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  184 (274)
                      ..++..+...+.+.....+++.+...+. .+...++.++..|++.+ ..+...++..      .++......+++.|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHc
Confidence            3445555555666666666666665542 45556666666666543 2333333332      12334445566666666


Q ss_pred             CChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhc-CCcchHHHHHHHHHhCCCccCHHHHHHHHHHHH
Q 048737          185 DEPEFAIEIWNYILENGILPLEASANVLLVGLRNL-GRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFY  252 (274)
Q Consensus       185 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~  252 (274)
                      +-++.+..++.++..         +...+..+... ++++.|.+++.+      .-+...|..++..+.
T Consensus        83 ~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~------~~~~~lw~~~~~~~l  136 (140)
T smart00299       83 KLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVK------QNNPELWAEVLKALL  136 (140)
T ss_pred             CcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHh------CCCHHHHHHHHHHHH
Confidence            666666666655421         11122223333 566666666554      114445555555544

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.21  E-value=0.51  Score=38.28  Aligned_cols=155  Identities=11%  Similarity=0.033  Sum_probs=92.0

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHH-------------
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNA-------------   70 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------------   70 (274)
                      -.|+.++|...--.+.+.   .+.+......-..++--.++.+.|+..|++.+..+  |+...-...             
T Consensus       181 ~~~~~~~a~~ea~~ilkl---d~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~  255 (486)
T KOG0550|consen  181 FLGDYDEAQSEAIDILKL---DATNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKER  255 (486)
T ss_pred             hcccchhHHHHHHHHHhc---ccchhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhh
Confidence            346666666666555443   44343333333334445577778888887776643  543322211             


Q ss_pred             HHHHHhCCChhhHHHHHHHHHhcC-CccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHh
Q 048737           71 LDILVKLNDSTHTVQLWDIMVGIG-FNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD-SLTYNMIFECLIK  148 (274)
Q Consensus        71 ~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~  148 (274)
                      .+-..+.|.+..|.+.|.+.+... .+..|+...|........+.|+.++|+.--+.....  .|. ...|..-..++.-
T Consensus       256 gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i--D~syikall~ra~c~l~  333 (486)
T KOG0550|consen  256 GNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI--DSSYIKALLRRANCHLA  333 (486)
T ss_pred             hhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc--CHHHHHHHHHHHHHHHH
Confidence            233457788888888888887644 113445556666777777888888888877777653  211 2233333445556


Q ss_pred             cCCHhHHHHHHHHHHhC
Q 048737          149 NKKVHEVENFFHEMIKN  165 (274)
Q Consensus       149 ~~~~~~a~~~~~~~~~~  165 (274)
                      .++|++|.+-+++..+.
T Consensus       334 le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  334 LEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHhh
Confidence            67788888877777654

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.19  E-value=0.29  Score=39.02  Aligned_cols=228  Identities=11%  Similarity=-0.003  Sum_probs=137.0

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhc--CCCCC---CHHHHHHHHHHHHhCC
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKG--ENCFP---TLKFFSNALDILVKLN   78 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~---~~~~~~~l~~~~~~~~   78 (274)
                      .+.+.++|+..|.+-..+..-.-+-...|..+..+.++.|.+++++..--.-.+  .....   --..|..+-+++-+.-
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~   97 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLC   97 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356677787777766554111111233566677788888888887754321111  00111   1234555556666666


Q ss_pred             ChhhHHHHHHHHHhcCCccCc---cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcC-----CCCChhhHHHHHHHHHhcC
Q 048737           79 DSTHTVQLWDIMVGIGFNLMP---NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHG-----AFPDSLTYNMIFECLIKNK  150 (274)
Q Consensus        79 ~~~~a~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~~  150 (274)
                      ++.+++.+-..-..... ..|   ......++..++...+.++++++.|+...+-.     ......++..+...|.+..
T Consensus        98 ~f~kt~~y~k~~l~lpg-t~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~  176 (518)
T KOG1941|consen   98 EFHKTISYCKTCLGLPG-TRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLK  176 (518)
T ss_pred             HhhhHHHHHHHHhcCCC-CCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHH
Confidence            66666666555443210 111   12344557778888889999999998875431     1122467888999999999


Q ss_pred             CHhHHHHHHHHHHhC----CCCCCcchHH-----HHHHHHHhcCChHHHHHHHHHHHH----CCCCc-cHHHHHHHHHHH
Q 048737          151 KVHEVENFFHEMIKN----EWQPTPLNCA-----TAITMLLDADEPEFAIEIWNYILE----NGILP-LEASANVLLVGL  216 (274)
Q Consensus       151 ~~~~a~~~~~~~~~~----~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~~~  216 (274)
                      |+++|.-+..+..+.    ++.--..-|.     .+.-++-..|....|.+..++..+    .|-+| .......+.+.|
T Consensus       177 D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIy  256 (518)
T KOG1941|consen  177 DYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIY  256 (518)
T ss_pred             hhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHH
Confidence            999998887766432    2211111222     334456677888888888777654    34332 234455677888


Q ss_pred             HhcCCcchHHHHHHHH
Q 048737          217 RNLGRLSDVRRFAEEM  232 (274)
Q Consensus       217 ~~~g~~~~a~~~~~~m  232 (274)
                      ...|+.|.|+.-|+..
T Consensus       257 R~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  257 RSRGDLERAFRRYEQA  272 (518)
T ss_pred             HhcccHhHHHHHHHHH
Confidence            9999999988877764

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.16  E-value=0.0059  Score=32.59  Aligned_cols=40  Identities=20%  Similarity=0.087  Sum_probs=28.3

Q ss_pred             hHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHH
Q 048737           30 LAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNA   70 (274)
Q Consensus        30 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   70 (274)
                      .+|..+...|.+.|++++|.++|++..+.. +-|...+..+
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~-P~~~~a~~~L   41 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALD-PDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCCHHHHHHh
Confidence            367778888888888888888888888753 3344444443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.11  E-value=0.57  Score=37.83  Aligned_cols=236  Identities=10%  Similarity=-0.006  Sum_probs=142.7

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHH--HHHhccCcHHHHHHHHHHHhcCCCCCCHH--HHHHHHHHHHhCCCh
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFL--ITLIRGKQVDEALKFLRVMKGENCFPTLK--FFSNALDILVKLNDS   80 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~   80 (274)
                      .|+-..|.++-.+-...  +.. |....-.|+  ++-.-.|+++.|.+-|+-|...   |...  -+..|.-.-.+.|+.
T Consensus        97 AGda~lARkmt~~~~~l--lss-DqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~Gar  170 (531)
T COG3898          97 AGDASLARKMTARASKL--LSS-DQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAR  170 (531)
T ss_pred             cCchHHHHHHHHHHHhh--hhc-cchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccH
Confidence            46667777666554321  111 333333333  2334569999999999999852   2221  223334444577888


Q ss_pred             hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcC-CCCChhh--HHHHHHHHH---hcCCHhH
Q 048737           81 THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHG-AFPDSLT--YNMIFECLI---KNKKVHE  154 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~--~~~li~~~~---~~~~~~~  154 (274)
                      +.|.++-+..-...   +.-...+...+...+..|+|+.|+++++.-.... +.++..-  -..|+.+-.   -..+...
T Consensus       171 eaAr~yAe~Aa~~A---p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~  247 (531)
T COG3898         171 EAARHYAERAAEKA---PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPAS  247 (531)
T ss_pred             HHHHHHHHHHHhhc---cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHH
Confidence            88988888887764   4446788899999999999999999998765543 4444321  122332211   1234555


Q ss_pred             HHHHHHHHHhCCCCCCcc-hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 048737          155 VENFFHEMIKNEWQPTPL-NCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEML  233 (274)
Q Consensus       155 a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  233 (274)
                      |...-.+..+  +.||-. .-..-..++.+.|+..++-.+++.+=+....|+  .+.    .|.+..--|.+..-++...
T Consensus       248 Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~--ia~----lY~~ar~gdta~dRlkRa~  319 (531)
T COG3898         248 ARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPD--IAL----LYVRARSGDTALDRLKRAK  319 (531)
T ss_pred             HHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChH--HHH----HHHHhcCCCcHHHHHHHHH
Confidence            6555544443  566644 333456788999999999999999888654444  433    3433444444554444443


Q ss_pred             hC-CCcc-CHHHHHHHHHHHHhcChh
Q 048737          234 NR-RILI-YDVTMQKLKKAFYNESRS  257 (274)
Q Consensus       234 ~~-~~~~-~~~~~~~l~~~~~~~g~~  257 (274)
                      +. .++| +..+...+..+-...|++
T Consensus       320 ~L~slk~nnaes~~~va~aAlda~e~  345 (531)
T COG3898         320 KLESLKPNNAESSLAVAEAALDAGEF  345 (531)
T ss_pred             HHHhcCccchHHHHHHHHHHHhccch
Confidence            21 1233 445666677777778877

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.11  E-value=0.11  Score=40.18  Aligned_cols=79  Identities=14%  Similarity=0.161  Sum_probs=58.6

Q ss_pred             HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh-----CCCCCCcchHH
Q 048737          101 LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK-----NEWQPTPLNCA  175 (274)
Q Consensus       101 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  175 (274)
                      ..++..++..+...|+.+.+.+.++++.... +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+..
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            4567777788888888888888888877764 34777888888888888888888888877654     47777777666


Q ss_pred             HHHHH
Q 048737          176 TAITM  180 (274)
Q Consensus       176 ~l~~~  180 (274)
                      .....
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            66555

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.09  E-value=0.27  Score=33.88  Aligned_cols=44  Identities=9%  Similarity=0.150  Sum_probs=23.8

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhC
Q 048737           33 ETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKL   77 (274)
Q Consensus        33 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   77 (274)
                      ..++..+.+.+.+..+..+++.+...+ +.++...+.++..|++.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~   54 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH
Confidence            345555555555666666666555554 24455555555555543

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.08  E-value=0.68  Score=39.93  Aligned_cols=119  Identities=9%  Similarity=0.029  Sum_probs=72.4

Q ss_pred             HHHHHHhcCChhhHHHHHHH------HHhcCC---CCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHH
Q 048737          107 VVGLLCNNNDVDNVFRFFDQ------MVFHGA---FPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATA  177 (274)
Q Consensus       107 l~~~~~~~~~~~~a~~~~~~------~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  177 (274)
                      ....+...|+.++|..+.-+      +.+-+-   ..+..+...+..-+.+...+.-|-++|.+|-+.         ..+
T Consensus       709 AAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksi  779 (1081)
T KOG1538|consen  709 AAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSL  779 (1081)
T ss_pred             HHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHH
Confidence            34455566777666655321      111111   123344555555555666677777777776432         356


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCccH-----------HHHHHHHHHHHhcCCcchHHHHHHHHHhCC
Q 048737          178 ITMLLDADEPEFAIEIWNYILENGILPLE-----------ASANVLLVGLRNLGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       178 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  236 (274)
                      ++.....++|++|..+-++..+.  .|++           .-|...-.+|-+.|+-.+|..+++++....
T Consensus       780 VqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnna  847 (1081)
T KOG1538|consen  780 VQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNNA  847 (1081)
T ss_pred             hhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhhh
Confidence            77788889999998887765542  2332           224444567888899999999988886543

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.05  E-value=0.022  Score=30.33  Aligned_cols=27  Identities=7%  Similarity=0.122  Sum_probs=13.3

Q ss_pred             HHHHHHHHHhCCChhhHHHHHHHHHhc
Q 048737           67 FSNALDILVKLNDSTHTVQLWDIMVGI   93 (274)
Q Consensus        67 ~~~l~~~~~~~~~~~~a~~~~~~~~~~   93 (274)
                      +..+...|...|++++|+++|+++++.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344444455555555555555555544

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.01  E-value=0.41  Score=35.33  Aligned_cols=201  Identities=14%  Similarity=0.061  Sum_probs=94.2

Q ss_pred             hHHHHHHHHHhccCcHHHHHHHHHHHhcC-CCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHH
Q 048737           30 LAYETFLITLIRGKQVDEALKFLRVMKGE-NCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVV  108 (274)
Q Consensus        30 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~  108 (274)
                      ..+......+...+.+..+...+...... ........+......+...+++..+...+.......  ..+ ........
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~-~~~~~~~~  136 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALD--PDP-DLAEALLA  136 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCC--CCc-chHHHHHH
Confidence            34455555555556666665555555431 122334444445555555555666666666555533  111 11222222


Q ss_pred             H-HHHhcCChhhHHHHHHHHHhcCC--CCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCC-CcchHHHHHHHHHhc
Q 048737          109 G-LLCNNNDVDNVFRFFDQMVFHGA--FPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQP-TPLNCATAITMLLDA  184 (274)
Q Consensus       109 ~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~  184 (274)
                      . .+...|+++.|...+.+......  ......+......+...++.+.+...+....... .. ....+..+...+...
T Consensus       137 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  215 (291)
T COG0457         137 LGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLN-PDDDAEALLNLGLLYLKL  215 (291)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhC-cccchHHHHHhhHHHHHc
Confidence            2 45556666666666665533211  0122223333333445555666666666555432 11 234455555555555


Q ss_pred             CChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          185 DEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       185 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      ++++.+...+......... ....+..+...+...+..+.+...+......
T Consensus       216 ~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         216 GKYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             ccHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5566666665555543211 1222333333333444555555555555443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.98  E-value=0.48  Score=35.88  Aligned_cols=170  Identities=12%  Similarity=0.123  Sum_probs=108.4

Q ss_pred             CCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHH
Q 048737           62 PTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNM  141 (274)
Q Consensus        62 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  141 (274)
                      |-...|+.-+.. .+.|++++|.+.|+.+.....--+-...+.-.++-++.+.++++.|+..+++....-+.-.-..|..
T Consensus        33 p~~~LY~~g~~~-L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~  111 (254)
T COG4105          33 PASELYNEGLTE-LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAY  111 (254)
T ss_pred             CHHHHHHHHHHH-HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHH
Confidence            334445554444 4789999999999999976411122345566677788899999999999999887633223344555


Q ss_pred             HHHHHHhc-------CCHhHHH---HHHHHHHhCCCCCCcc------hH------------HHHHHHHHhcCChHHHHHH
Q 048737          142 IFECLIKN-------KKVHEVE---NFFHEMIKNEWQPTPL------NC------------ATAITMLLDADEPEFAIEI  193 (274)
Q Consensus       142 li~~~~~~-------~~~~~a~---~~~~~~~~~~~~~~~~------~~------------~~l~~~~~~~~~~~~a~~~  193 (274)
                      -|.+++.-       .|...+.   .-|..++..  -||+.      .-            ..+.+.|.+.|.+-.|..-
T Consensus       112 YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~r--yPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR  189 (254)
T COG4105         112 YLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQR--YPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINR  189 (254)
T ss_pred             HHHHHHHhccCCccccCHHHHHHHHHHHHHHHHH--CCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHH
Confidence            55555432       2333344   444444432  24332      11            1345678888999888888


Q ss_pred             HHHHHHCCCCc---cHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          194 WNYILENGILP---LEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       194 ~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      +++|.+. .+-   .....-.+..+|...|-.++|.+.-.-+...
T Consensus       190 ~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         190 FEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            8888875 222   2344556677888889888888876655544

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.92  E-value=0.83  Score=38.13  Aligned_cols=220  Identities=10%  Similarity=0.022  Sum_probs=122.6

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHhcCCCCCCH-HHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHH
Q 048737           34 TFLITLIRGKQVDEALKFLRVMKGENCFPTL-KFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLC  112 (274)
Q Consensus        34 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  112 (274)
                      .++.-..+..++..-++.-.+..+  +.||- ..|..  -+--....+.+++++|++..+.|   +.. .--....    
T Consensus       173 ~IMq~AWRERnp~aRIkaA~eALe--i~pdCAdAYIL--LAEEeA~Ti~Eae~l~rqAvkAg---E~~-lg~s~~~----  240 (539)
T PF04184_consen  173 EIMQKAWRERNPQARIKAAKEALE--INPDCADAYIL--LAEEEASTIVEAEELLRQAVKAG---EAS-LGKSQFL----  240 (539)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH--hhhhhhHHHhh--cccccccCHHHHHHHHHHHHHHH---HHh-hchhhhh----
Confidence            455666667777777777776665  33443 22222  12223456788999999988765   111 1000011    


Q ss_pred             hcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCC-CCCCcchHHHHHHHHHhcCChHHHH
Q 048737          113 NNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNE-WQPTPLNCATAITMLLDADEPEFAI  191 (274)
Q Consensus       113 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~  191 (274)
                           +..-..++....+...|-..+=..+..++.+.|+.++|.+.+++|.+.. ...+......|+.++...+.+.++.
T Consensus       241 -----~~~g~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q  315 (539)
T PF04184_consen  241 -----QHHGHFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQ  315 (539)
T ss_pred             -----hcccchhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHH
Confidence                 1111112222222222223333457777789999999999999998643 1112346778999999999999999


Q ss_pred             HHHHHHHHCCC-CccHHHHHHHHHHHHhcCCc---------------chHHHHHHHHHhCCCccCHHHHHH----H---H
Q 048737          192 EIWNYILENGI-LPLEASANVLLVGLRNLGRL---------------SDVRRFAEEMLNRRILIYDVTMQK----L---K  248 (274)
Q Consensus       192 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~---------------~~a~~~~~~m~~~~~~~~~~~~~~----l---~  248 (274)
                      .++.+.-+... +.-...|+..+--+...++-               ..|.+.+.+..+.+...  .-|..    |   -
T Consensus       316 ~lL~kYdDi~lpkSAti~YTaALLkaRav~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHV--p~YLLe~K~LilPP  393 (539)
T PF04184_consen  316 ALLAKYDDISLPKSATICYTAALLKARAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHV--PKYLLEMKSLILPP  393 (539)
T ss_pred             HHHHHhccccCCchHHHHHHHHHHHHHhhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCC--chhhhccCCCCCCh
Confidence            99998765433 23345677765444433331               12334455554443211  11110    0   1


Q ss_pred             HHHHhcChh-HHHHHHHHHHHhhhh
Q 048737          249 KAFYNESRS-MRDRFDSLERRWKTS  272 (274)
Q Consensus       249 ~~~~~~g~~-a~~~~~~~~~~~~~~  272 (274)
                      ..+.+.|+. |..+--.-++.||..
T Consensus       394 ehilkrGDSEAiaYAf~hL~hWk~v  418 (539)
T PF04184_consen  394 EHILKRGDSEAIAYAFFHLQHWKRV  418 (539)
T ss_pred             HHhcCCCcHHHHHHHHHHHHHHhcC
Confidence            245667766 666666667777654

The molecular function of this protein is uncertain.

>PRK11906 transcriptional regulator; Provisional

Probab=95.82  E-value=0.89  Score=37.68  Aligned_cols=130  Identities=11%  Similarity=0.100  Sum_probs=71.3

Q ss_pred             hHH--HHHHHHHhcc-----CcHHHHHHHHHHHhc-CCCCCC-HHHHHHHHHHHH---------hCCChhhHHHHHHHHH
Q 048737           30 LAY--ETFLITLIRG-----KQVDEALKFLRVMKG-ENCFPT-LKFFSNALDILV---------KLNDSTHTVQLWDIMV   91 (274)
Q Consensus        30 ~~~--~~li~~~~~~-----~~~~~a~~~~~~~~~-~~~~~~-~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~   91 (274)
                      .+|  ...+.+....     ...+.|+.+|.+... ..+.|+ ...|..+..++.         ...+..+|.++-++..
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            556  5555444431     234567777777762 123343 333333322221         1223445566666666


Q ss_pred             hcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737           92 GIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD-SLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus        92 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      +.+   +.|......+..+..-.++++.|...|++....  .|| ..+|....-.+.-.|+.++|.+.+++..+
T Consensus       332 eld---~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alr  400 (458)
T PRK11906        332 DIT---TVDGKILAIMGLITGLSGQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKSLQ  400 (458)
T ss_pred             hcC---CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            665   556666666666666666677777777776663  344 44455555555566777777777776554

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.82  E-value=0.81  Score=40.57  Aligned_cols=176  Identities=17%  Similarity=0.226  Sum_probs=110.0

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHH----HHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHH
Q 048737           33 ETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNAL----DILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVV  108 (274)
Q Consensus        33 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~  108 (274)
                      ..-+..+.+...++-|+.+-+.   .+  .+..+...+.    +-+.+.|++++|...|-+-+..   +.|+.     ++
T Consensus       338 e~kL~iL~kK~ly~~Ai~LAk~---~~--~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~---le~s~-----Vi  404 (933)
T KOG2114|consen  338 ETKLDILFKKNLYKVAINLAKS---QH--LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF---LEPSE-----VI  404 (933)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHh---cC--CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc---CChHH-----HH
Confidence            3455666677777777766543   22  3344444443    4456789999998888777654   34443     34


Q ss_pred             HHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChH
Q 048737          109 GLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPE  188 (274)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  188 (274)
                      .-|....+...-..+++.+.+.|.. +...-..|+.+|.+.++.++-.++.+..- .|..  ..-....+..+.+.+-.+
T Consensus       405 ~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~  480 (933)
T KOG2114|consen  405 KKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLD  480 (933)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHH
Confidence            4556666677777888888888764 67777888999999999888777665544 2221  112455666677777777


Q ss_pred             HHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 048737          189 FAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEML  233 (274)
Q Consensus       189 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  233 (274)
                      +|..+-.+...     +......+   +-..|++++|++.+..+.
T Consensus       481 ~a~~LA~k~~~-----he~vl~il---le~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  481 EAELLATKFKK-----HEWVLDIL---LEDLHNYEEALRYISSLP  517 (933)
T ss_pred             HHHHHHHHhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcCC
Confidence            77665444322     22333333   335677888877766553

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=95.81  E-value=0.091  Score=42.45  Aligned_cols=229  Identities=11%  Similarity=-0.028  Sum_probs=127.3

Q ss_pred             HHHhccCcHHHHHHHHHHHhcCCCC---CCHHHHHHHHHHHHhCCChhhHHHHHHHH--Hhc--CCccCccHHhHHHHHH
Q 048737           37 ITLIRGKQVDEALKFLRVMKGENCF---PTLKFFSNALDILVKLNDSTHTVQLWDIM--VGI--GFNLMPNLIMYNAVVG  109 (274)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--~~~--~~~~~~~~~~~~~l~~  109 (274)
                      .-+++.|+....+.+|+..++.|..   .=..+|..|.++|.-.+++++|.++...=  ...  |- -.-..-....|..
T Consensus        25 ERLck~gdcraGv~ff~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgd-klGEAKssgNLGN  103 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGD-KLGEAKSSGNLGN  103 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcc-hhccccccccccc
Confidence            3478999999999999999987722   12346777778888888999998875321  111  10 0001222334444


Q ss_pred             HHHhcCChhhHHHHHHH----HHhcCCC-CChhhHHHHHHHHHhcCC--------------------HhHHHHHHHHHH-
Q 048737          110 LLCNNNDVDNVFRFFDQ----MVFHGAF-PDSLTYNMIFECLIKNKK--------------------VHEVENFFHEMI-  163 (274)
Q Consensus       110 ~~~~~~~~~~a~~~~~~----~~~~~~~-~~~~~~~~li~~~~~~~~--------------------~~~a~~~~~~~~-  163 (274)
                      .+--.|.+++|.-.-.+    ..+.|-+ .....+..+...|-..|+                    ++.|.++|..=+ 
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            55555667766543222    1222211 123344455566655443                    233444443321 


Q ss_pred             ---hCCC-CCCcchHHHHHHHHHhcCChHHHHHHHHHHH----HCCC-CccHHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          164 ---KNEW-QPTPLNCATAITMLLDADEPEFAIEIWNYIL----ENGI-LPLEASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       164 ---~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                         +.|- -.-...|..|.+.|.-.|+++.|+...+.-.    +.|- ......+..+..++.-.|+++.|.+.|+.-..
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 1122356666777777889999987655432    2222 12346678888899999999999998887543


Q ss_pred             C----C-CccCHHHHHHHHHHHHhcChh--HHHHHHHHH
Q 048737          235 R----R-ILIYDVTMQKLKKAFYNESRS--MRDRFDSLE  266 (274)
Q Consensus       235 ~----~-~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~  266 (274)
                      .    | -.....+..+|-..|.-..++  |..++.+-+
T Consensus       264 LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHL  302 (639)
T KOG1130|consen  264 LAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHL  302 (639)
T ss_pred             HHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            2    2 122334444555555444443  555554433

>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=95.81  E-value=0.46  Score=34.29  Aligned_cols=64  Identities=16%  Similarity=0.169  Sum_probs=39.1

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC--HHHHHHHHHHHHhCCChhhHHHHHHHHHh
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT--LKFFSNALDILVKLNDSTHTVQLWDIMVG   92 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   92 (274)
                      ...+..+...|.+.|+.+.|++.|.++.+....+.  ...+-.+|......+++..+.....++..
T Consensus        36 r~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   36 RMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            34566667777777777777777777666433332  23445556666666677666666665554

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.

>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=95.79  E-value=0.23  Score=35.80  Aligned_cols=62  Identities=10%  Similarity=0.119  Sum_probs=34.3

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC--hhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD--SLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      .+..+...|.+.|+.+.|.+.|.++.+....|.  ...+-.+|......+++..+...+.+...
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            455555666666666666666666655433322  23344555555566666666665555543

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.79  E-value=0.33  Score=32.71  Aligned_cols=91  Identities=10%  Similarity=0.015  Sum_probs=54.8

Q ss_pred             HHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc-CCCCC--hhhHHHHHHHHHhc
Q 048737           73 ILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH-GAFPD--SLTYNMIFECLIKN  149 (274)
Q Consensus        73 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~--~~~~~~li~~~~~~  149 (274)
                      +....|+++.|.+.|.+.+..-   +.....||.-..++.-.|+.++|+.=+++..+. |.+..  ...|..-...|...
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~---P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA---PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc---ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            4556677777777777777653   556667777777777777777777766665543 22111  12333334445556


Q ss_pred             CCHhHHHHHHHHHHhCC
Q 048737          150 KKVHEVENFFHEMIKNE  166 (274)
Q Consensus       150 ~~~~~a~~~~~~~~~~~  166 (274)
                      |+-+.|..=|+...+.|
T Consensus       129 g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLG  145 (175)
T ss_pred             CchHHHHHhHHHHHHhC
Confidence            66666666666665554

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.71  E-value=0.21  Score=38.61  Aligned_cols=60  Identities=13%  Similarity=0.140  Sum_probs=29.7

Q ss_pred             hHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHH
Q 048737          138 TYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYIL  198 (274)
Q Consensus       138 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  198 (274)
                      ++..++..+...|+.+.+...++++.... +-+...|..+|.+|.+.|+...|+..|+.+.
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~  214 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLK  214 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHH
Confidence            33444444445555555555555554432 3344455555555555555555555555443

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.25  E-value=0.57  Score=31.68  Aligned_cols=67  Identities=9%  Similarity=0.088  Sum_probs=39.2

Q ss_pred             cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCC
Q 048737          100 NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEW  167 (274)
Q Consensus       100 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  167 (274)
                      +..-....++.....|+.+.-.+++..+.+. -.+++.....+..+|.+.|+..++.+++.+.-+.|+
T Consensus        85 ~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   85 LSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             --HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            3445556666677777777777777776542 345666667777777777777777777777766664

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

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

Probab=95.15  E-value=0.049  Score=27.49  Aligned_cols=23  Identities=4%  Similarity=0.105  Sum_probs=12.7

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHH
Q 048737           32 YETFLITLIRGKQVDEALKFLRV   54 (274)
Q Consensus        32 ~~~li~~~~~~~~~~~a~~~~~~   54 (274)
                      |..|...|.+.|++++|+++|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            44555555566666666655555

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=95.08  E-value=0.81  Score=32.52  Aligned_cols=100  Identities=16%  Similarity=0.267  Sum_probs=44.3

Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHC-
Q 048737          122 RFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILEN-  200 (274)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  200 (274)
                      ++++.+.+.+++|+...+..++..+.+.|++..    +..++..++-+|.......+-.+..  ....+.++--.|.++ 
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkRL   88 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKRL   88 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHHh
Confidence            334444445555555566666666666555433    3333444444554444433322221  112222222222221 


Q ss_pred             CCCccHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 048737          201 GILPLEASANVLLVGLRNLGRLSDVRRFAEEM  232 (274)
Q Consensus       201 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  232 (274)
                      +     ..+..++..+...|++-+|.++.+..
T Consensus        89 ~-----~~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   89 G-----TAYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             h-----hhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence            1     13334445555556666665555543

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

Probab=95.08  E-value=0.059  Score=27.19  Aligned_cols=23  Identities=13%  Similarity=0.401  Sum_probs=12.5

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHH
Q 048737          104 YNAVVGLLCNNNDVDNVFRFFDQ  126 (274)
Q Consensus       104 ~~~l~~~~~~~~~~~~a~~~~~~  126 (274)
                      |+.|..+|.+.|++++|+++|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            44555555555555555555555

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.04  E-value=1.2  Score=34.50  Aligned_cols=51  Identities=12%  Similarity=0.063  Sum_probs=26.5

Q ss_pred             HhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHH
Q 048737           75 VKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMV  128 (274)
Q Consensus        75 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  128 (274)
                      ...|++..|...|.......   +-+...--.+..+|...|+.+.|..++..+.
T Consensus       145 ~~~e~~~~a~~~~~~al~~~---~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP  195 (304)
T COG3118         145 IEAEDFGEAAPLLKQALQAA---PENSEAKLLLAECLLAAGDVEAAQAILAALP  195 (304)
T ss_pred             hhccchhhHHHHHHHHHHhC---cccchHHHHHHHHHHHcCChHHHHHHHHhCc
Confidence            34455555555555555543   3334444455555555555555555555543

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.97  E-value=1.1  Score=33.33  Aligned_cols=33  Identities=15%  Similarity=0.195  Sum_probs=15.8

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhc
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKG   57 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~   57 (274)
                      .|+-+..||-|.-.+...|+++.|.+.|+...+
T Consensus        95 ~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~E  127 (297)
T COG4785          95 RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLE  127 (297)
T ss_pred             CCCcHHHHHHHHHHHHhcccchHHHHHhhhHhc
Confidence            444444444444444444555555554444444

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=94.97  E-value=1.9  Score=36.29  Aligned_cols=180  Identities=9%  Similarity=0.040  Sum_probs=116.8

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhH
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMY  104 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  104 (274)
                      .|-|-....+++..+.++..+.-+..+..+|...|  -+...|..++.+|... ..+.-..+|+++.+..   -.|++.-
T Consensus        62 ~~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~d---fnDvv~~  135 (711)
T COG1747          62 QLLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYD---FNDVVIG  135 (711)
T ss_pred             ccccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhc---chhHHHH
Confidence            44455567778888888888888888888888754  5677888888888777 6677888888888865   2345555


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhcCCCCC------hhhHHHHHHHHHhcCCHhHHHHHHHHHHhC-CCCCCcchHHHH
Q 048737          105 NAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD------SLTYNMIFECLIKNKKVHEVENFFHEMIKN-EWQPTPLNCATA  177 (274)
Q Consensus       105 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l  177 (274)
                      ..|..-|-+ ++.+.+..+|.+...+= -|.      ...|..+...  -..+.+....+..++... |...-...+.-+
T Consensus       136 ReLa~~yEk-ik~sk~a~~f~Ka~yrf-I~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv  211 (711)
T COG1747         136 RELADKYEK-IKKSKAAEFFGKALYRF-IPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDV  211 (711)
T ss_pred             HHHHHHHHH-hchhhHHHHHHHHHHHh-cchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHH
Confidence            555555555 78888888888776552 221      1244444432  124556666666665543 333344555566


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHH
Q 048737          178 ITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVG  215 (274)
Q Consensus       178 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  215 (274)
                      -.-|....++++|.+++..+.+.+- .|...-..++.-
T Consensus       212 ~~~Ys~~eN~~eai~Ilk~il~~d~-k~~~ar~~~i~~  248 (711)
T COG1747         212 YKKYSENENWTEAIRILKHILEHDE-KDVWARKEIIEN  248 (711)
T ss_pred             HHHhccccCHHHHHHHHHHHhhhcc-hhhhHHHHHHHH
Confidence            6777788888888888887766542 344444444443

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.97  E-value=0.83  Score=32.09  Aligned_cols=113  Identities=17%  Similarity=0.179  Sum_probs=59.8

Q ss_pred             HHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHH-HHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHh
Q 048737           35 FLITLIRGKQVDEALKFLRVMKGENCFPTLKFF-SNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCN  113 (274)
Q Consensus        35 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  113 (274)
                      ++..-.+.++.+++..++.-+.-  +.|..... ..-...+...|++.+|..+|+.+....    |.......|+..|..
T Consensus        16 ~~~~al~~~~~~D~e~lL~ALrv--LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~----~~~p~~kALlA~CL~   89 (160)
T PF09613_consen   16 VLSVALRLGDPDDAEALLDALRV--LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA----PGFPYAKALLALCLY   89 (160)
T ss_pred             HHHHHHccCChHHHHHHHHHHHH--hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC----CCChHHHHHHHHHHH
Confidence            34445667788888888887765  34443222 222344567888888888888887654    333334444444333


Q ss_pred             c-CChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHH
Q 048737          114 N-NDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVEN  157 (274)
Q Consensus       114 ~-~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  157 (274)
                      . |+.+ =...-+++.+.+..|+..   .++..+....+...|..
T Consensus        90 ~~~D~~-Wr~~A~evle~~~d~~a~---~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   90 ALGDPS-WRRYADEVLESGADPDAR---ALVRALLARADLEPAHE  130 (160)
T ss_pred             HcCChH-HHHHHHHHHhcCCChHHH---HHHHHHHHhccccchhh
Confidence            3 3332 233344455554333332   23444444444444433

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.86  E-value=2.4  Score=36.85  Aligned_cols=182  Identities=13%  Similarity=0.136  Sum_probs=111.7

Q ss_pred             chHHHHHHHHHHHhccCCCCchHhHHHHHHHH-----HhccCcHHHHHHHHHHHhc-------CCCCCCHHHHHHHHHHH
Q 048737            7 NVVEANKTFGEMVERFEWNPEHVLAYETFLIT-----LIRGKQVDEALKFLRVMKG-------ENCFPTLKFFSNALDIL   74 (274)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~-----~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~   74 (274)
                      +...|.+.++..... |    +..+-..+...     +....+.+.|+.+|+.+.+       .|   ++.....+..+|
T Consensus       227 ~~~~a~~~~~~~a~~-g----~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y  298 (552)
T KOG1550|consen  227 ELSEAFKYYREAAKL-G----HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLY  298 (552)
T ss_pred             hhhHHHHHHHHHHhh-c----chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHH
Confidence            356788888877765 3    33333333332     3466889999999998876       44   333556677777


Q ss_pred             HhCC-----ChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHh-cCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHH-
Q 048737           75 VKLN-----DSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCN-NNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLI-  147 (274)
Q Consensus        75 ~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-  147 (274)
                      .+..     +.+.|..+|....+.|   .|+....-..+..... ..+...|.++|...-+.|.. ...-+..++.... 
T Consensus       299 ~~g~~~~~~d~~~A~~~~~~aA~~g---~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~  374 (552)
T KOG1550|consen  299 LQGLGVEKIDYEKALKLYTKAAELG---NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGL  374 (552)
T ss_pred             hcCCCCccccHHHHHHHHHHHHhcC---CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCC
Confidence            6643     5677999999999988   5555444333333333 35678999999999887742 2222222222221 


Q ss_pred             -hcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 048737          148 -KNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGI  202 (274)
Q Consensus       148 -~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  202 (274)
                       -..+...|..++.+..+.| .|...--...+..+.. +.++.+.-.+..+.+.|.
T Consensus       375 gv~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~  428 (552)
T KOG1550|consen  375 GVERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGY  428 (552)
T ss_pred             CcCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhh
Confidence             2347888999999988887 3433333333444444 677777666666665553

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.85  E-value=0.83  Score=35.79  Aligned_cols=103  Identities=9%  Similarity=0.105  Sum_probs=67.3

Q ss_pred             cCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcC---CCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcch
Q 048737           97 LMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHG---AFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLN  173 (274)
Q Consensus        97 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  173 (274)
                      .+....+...++..-....++++++..+-++..+-   ..|+. +-..+++-| -.-++++++.++..=+.-|+-||..+
T Consensus        60 ~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irll-lky~pq~~i~~l~npIqYGiF~dqf~  137 (418)
T KOG4570|consen   60 LPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQFT  137 (418)
T ss_pred             CCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHH-HccChHHHHHHHhCcchhccccchhh
Confidence            34455566666666666777888888877776541   11121 112223322 33456777777777777788888888


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 048737          174 CATAITMLLDADEPEFAIEIWNYILENG  201 (274)
Q Consensus       174 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~  201 (274)
                      +..+|+.+.+.+++..|..+.-.|....
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            8888888888888888887777766543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.83  E-value=0.036  Score=27.62  Aligned_cols=24  Identities=25%  Similarity=0.351  Sum_probs=13.9

Q ss_pred             CccHHhHHHHHHHHHhcCChhhHH
Q 048737           98 MPNLIMYNAVVGLLCNNNDVDNVF  121 (274)
Q Consensus        98 ~~~~~~~~~l~~~~~~~~~~~~a~  121 (274)
                      |-+...|+.+...|...|++++|+
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            445555666666666666665554

>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=94.79  E-value=0.98  Score=32.09  Aligned_cols=135  Identities=14%  Similarity=0.238  Sum_probs=70.3

Q ss_pred             HHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHH
Q 048737           49 LKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMV  128 (274)
Q Consensus        49 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  128 (274)
                      .++++.+.+.+++|++..+..++..+.+.|++..-.++    +..+  +-+|.......+-.+.  +....+.++--+|.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~ql----lq~~--Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDML   85 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQL----LQYH--VIPDSKPLACQLLSLG--NQYPPAYQLGLDML   85 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH----Hhhc--ccCCcHHHHHHHHHhH--ccChHHHHHHHHHH
Confidence            34555555667777777777777777777765444333    3333  3344333332222222  22333444444444


Q ss_pred             hcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048737          129 FHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILE  199 (274)
Q Consensus       129 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  199 (274)
                      ++    =...+..++..+...|++-+|.++.+....    .+......++.+..+.+|...--.+++...+
T Consensus        86 kR----L~~~~~~iievLL~~g~vl~ALr~ar~~~~----~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   86 KR----LGTAYEEIIEVLLSKGQVLEALRYARQYHK----VDSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             HH----hhhhHHHHHHHHHhCCCHHHHHHHHHHcCC----cccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            32    111455566677777777777777765422    1222334566666666666555555555444

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.77  E-value=1.3  Score=33.46  Aligned_cols=195  Identities=14%  Similarity=0.116  Sum_probs=95.9

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHH------HHHHHHHHHHhCCChhhHHHHHHHHH----hcCCccC
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLK------FFSNALDILVKLNDSTHTVQLWDIMV----GIGFNLM   98 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~   98 (274)
                      ...|..-..+|-..+++++|...+.+..+. ...+..      .|...+-..-....+.++..++++..    +.|   .
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhAAKayEqaamLake~~klsEvvdl~eKAs~lY~E~G---s  106 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHAAKAYEQAAMLAKELSKLSEVVDLYEKASELYVECG---S  106 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhC---C
Confidence            345677777888889999998888776631 112222      23333333334444555555555543    233   3


Q ss_pred             ccHHhHHHHHHH--HHhcCChhhHHHHHHHHHhc---CC--CCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC----CC
Q 048737           99 PNLIMYNAVVGL--LCNNNDVDNVFRFFDQMVFH---GA--FPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN----EW  167 (274)
Q Consensus        99 ~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~---~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~  167 (274)
                      |+...-. |-++  ....-++++|+.+|++....   +-  .--...+..+-..+.+...+++|-..+.+-...    .-
T Consensus       107 pdtAAma-leKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~  185 (308)
T KOG1585|consen  107 PDTAAMA-LEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDA  185 (308)
T ss_pred             cchHHHH-HHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhh
Confidence            3322211 1111  22334556666666554321   00  001223444455555666666555444332211    11


Q ss_pred             CCCc-chHHHHHHHHHhcCChHHHHHHHHHHHHCC---CCccHHHHHHHHHHHHhcCCcchHHHHH
Q 048737          168 QPTP-LNCATAITMLLDADEPEFAIEIWNYILENG---ILPLEASANVLLVGLRNLGRLSDVRRFA  229 (274)
Q Consensus       168 ~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~a~~~~  229 (274)
                      -++. ..|...|-.+.-..++..|...++.--+.+   -.-+..+...|+.+| ..|+.+++..++
T Consensus       186 y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  186 YNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             cccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            1111 234455555666677888888877644321   123456677777766 456777666553

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.75  E-value=1.8  Score=38.58  Aligned_cols=143  Identities=16%  Similarity=0.131  Sum_probs=93.5

Q ss_pred             HHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhc
Q 048737           35 FLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNN  114 (274)
Q Consensus        35 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  114 (274)
                      -...+.+.|++++|...|-+.+.. +.|     ..++.-|.....+..-..+++.+.+.|   -.+...-+.|+.+|.+.
T Consensus       374 Ygd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~IknLt~YLe~L~~~g---la~~dhttlLLncYiKl  444 (933)
T KOG2114|consen  374 YGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQRIKNLTSYLEALHKKG---LANSDHTTLLLNCYIKL  444 (933)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHHHHHHHHHHHHHHHcc---cccchhHHHHHHHHHHh
Confidence            344556779999999988776643 333     335666677777778888899999988   34556667889999999


Q ss_pred             CChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHH
Q 048737          115 NDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIW  194 (274)
Q Consensus       115 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  194 (274)
                      ++.++-.++.+... .|..  ..-....+..|.+.+-.++|..+-.+...     +......+   +-..+++++|.+.+
T Consensus       445 kd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~il---le~~~ny~eAl~yi  513 (933)
T KOG2114|consen  445 KDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDIL---LEDLHNYEEALRYI  513 (933)
T ss_pred             cchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHH---HHHhcCHHHHHHHH
Confidence            99998888777654 2221  11234556666666666666655444322     22233333   33567888888777


Q ss_pred             HHH
Q 048737          195 NYI  197 (274)
Q Consensus       195 ~~~  197 (274)
                      ..+
T Consensus       514 ~sl  516 (933)
T KOG2114|consen  514 SSL  516 (933)
T ss_pred             hcC
Confidence            654

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=94.72  E-value=0.85  Score=31.53  Aligned_cols=52  Identities=13%  Similarity=0.251  Sum_probs=33.2

Q ss_pred             HhccCcHHHHHHHHHHHhcCCCCCC---HHHHHHHHHHHHhCCChhhHHHHHHHHHhcC
Q 048737           39 LIRGKQVDEALKFLRVMKGENCFPT---LKFFSNALDILVKLNDSTHTVQLWDIMVGIG   94 (274)
Q Consensus        39 ~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   94 (274)
                      -...++++++..++.-|.-  +.|+   ..++..  -.+...|++++|.++|+.+.+.+
T Consensus        20 aL~~~d~~D~e~lLdALrv--LrP~~~e~d~~dg--~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        20 ALRSADPYDAQAMLDALRV--LRPNLKELDMFDG--WLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             HHhcCCHHHHHHHHHHHHH--hCCCccccchhHH--HHHHHcCCHHHHHHHHHhhhccC
Confidence            3446777777777777764  3343   333333  34457788888888888887755

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.71  E-value=0.9  Score=31.25  Aligned_cols=77  Identities=5%  Similarity=-0.049  Sum_probs=48.5

Q ss_pred             HHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 048737           72 DILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK  148 (274)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (274)
                      ....+.|+++.|.+.|+.+...-.--+-...+--.++.+|.+.++++.|...++++.+..+.-.-.-|...+.+++.
T Consensus        18 ~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   18 QEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            33446788888888888887653101123445566777788888888888888888775433223455555555544

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=94.64  E-value=1.6  Score=33.87  Aligned_cols=137  Identities=9%  Similarity=0.150  Sum_probs=93.0

Q ss_pred             CChhhHHHHHHHHHh-cCCCCChhhHHHHHHHHHhcC--CHhHHHHHHHHHHhC-CCCCCcchHHHHHHHHHhcCChHHH
Q 048737          115 NDVDNVFRFFDQMVF-HGAFPDSLTYNMIFECLIKNK--KVHEVENFFHEMIKN-EWQPTPLNCATAITMLLDADEPEFA  190 (274)
Q Consensus       115 ~~~~~a~~~~~~~~~-~~~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a  190 (274)
                      ....+|+.+|+.... ..+--|..+...+++......  ....-.++.+-+... +-.++..+...++..+++.+++.+-
T Consensus       142 ~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl  221 (292)
T PF13929_consen  142 KIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKL  221 (292)
T ss_pred             HHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHH
Confidence            345677777773322 224457788888888776622  223333444444433 4578888899999999999999999


Q ss_pred             HHHHHHHHHC-CCCccHHHHHHHHHHHHhcCCcchHHHHHHH-----HHhCCCccCHHHHHHHHHHH
Q 048737          191 IEIWNYILEN-GILPLEASANVLLVGLRNLGRLSDVRRFAEE-----MLNRRILIYDVTMQKLKKAF  251 (274)
Q Consensus       191 ~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-----m~~~~~~~~~~~~~~l~~~~  251 (274)
                      .++|...... +..-|...|..++......|+..-...+..+     +.+.++..+...-..+-..+
T Consensus       222 ~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  222 FQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             HHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH
Confidence            9999887765 6667888999999999999998766666554     23445666655544444333

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.53  E-value=0.81  Score=35.84  Aligned_cols=131  Identities=11%  Similarity=0.125  Sum_probs=91.1

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHh----------cCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcC-CccCccHH
Q 048737           34 TFLITLIRGKQVDEALKFLRVMK----------GENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIG-FNLMPNLI  102 (274)
Q Consensus        34 ~li~~~~~~~~~~~a~~~~~~~~----------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~  102 (274)
                      .|.++|.....|+.-....-.+-          ..|.+....+...++..-....+++.+...+-.+...- -...|+. 
T Consensus        24 ~LsS~fs~e~~w~~r~~~~~kla~~g~~~~kkF~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-  102 (418)
T KOG4570|consen   24 LLSSAFSDEHKWEAREKEHYKLADLGSLMDKKFERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-  102 (418)
T ss_pred             hhHHHhhhhhhhhHHHHHHHHHhcccccchhhhhcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-
Confidence            37788888888875544442322          23445555666677777777788999998887776531 0012221 


Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCC
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNE  166 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  166 (274)
                      +-.+.++.+. .-++++++.++..=..-|+-||..+++.+|..+.+.+++.+|.++.-.|....
T Consensus       103 ~~~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  103 TIHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             cHHHHHHHHH-ccChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            1122233333 35688999999999999999999999999999999999999999888776553

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.27  E-value=1.8  Score=32.80  Aligned_cols=82  Identities=5%  Similarity=-0.088  Sum_probs=48.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHC----CCCccH-HHHHHHHHHHHhcCCcchHHHHHHHHHhC---CCccCHHHHH
Q 048737          174 CATAITMLLDADEPEFAIEIWNYILEN----GILPLE-ASANVLLVGLRNLGRLSDVRRFAEEMLNR---RILIYDVTMQ  245 (274)
Q Consensus       174 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~~~~  245 (274)
                      +...-+.+.+...+++|-..+.+-...    .--|+. ..|-..|-.|....++..|...++.-...   .-.-+..+..
T Consensus       153 ~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~le  232 (308)
T KOG1585|consen  153 YGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLE  232 (308)
T ss_pred             HHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHH
Confidence            344455566666777665555433211    111221 33555566677778999999999884433   2334567788


Q ss_pred             HHHHHHHhcC
Q 048737          246 KLKKAFYNES  255 (274)
Q Consensus       246 ~l~~~~~~~g  255 (274)
                      .|+.+|-...
T Consensus       233 nLL~ayd~gD  242 (308)
T KOG1585|consen  233 NLLTAYDEGD  242 (308)
T ss_pred             HHHHHhccCC
Confidence            8888885543

>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=93.98  E-value=1.3  Score=30.07  Aligned_cols=66  Identities=12%  Similarity=0.130  Sum_probs=43.3

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCc
Q 048737          172 LNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRIL  238 (274)
Q Consensus       172 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  238 (274)
                      ..+...+......|.-+.-.+++..+.+.+ .+++...-.+..+|.+.|+..++-+++.+..+.|++
T Consensus        87 e~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   87 EYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            344555666777788888888887776533 466677777888888888888888888888888764

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>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=93.93  E-value=0.86  Score=33.30  Aligned_cols=82  Identities=12%  Similarity=0.060  Sum_probs=60.9

Q ss_pred             HhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCcc-CccHHhHHHHHHHHHhcCCh
Q 048737           39 LIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNL-MPNLIMYNAVVGLLCNNNDV  117 (274)
Q Consensus        39 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  117 (274)
                      +.....-+.|.+.|-.+...+.--++.....|...| ...+.+++.+++.+..+....- .+|+..+..|+..|.+.+++
T Consensus       116 ~Wsr~~d~~A~~~fL~~E~~~~l~t~elq~aLAtyY-~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  116 HWSRFGDQEALRRFLQLEGTPELETAELQYALATYY-TKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             HhhccCcHHHHHHHHHHcCCCCCCCHHHHHHHHHHH-HccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            344434567888888888877555555555555544 5788999999998888653223 78999999999999999999


Q ss_pred             hhHH
Q 048737          118 DNVF  121 (274)
Q Consensus       118 ~~a~  121 (274)
                      +.|-
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            8874

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=93.86  E-value=0.69  Score=29.27  Aligned_cols=45  Identities=22%  Similarity=0.256  Sum_probs=27.6

Q ss_pred             HHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHH
Q 048737           47 EALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMV   91 (274)
Q Consensus        47 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   91 (274)
                      ++.+-++.+...++.|++....+.+++|-+.+++..|.++++-.+
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            444555555555566666666666666666666666666666555

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.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.83  E-value=1.4  Score=37.80  Aligned_cols=98  Identities=8%  Similarity=-0.033  Sum_probs=51.5

Q ss_pred             HhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhH
Q 048737           75 VKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHE  154 (274)
Q Consensus        75 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  154 (274)
                      .+.|+++.|.++..+.        .+..-|..|.++....+++..|.+.|.+..+         |..|+-.+...|+-+.
T Consensus       648 l~lgrl~iA~~la~e~--------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~  710 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEA--------NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEG  710 (794)
T ss_pred             hhcCcHHHHHHHHHhh--------cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhH
Confidence            3555666555544332        2345566666666666666666666655443         3445555555565554


Q ss_pred             HHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHH
Q 048737          155 VENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWN  195 (274)
Q Consensus       155 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  195 (274)
                      ...+-....+.|.      .|...-+|...|+++++.+++.
T Consensus       711 l~~la~~~~~~g~------~N~AF~~~~l~g~~~~C~~lLi  745 (794)
T KOG0276|consen  711 LAVLASLAKKQGK------NNLAFLAYFLSGDYEECLELLI  745 (794)
T ss_pred             HHHHHHHHHhhcc------cchHHHHHHHcCCHHHHHHHHH
Confidence            4444444444441      1222334445566666666553

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.79  E-value=4.2  Score=35.40  Aligned_cols=184  Identities=11%  Similarity=0.042  Sum_probs=114.6

Q ss_pred             HHHHHHHHHHHhcCCCCCCHHHHHHHH--HH-HHhCCChhhHHHHHHHHHh-------cCCccCccHHhHHHHHHHHHhc
Q 048737           45 VDEALKFLRVMKGENCFPTLKFFSNAL--DI-LVKLNDSTHTVQLWDIMVG-------IGFNLMPNLIMYNAVVGLLCNN  114 (274)
Q Consensus        45 ~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~~~l~~~~~~~  114 (274)
                      ...|.++++.....|.. .......++  .+ +....+.+.|..+++.+.+       .|     +.....-+..+|.+.
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 LSEAFKYYREAAKLGHS-EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG-----LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhcch-HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc-----CCccccHHHHHHhcC
Confidence            46788888888776622 122222222  22 4466799999999999877       44     333566667777764


Q ss_pred             C-----ChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh-cCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHH--hcCC
Q 048737          115 N-----DVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK-NKKVHEVENFFHEMIKNEWQPTPLNCATAITMLL--DADE  186 (274)
Q Consensus       115 ~-----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~  186 (274)
                      .     +.+.|..++.+.-+.|. |+....-..+.-... ..+...|.++|......|. +....+..++....  -..+
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~-~~A~~~la~~y~~G~gv~r~  379 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGH-ILAIYRLALCYELGLGVERN  379 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCC-hHHHHHHHHHHHhCCCcCCC
Confidence            3     66779999999888764 454443333332222 2467899999999998883 33333333332222  3347


Q ss_pred             hHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCc
Q 048737          187 PEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRIL  238 (274)
Q Consensus       187 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  238 (274)
                      ...|..++.+.-+.|. |....-...+..+.. ++++.+.-.+..+.+.|..
T Consensus       380 ~~~A~~~~k~aA~~g~-~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~  429 (552)
T KOG1550|consen  380 LELAFAYYKKAAEKGN-PSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYE  429 (552)
T ss_pred             HHHHHHHHHHHHHccC-hhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhh
Confidence            8889999999988883 433333333344444 7788877777777766543

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=93.73  E-value=0.68  Score=29.30  Aligned_cols=45  Identities=16%  Similarity=0.197  Sum_probs=26.5

Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMV  128 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  128 (274)
                      ++.+-++.+...+  +.|++.+..+.+++|.|.+|+..|.++|+-.+
T Consensus        25 e~rr~mN~l~~~D--lVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYD--LVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccc--cCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            4445555555555  56666666666666666666666666666554

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.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.63  E-value=1.9  Score=30.85  Aligned_cols=138  Identities=13%  Similarity=0.074  Sum_probs=69.6

Q ss_pred             HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcc-hHHHH-
Q 048737          101 LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD-SLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPL-NCATA-  177 (274)
Q Consensus       101 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l-  177 (274)
                      ...|..-++ ..+.+..++|+.-|..+.+.|...= +..--.+.......|+...|...|++.-...-.|-.. -...| 
T Consensus        59 gd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlr  137 (221)
T COG4649          59 GDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLR  137 (221)
T ss_pred             hHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHH
Confidence            334444443 3345666777777777766543211 1111122233455667777777777765543223221 11112 


Q ss_pred             -HHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCcc
Q 048737          178 -ITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILI  239 (274)
Q Consensus       178 -~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  239 (274)
                       ...+...|.++....-.+-+...+-+.-...-..|--+-.+.|++.+|.+.|..+.+....|
T Consensus       138 aa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         138 AAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence             12234566666666655555443332223334445555567777777777777776543333

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

Probab=93.59  E-value=0.22  Score=24.46  Aligned_cols=26  Identities=8%  Similarity=0.266  Sum_probs=10.8

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHh
Q 048737          104 YNAVVGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus       104 ~~~l~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                      |..+..+|...|++++|+..|++.++
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            33444444444444444444444433

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 ....

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=93.43  E-value=0.82  Score=33.86  Aligned_cols=77  Identities=8%  Similarity=0.058  Sum_probs=43.7

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHH
Q 048737           33 ETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGL  110 (274)
Q Consensus        33 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~  110 (274)
                      +..++.+.+.++..+++...++-.+.. +.|..+-..++..++-.|++++|..-++-.-....+..+...+|..++.+
T Consensus         5 ~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           5 RDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            334555666666777776666655542 34445555666677777777777666555554332233445556555553

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.41  E-value=3.5  Score=33.28  Aligned_cols=65  Identities=12%  Similarity=0.017  Sum_probs=46.0

Q ss_pred             CcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCc---cHHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          170 TPLNCATAITMLLDADEPEFAIEIWNYILENGILP---LEASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       170 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      ...++..+.+.+.+.|.++.|...+.++...+..+   .+...-..+..+-..|+.++|+..+++..+
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34567788888888888888888888877643111   234444556666777888888888887776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=93.38  E-value=2.2  Score=31.31  Aligned_cols=78  Identities=8%  Similarity=0.049  Sum_probs=59.7

Q ss_pred             HhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc---CCCCChhhHHHHHHHHHhcCC
Q 048737           75 VKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH---GAFPDSLTYNMIFECLIKNKK  151 (274)
Q Consensus        75 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~~~  151 (274)
                      .+.|+ +.|.+.|-++...+  .-.++.....|...|. ..+.+++..++.+..+.   +-.+|+..+..|+..+.+.|+
T Consensus       118 sr~~d-~~A~~~fL~~E~~~--~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~  193 (203)
T PF11207_consen  118 SRFGD-QEALRRFLQLEGTP--ELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKN  193 (203)
T ss_pred             hccCc-HHHHHHHHHHcCCC--CCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcc
Confidence            34344 68889998898887  4455666666665555 68899999999887653   336789999999999999999


Q ss_pred             HhHHH
Q 048737          152 VHEVE  156 (274)
Q Consensus       152 ~~~a~  156 (274)
                      ++.|.
T Consensus       194 ~e~AY  198 (203)
T PF11207_consen  194 YEQAY  198 (203)
T ss_pred             hhhhh
Confidence            98874

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=93.36  E-value=0.76  Score=29.41  Aligned_cols=46  Identities=20%  Similarity=0.190  Sum_probs=23.2

Q ss_pred             HHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhc
Q 048737           48 ALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGI   93 (274)
Q Consensus        48 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   93 (274)
                      ..+-++.+...++.|++....+.+++|.+.+++..|.++++-++..
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   29 LRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            4444455555555555555555556665555665555555555543

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 ....

>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=93.34  E-value=1.2  Score=31.86  Aligned_cols=109  Identities=14%  Similarity=0.104  Sum_probs=55.2

Q ss_pred             hHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhcc---Cc-------HHHHHHHHHHHhcCCCCCC-HHHHHHHHHHHHh
Q 048737            8 VVEANKTFGEMVERFEWNPEHVLAYETFLITLIRG---KQ-------VDEALKFLRVMKGENCFPT-LKFFSNALDILVK   76 (274)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~---~~-------~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~   76 (274)
                      ++.|.+.++.-..+   +|.|+..++.-..++...   .+       +++|+.-|++.+.  +.|+ ..++..+..++..
T Consensus         7 FE~ark~aea~y~~---nP~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~--I~P~~hdAlw~lGnA~ts   81 (186)
T PF06552_consen    7 FEHARKKAEAAYAK---NPLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALK--INPNKHDALWCLGNAYTS   81 (186)
T ss_dssp             HHHHHHHHHHHHHH----TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh---CcHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHH
Confidence            45666666665444   677777666555544333   33       3344444444444  4455 3566666666554


Q ss_pred             CC-----------ChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcC
Q 048737           77 LN-----------DSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHG  131 (274)
Q Consensus        77 ~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  131 (274)
                      .+           .+++|...|++...    ..|+..+|+.-+....      +|-++..++.+.+
T Consensus        82 ~A~l~~d~~~A~~~F~kA~~~FqkAv~----~~P~ne~Y~ksLe~~~------kap~lh~e~~~~~  137 (186)
T PF06552_consen   82 LAFLTPDTAEAEEYFEKATEYFQKAVD----EDPNNELYRKSLEMAA------KAPELHMEIHKQG  137 (186)
T ss_dssp             HHHH---HHHHHHHHHHHHHHHHHHHH----H-TT-HHHHHHHHHHH------THHHHHHHHHHSS
T ss_pred             HHhhcCChHHHHHHHHHHHHHHHHHHh----cCCCcHHHHHHHHHHH------hhHHHHHHHHHHH
Confidence            32           24455555555555    3477777776666542      3455555554443

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.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=93.32  E-value=5.1  Score=34.96  Aligned_cols=211  Identities=15%  Similarity=0.059  Sum_probs=113.0

Q ss_pred             HHHHHhccCc--HHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHH-----H
Q 048737           35 FLITLIRGKQ--VDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNA-----V  107 (274)
Q Consensus        35 li~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-----l  107 (274)
                      .=.+|.+-.+  +-+.+.-+++++++|-.|+...   +...|+-.|.+.+|-++|.+--..+    .-...|+-     +
T Consensus       604 ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~en----RAlEmyTDlRMFD~  676 (1081)
T KOG1538|consen  604 ARKAYIRVRDLRYLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRSGHEN----RALEMYTDLRMFDY  676 (1081)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHcCchh----hHHHHHHHHHHHHH
Confidence            3345544433  4455556677788887787654   4455666788888888875432111    01111111     1


Q ss_pred             HHHHHhcCChhhHHHHHHHHHh--cCCCCChhhHHHHHHHHHhcCCHhHHHHHHH------HHHhCCC---CCCcchHHH
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVF--HGAFPDSLTYNMIFECLIKNKKVHEVENFFH------EMIKNEW---QPTPLNCAT  176 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~------~~~~~~~---~~~~~~~~~  176 (274)
                      ..-|...|+.++-..+.++-.+  ..++-.    .+....+...|+.++|..+.-      .+.+-+.   ..+..+...
T Consensus       677 aQE~~~~g~~~eKKmL~RKRA~WAr~~keP----kaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~  752 (1081)
T KOG1538|consen  677 AQEFLGSGDPKEKKMLIRKRADWARNIKEP----KAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLL  752 (1081)
T ss_pred             HHHHhhcCChHHHHHHHHHHHHHhhhcCCc----HHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHH
Confidence            2223333333333222222110  001101    122334455666666655432      1122121   223445555


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCH-----------HHHH
Q 048737          177 AITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYD-----------VTMQ  245 (274)
Q Consensus       177 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~-----------~~~~  245 (274)
                      +...+.+...+.-|.++|.+|-+.         ..++......+++++|+.+-+...+.  .||.           .-|.
T Consensus       753 ~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFe  821 (1081)
T KOG1538|consen  753 CATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFE  821 (1081)
T ss_pred             HHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHH
Confidence            666666778888899999877542         24677788899999999998876653  2221           2344


Q ss_pred             HHHHHHHhcChh--HHHHHHHHHH
Q 048737          246 KLKKAFYNESRS--MRDRFDSLER  267 (274)
Q Consensus       246 ~l~~~~~~~g~~--a~~~~~~~~~  267 (274)
                      -.-++|.+.|+.  |..+++++-.
T Consensus       822 EAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  822 EAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             HHHHHHHHhcchHHHHHHHHHhhh
Confidence            455678888877  7777766543

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

Probab=93.30  E-value=0.2  Score=24.63  Aligned_cols=27  Identities=19%  Similarity=0.188  Sum_probs=14.2

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhc
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKG   57 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~   57 (274)
                      +|..+...+...|++++|+..|++.++
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            445555555555555555555555544

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 ....

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.21  E-value=0.052  Score=37.58  Aligned_cols=82  Identities=11%  Similarity=0.194  Sum_probs=43.4

Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCh
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEP  187 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  187 (274)
                      +..+.+.+.++....+++.+...+...+....+.++..|++.++.++..++++.       .+..-...+++.|.+.|.+
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~~~~c~~~~l~   86 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKALRLCEKHGLY   86 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHHHHHHHTTTSH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHHHHHHHhcchH
Confidence            445555566666666666666554444566666666666666655555555541       1112223455555555555


Q ss_pred             HHHHHHHHH
Q 048737          188 EFAIEIWNY  196 (274)
Q Consensus       188 ~~a~~~~~~  196 (274)
                      +.+..++.+
T Consensus        87 ~~a~~Ly~~   95 (143)
T PF00637_consen   87 EEAVYLYSK   95 (143)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHHH
Confidence            555555544

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.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=93.18  E-value=0.5  Score=37.45  Aligned_cols=87  Identities=11%  Similarity=0.116  Sum_probs=41.6

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|++++|++.|..-..   +.|.|++.+..-..+|.+...+..|..=.+.....+ ..-...|..-+.+--..|...
T Consensus       107 yFKQgKy~EAIDCYs~~ia---~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~~  182 (536)
T KOG4648|consen  107 YFKQGKYEEAIDCYSTAIA---VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNNM  182 (536)
T ss_pred             hhhccchhHHHHHhhhhhc---cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhHH
Confidence            4555666666666655432   255555555555666666665555554444443321 011222333333333344455


Q ss_pred             hHHHHHHHHHh
Q 048737           82 HTVQLWDIMVG   92 (274)
Q Consensus        82 ~a~~~~~~~~~   92 (274)
                      +|.+=++..++
T Consensus       183 EAKkD~E~vL~  193 (536)
T KOG4648|consen  183 EAKKDCETVLA  193 (536)
T ss_pred             HHHHhHHHHHh
Confidence            55555555544

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=92.94  E-value=3.6  Score=32.17  Aligned_cols=166  Identities=15%  Similarity=0.144  Sum_probs=101.6

Q ss_pred             HhccCcHHHHHHHHHHHhcCCCCCCHHHHHHH-------HHHHHhCC-ChhhHHHHHHHHHhc----C--CccCcc----
Q 048737           39 LIRGKQVDEALKFLRVMKGENCFPTLKFFSNA-------LDILVKLN-DSTHTVQLWDIMVGI----G--FNLMPN----  100 (274)
Q Consensus        39 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~-~~~~a~~~~~~~~~~----~--~~~~~~----  100 (274)
                      ..+.|+.+.|..++.+........++.....|       .....+.+ +++.|...+++..+.    +  ....|+    
T Consensus         3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            35789999999999988763212222222222       22333556 888888887776543    1  002233    


Q ss_pred             -HHhHHHHHHHHHhcCChh---hHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHH
Q 048737          101 -LIMYNAVVGLLCNNNDVD---NVFRFFDQMVFHGAFPD-SLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCA  175 (274)
Q Consensus       101 -~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  175 (274)
                       ..+...++.+|...+..+   +|.++++.+....  |+ ...+..-+..+.+.++.+.+.+.+.+|+..- ......+.
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~--~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~  159 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEY--GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFD  159 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHH
Confidence             346777888888877654   4566666665442  34 5566667777777899999999999999762 22344555


Q ss_pred             HHHHHHHh--cCChHHHHHHHHHHHHCCCCccHH
Q 048737          176 TAITMLLD--ADEPEFAIEIWNYILENGILPLEA  207 (274)
Q Consensus       176 ~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~  207 (274)
                      .++..+..  ......|...+..+....+.|...
T Consensus       160 ~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~  193 (278)
T PF08631_consen  160 SILHHIKQLAEKSPELAAFCLDYLLLNRFKSSED  193 (278)
T ss_pred             HHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCChh
Confidence            55555522  233455666676666554445543

It is also involved in sporulation [].

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=92.90  E-value=1.6  Score=27.99  Aligned_cols=60  Identities=15%  Similarity=0.160  Sum_probs=31.8

Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFE  144 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  144 (274)
                      +..+-++.+...+  +.|++.+..+.+++|.|.+++..|.++|+-.+.. +.+....|..+++
T Consensus        28 e~rrglN~l~~~D--lVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYD--LVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSS--B---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccc--cCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHH
Confidence            4455555555555  6666666777777777777777777777666543 2222224554444

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 ....

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=92.64  E-value=3.6  Score=34.45  Aligned_cols=117  Identities=10%  Similarity=0.138  Sum_probs=72.4

Q ss_pred             cchHHH-HHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHH
Q 048737            6 GNVVEA-NKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTV   84 (274)
Q Consensus         6 g~~~~a-~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   84 (274)
                      |++-.| .++|+-++.. .-.|   ..-......+...|.++.+...+...... +.....+...+++...+.|+++.|.
T Consensus       303 gd~~aas~~~~~~lr~~-~~~p---~~i~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~  377 (831)
T PRK15180        303 GDIIAASQQLFAALRNQ-QQDP---VLIQLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREAL  377 (831)
T ss_pred             cCHHHHHHHHHHHHHhC-CCCc---hhhHHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHH
Confidence            444433 4455555442 3344   22233334456678888888877665542 3455667788888888888888888


Q ss_pred             HHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737           85 QLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      .+-.-|....   -.+..+........-..|-++++.-.|+++...
T Consensus       378 s~a~~~l~~e---ie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~  420 (831)
T PRK15180        378 STAEMMLSNE---IEDEEVLTVAAGSADALQLFDKSYHYWKRVLLL  420 (831)
T ss_pred             HHHHHHhccc---cCChhheeeecccHHHHhHHHHHHHHHHHHhcc
Confidence            8888777654   233444444444444556778888888887654

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

Probab=92.54  E-value=0.38  Score=23.42  Aligned_cols=24  Identities=4%  Similarity=0.195  Sum_probs=9.9

Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHH
Q 048737          105 NAVVGLLCNNNDVDNVFRFFDQMV  128 (274)
Q Consensus       105 ~~l~~~~~~~~~~~~a~~~~~~~~  128 (274)
                      ..+..++.+.|++++|++.|++..
T Consensus         5 ~~lg~~~~~~~~~~~A~~~~~~al   28 (34)
T PF07719_consen    5 YYLGQAYYQLGNYEEAIEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHH
Confidence            333444444444444444444443

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 ....

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

Probab=92.49  E-value=0.3  Score=23.83  Aligned_cols=27  Identities=11%  Similarity=0.101  Sum_probs=14.3

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhc
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKG   57 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~   57 (274)
                      .|..+...+...|++++|++.|++..+
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            344555555555555555555555544

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 ....

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=92.32  E-value=4.4  Score=31.59  Aligned_cols=120  Identities=13%  Similarity=0.164  Sum_probs=82.4

Q ss_pred             cCccHHhHHHHHHHHHhcCC--hhhHHHHHHHHH-hcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC-CCCCCcc
Q 048737           97 LMPNLIMYNAVVGLLCNNND--VDNVFRFFDQMV-FHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN-EWQPTPL  172 (274)
Q Consensus        97 ~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~-~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~  172 (274)
                      +-.|..+...+++......+  ...--++.+-+. ..|-.++..+...++..++..++|.+-.++++..... +...|..
T Consensus       160 Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~r  239 (292)
T PF13929_consen  160 IIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPR  239 (292)
T ss_pred             eeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCc
Confidence            44567777778877766222  222223333333 2245678889999999999999999999999988766 5567889


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHH-----HHHCCCCccHHHHHHHHHHH
Q 048737          173 NCATAITMLLDADEPEFAIEIWNY-----ILENGILPLEASANVLLVGL  216 (274)
Q Consensus       173 ~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~~~~~~~~~~~~l~~~~  216 (274)
                      .|..+|+...+.|+..-...+..+     ++..++..+...-..+-..+
T Consensus       240 pW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  240 PWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             hHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH
Confidence            999999999999998877776654     22334555554444444333

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=92.22  E-value=2.9  Score=30.74  Aligned_cols=87  Identities=11%  Similarity=0.060  Sum_probs=43.4

Q ss_pred             HHhCCChhhHHHHHHHHHhcCCccCcc-----HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 048737           74 LVKLNDSTHTVQLWDIMVGIGFNLMPN-----LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK  148 (274)
Q Consensus        74 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (274)
                      +.+.|++++|..-|..++..-   ++.     ...|..-..++.+.+.++.|+.--.+..+.+.. .......-..+|.+
T Consensus       105 ~F~ngdyeeA~skY~~Ale~c---p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek  180 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALESC---PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEK  180 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHhC---ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHh
Confidence            335556666666665555542   221     223444444555556666665555555554321 12233333445555


Q ss_pred             cCCHhHHHHHHHHHHh
Q 048737          149 NKKVHEVENFFHEMIK  164 (274)
Q Consensus       149 ~~~~~~a~~~~~~~~~  164 (274)
                      ...+++|+.=|.++.+
T Consensus       181 ~ek~eealeDyKki~E  196 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILE  196 (271)
T ss_pred             hhhHHHHHHHHHHHHH
Confidence            5566666666666555

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=92.17  E-value=2.7  Score=32.44  Aligned_cols=89  Identities=10%  Similarity=0.008  Sum_probs=62.1

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHh
Q 048737           34 TFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCN  113 (274)
Q Consensus        34 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  113 (274)
                      .=|++++..++|.+++...-+.-+..-+..+.....-|-.|.+.+++..+.++-....+.-  -..+..-|..++..|..
T Consensus        88 vGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p--~Nq~lp~y~~vaELyLl  165 (309)
T PF07163_consen   88 VGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDP--SNQSLPEYGTVAELYLL  165 (309)
T ss_pred             hhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCc--ccCCchhhHHHHHHHHH
Confidence            3478888999999998887666553333334555666777889999988888887777643  12234447777766655


Q ss_pred             -----cCChhhHHHHH
Q 048737          114 -----NNDVDNVFRFF  124 (274)
Q Consensus       114 -----~~~~~~a~~~~  124 (274)
                           .|.+++|+++.
T Consensus       166 ~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  166 HVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHhccccHHHHHHHH
Confidence                 58888888887

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

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.12  E-value=0.36  Score=24.82  Aligned_cols=27  Identities=19%  Similarity=0.140  Sum_probs=16.1

Q ss_pred             hHHHHHHHHHhccCcHHHHHHHHHHHh
Q 048737           30 LAYETFLITLIRGKQVDEALKFLRVMK   56 (274)
Q Consensus        30 ~~~~~li~~~~~~~~~~~a~~~~~~~~   56 (274)
                      .+++.|...|...|++++|..++++..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            355666666666666666666666554

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=92.12  E-value=6.4  Score=33.08  Aligned_cols=123  Identities=12%  Similarity=0.012  Sum_probs=80.9

Q ss_pred             HHhCCChhhHHH-HHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH
Q 048737           74 LVKLNDSTHTVQ-LWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKV  152 (274)
Q Consensus        74 ~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  152 (274)
                      -...|++-.|-+ ++..+....  -.|+..  ......+...|+++.+...+...... +.....+..++++..-..|++
T Consensus       299 ~~~~gd~~aas~~~~~~lr~~~--~~p~~i--~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~  373 (831)
T PRK15180        299 QLADGDIIAASQQLFAALRNQQ--QDPVLI--QLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARW  373 (831)
T ss_pred             HhhccCHHHHHHHHHHHHHhCC--CCchhh--HHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhH
Confidence            345566666554 444444322  234433  33344567789999999888776543 344667888899999999999


Q ss_pred             hHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 048737          153 HEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGI  202 (274)
Q Consensus       153 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  202 (274)
                      ++|...-.-|....+. ++.......-..-..|-++++...|+++...+.
T Consensus       374 ~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~  422 (831)
T PRK15180        374 REALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLNP  422 (831)
T ss_pred             HHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccCC
Confidence            9999999888877653 222333333333456788999999988876553

>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=92.09  E-value=3.1  Score=29.32  Aligned_cols=117  Identities=15%  Similarity=0.144  Sum_probs=60.7

Q ss_pred             HhHHHHHHH---HHhcCChhhHHHHHHHHHhcCCCCChhhHHH-HHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHH
Q 048737          102 IMYNAVVGL---LCNNNDVDNVFRFFDQMVFHGAFPDSLTYNM-IFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATA  177 (274)
Q Consensus       102 ~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  177 (274)
                      .+.+.|+..   -.+.++.+++..+++.+.-.  +|....... -...+...|+|.+|..+|+.+.+..  |....-..|
T Consensus         8 ~iv~gLie~~~~al~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kAL   83 (160)
T PF09613_consen    8 EIVGGLIEVLSVALRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPYAKAL   83 (160)
T ss_pred             HHHHHHHHHHHHHHccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChHHHHH
Confidence            344444443   34567888888888887763  455333322 2234567788888888888876543  333333444


Q ss_pred             HHHHHhc-CChHHHHHH-HHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHH
Q 048737          178 ITMLLDA-DEPEFAIEI-WNYILENGILPLEASANVLLVGLRNLGRLSDVRR  227 (274)
Q Consensus       178 ~~~~~~~-~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  227 (274)
                      +..|... |+.  .++. -+++.+.+..|+.   ..++..+....+...|..
T Consensus        84 lA~CL~~~~D~--~Wr~~A~evle~~~d~~a---~~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   84 LALCLYALGDP--SWRRYADEVLESGADPDA---RALVRALLARADLEPAHE  130 (160)
T ss_pred             HHHHHHHcCCh--HHHHHHHHHHhcCCChHH---HHHHHHHHHhccccchhh
Confidence            4444332 232  2222 2334444433332   334555555555544443

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=91.95  E-value=4.1  Score=30.41  Aligned_cols=182  Identities=9%  Similarity=-0.007  Sum_probs=95.2

Q ss_pred             CcHHHHHHHHHHHhcCCCCCC-HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHH
Q 048737           43 KQVDEALKFLRVMKGENCFPT-LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVF  121 (274)
Q Consensus        43 ~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  121 (274)
                      |-+..|.-=|.+...  +.|+ +..||-|.--+...|+++.|.+.|+...+.+  ..-+-...|.-|. +.-.|++.-|.
T Consensus        79 GL~~LAR~DftQaLa--i~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELD--p~y~Ya~lNRgi~-~YY~gR~~LAq  153 (297)
T COG4785          79 GLRALARNDFSQALA--IRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD--PTYNYAHLNRGIA-LYYGGRYKLAQ  153 (297)
T ss_pred             hHHHHHhhhhhhhhh--cCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccC--CcchHHHhcccee-eeecCchHhhH
Confidence            444444444444443  4454 5677777777778888888888888888765  1222222333222 33357788777


Q ss_pred             HHHHHHHhcCC-CCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 048737          122 RFFDQMVFHGA-FPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILEN  200 (274)
Q Consensus       122 ~~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  200 (274)
                      +-+.+.-+.+. .|=...|--+..   +.-++.+|..-+.+--+   ..|..-|...|-.|. .|.+. ...+++++...
T Consensus       154 ~d~~~fYQ~D~~DPfR~LWLYl~E---~k~dP~~A~tnL~qR~~---~~d~e~WG~~iV~~y-LgkiS-~e~l~~~~~a~  225 (297)
T COG4785         154 DDLLAFYQDDPNDPFRSLWLYLNE---QKLDPKQAKTNLKQRAE---KSDKEQWGWNIVEFY-LGKIS-EETLMERLKAD  225 (297)
T ss_pred             HHHHHHHhcCCCChHHHHHHHHHH---hhCCHHHHHHHHHHHHH---hccHhhhhHHHHHHH-Hhhcc-HHHHHHHHHhh
Confidence            77666655421 111223332222   33455555443322211   233333433332221 12211 12233333321


Q ss_pred             CC------CccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCC
Q 048737          201 GI------LPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRI  237 (274)
Q Consensus       201 ~~------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  237 (274)
                      .-      ..-..+|--+.+-+...|+.++|..+|+-.+..++
T Consensus       226 a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         226 ATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             ccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence            10      11136777788888999999999999998877654

>PRK09687 putative lyase; Provisional

Probab=91.81  E-value=5.2  Score=31.37  Aligned_cols=215  Identities=10%  Similarity=-0.019  Sum_probs=96.8

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCh----hhHHHHHHHHHhcCCccCccHHh
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDS----THTVQLWDIMVGIGFNLMPNLIM  103 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~~  103 (274)
                      |.......+..+...|.. ++...+..+...   +|+..=...+.++...|+.    +.+...+..+...    .++..+
T Consensus        36 d~~vR~~A~~aL~~~~~~-~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~----D~d~~V  107 (280)
T PRK09687         36 NSLKRISSIRVLQLRGGQ-DVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE----DKSACV  107 (280)
T ss_pred             CHHHHHHHHHHHHhcCcc-hHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc----CCCHHH
Confidence            444555566666655543 333334444332   3444444455555555543    3455555544332    244444


Q ss_pred             HHHHHHHHHhcCCh-----hhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHH
Q 048737          104 YNAVVGLLCNNNDV-----DNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAI  178 (274)
Q Consensus       104 ~~~l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  178 (274)
                      -...+.++...+..     ..+...+.....   .++..+=...+.++.+.++ ..+...+-.+.+   .+|...-...+
T Consensus       108 R~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~---d~~~~VR~~A~  180 (280)
T PRK09687        108 RASAINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVIND-EAAIPLLINLLK---DPNGDVRNWAA  180 (280)
T ss_pred             HHHHHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhc---CCCHHHHHHHH
Confidence            44444444443321     123333333322   1344444455555555554 344444444444   23444444444


Q ss_pred             HHHHhcC-ChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh
Q 048737          179 TMLLDAD-EPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS  257 (274)
Q Consensus       179 ~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~  257 (274)
                      .++++.+ +...+...+..+..   .++..+-...+.++.+.|+ ..+...+-+..+.+.     .....+.++...|..
T Consensus       181 ~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~~-----~~~~a~~ALg~ig~~  251 (280)
T PRK09687        181 FALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKD-KRVLSVLIKELKKGT-----VGDLIIEAAGELGDK  251 (280)
T ss_pred             HHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCC-hhHHHHHHHHHcCCc-----hHHHHHHHHHhcCCH
Confidence            4444432 12334444444442   2344455555666666655 334444444443321     123455555555554


Q ss_pred             -HHHHHHHHH
Q 048737          258 -MRDRFDSLE  266 (274)
Q Consensus       258 -a~~~~~~~~  266 (274)
                       |...+..+.
T Consensus       252 ~a~p~L~~l~  261 (280)
T PRK09687        252 TLLPVLDTLL  261 (280)
T ss_pred             hHHHHHHHHH
Confidence             444444443

>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]

Probab=91.79  E-value=5.5  Score=31.60  Aligned_cols=16  Identities=6%  Similarity=0.023  Sum_probs=8.8

Q ss_pred             ChhhHHHHHHHHHhcC
Q 048737           79 DSTHTVQLWDIMVGIG   94 (274)
Q Consensus        79 ~~~~a~~~~~~~~~~~   94 (274)
                      +.+....++..+...+
T Consensus        37 ~~~~~e~l~~~Ird~~   52 (393)
T KOG0687|consen   37 KAAAREKLLAAIRDED   52 (393)
T ss_pred             CHHHHHHHHHHHHhcc
Confidence            4445555566665555

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=91.74  E-value=0.51  Score=24.22  Aligned_cols=25  Identities=4%  Similarity=0.201  Sum_probs=12.0

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHH
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQM  127 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~  127 (274)
                      +++.|...|...|++++|..++++.
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~a   28 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEA   28 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHH
Confidence            4444555555555555555555444

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.63  E-value=9.3  Score=33.93  Aligned_cols=109  Identities=14%  Similarity=0.134  Sum_probs=75.0

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHH
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLL  182 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  182 (274)
                      +.+--+.-+...|+-.+|.++-.++.    -||...|-.=+.++...++|++-+++-..+.      ++.-|.-++.+|.
T Consensus       686 Sl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~  755 (829)
T KOG2280|consen  686 SLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACL  755 (829)
T ss_pred             cHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHH
Confidence            44444555666788888888877775    3788888888888888888877655544332      2556777888888


Q ss_pred             hcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHH
Q 048737          183 DADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAE  230 (274)
Q Consensus       183 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  230 (274)
                      +.|+.++|...+.+...         +.-.+.+|.+.|++.+|.++--
T Consensus       756 ~~~n~~EA~KYiprv~~---------l~ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  756 KQGNKDEAKKYIPRVGG---------LQEKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             hcccHHHHhhhhhccCC---------hHHHHHHHHHhccHHHHHHHHH
Confidence            88888888877654321         1146777888888888776543

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=91.58  E-value=0.099  Score=36.16  Aligned_cols=53  Identities=9%  Similarity=0.189  Sum_probs=23.4

Q ss_pred             HHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHH
Q 048737           71 LDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFD  125 (274)
Q Consensus        71 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  125 (274)
                      +..+.+.+.++....+++.+...+  ...+....+.++..|++.++.++..++++
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~--~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKEN--KENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTS--TC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcc--cccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            334444444444444555554433  22334444555555555544444444444

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.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.95  E-value=11  Score=33.51  Aligned_cols=64  Identities=16%  Similarity=0.089  Sum_probs=37.4

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCC----CHHHHHHHHHHHHhCCChhhHHHHHHHHHh
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGENCFP----TLKFFSNALDILVKLNDSTHTVQLWDIMVG   92 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   92 (274)
                      ..+|..+++.....|+.+.|..+++.=...+...    +..-+...+.-+.+.|+.+-...++-.+..
T Consensus       507 ~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~  574 (829)
T KOG2280|consen  507 GISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKN  574 (829)
T ss_pred             ceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHH
Confidence            4577888888888888888888876433322110    112233445555666666666655555443

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.88  E-value=4.9  Score=29.35  Aligned_cols=89  Identities=12%  Similarity=0.162  Sum_probs=54.8

Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCChhhH-----HHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHH
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTY-----NMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLL  182 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-----~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  182 (274)
                      ...+..++++++|..-++.....   |....+     -.|.+.....|.+++|+..++.....+.  .......-.+.+.
T Consensus        96 Ak~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill  170 (207)
T COG2976          96 AKAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILL  170 (207)
T ss_pred             HHHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHH
Confidence            35577777777777777766643   222222     2344556667777777777776655432  2223344456677


Q ss_pred             hcCChHHHHHHHHHHHHCC
Q 048737          183 DADEPEFAIEIWNYILENG  201 (274)
Q Consensus       183 ~~~~~~~a~~~~~~~~~~~  201 (274)
                      ..|+-++|+.-|.+....+
T Consensus       171 ~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         171 AKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HcCchHHHHHHHHHHHHcc
Confidence            7777777777777777664

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=90.77  E-value=8.8  Score=32.05  Aligned_cols=141  Identities=13%  Similarity=0.104  Sum_probs=88.3

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCc---hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHH--HHhC
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPE---HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDI--LVKL   77 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~   77 (274)
                      .+.+++++|.++|.++-++..-.|.   ....-+.++++|... +.+.....+....+.  .| ...|-.+..+  +.+.
T Consensus        17 qkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y~~   92 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAYKQ   92 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHHHh
Confidence            4678999999999999775221120   012234566666544 466666666666553  23 3334444443  4578


Q ss_pred             CChhhHHHHHHHHHhc--CCccC-----------ccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCC----CCChhhHH
Q 048737           78 NDSTHTVQLWDIMVGI--GFNLM-----------PNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGA----FPDSLTYN  140 (274)
Q Consensus        78 ~~~~~a~~~~~~~~~~--~~~~~-----------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~  140 (274)
                      +++.+|.+.+......  +. .+           +|...=++.++++...|++.+++.+++++...=.    .-+..+|+
T Consensus        93 k~~~kal~~ls~w~~~~~~~-~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd  171 (549)
T PF07079_consen   93 KEYRKALQALSVWKEQIKGT-ESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYD  171 (549)
T ss_pred             hhHHHHHHHHHHHHhhhccc-ccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHH
Confidence            8999998887766654  21 11           2333446778889999999999999998865422    24778888


Q ss_pred             HHHHHHHh
Q 048737          141 MIFECLIK  148 (274)
Q Consensus       141 ~li~~~~~  148 (274)
                      .++-.+++
T Consensus       172 ~~vlmlsr  179 (549)
T PF07079_consen  172 RAVLMLSR  179 (549)
T ss_pred             HHHHHHhH
Confidence            75555444

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PHA02875 ankyrin repeat protein; Provisional

Probab=90.65  E-value=5.2  Score=33.28  Aligned_cols=202  Identities=11%  Similarity=0.100  Sum_probs=95.5

Q ss_pred             HHHHHHHHhccCCCCchHhH--HHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHH--HHHHHHHHHHhCCChhhHHHHH
Q 048737           12 NKTFGEMVERFEWNPEHVLA--YETFLITLIRGKQVDEALKFLRVMKGENCFPTLK--FFSNALDILVKLNDSTHTVQLW   87 (274)
Q Consensus        12 ~~~~~~~~~~~~~~p~~~~~--~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~   87 (274)
                      .++++.+.+. |..| +...  ..+.+...+..|+.+-    .+.+.+.|..|+..  .....+...+..|+.+.+..++
T Consensus        15 ~~iv~~Ll~~-g~~~-n~~~~~g~tpL~~A~~~~~~~~----v~~Ll~~ga~~~~~~~~~~t~L~~A~~~g~~~~v~~Ll   88 (413)
T PHA02875         15 LDIARRLLDI-GINP-NFEIYDGISPIKLAMKFRDSEA----IKLLMKHGAIPDVKYPDIESELHDAVEEGDVKAVEELL   88 (413)
T ss_pred             HHHHHHHHHC-CCCC-CccCCCCCCHHHHHHHcCCHHH----HHHHHhCCCCccccCCCcccHHHHHHHCCCHHHHHHHH
Confidence            3456666664 7776 3321  2334455566677653    33444555544422  1123455556777776655544


Q ss_pred             HHHHhcCCccCccH---HhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhH--HHHHHHHHhcCCHhHHHHHHHHH
Q 048737           88 DIMVGIGFNLMPNL---IMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTY--NMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus        88 ~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      +    .|  ...+.   ..-.+.+...+..|+.    ++++.+.+.|..|+....  .+.+...+..|+.+-+..    +
T Consensus        89 ~----~~--~~~~~~~~~~g~tpL~~A~~~~~~----~iv~~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~~v~~----L  154 (413)
T PHA02875         89 D----LG--KFADDVFYKDGMTPLHLATILKKL----DIMKLLIARGADPDIPNTDKFSPLHLAVMMGDIKGIEL----L  154 (413)
T ss_pred             H----cC--CcccccccCCCCCHHHHHHHhCCH----HHHHHHHhCCCCCCCCCCCCCCHHHHHHHcCCHHHHHH----H
Confidence            3    33  11110   0112233344455554    344455555655543221  223344456676654433    3


Q ss_pred             HhCCCCCCc---chHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHH---HHHHHHHHHhcCCcchHHHHHHHHHhCC
Q 048737          163 IKNEWQPTP---LNCATAITMLLDADEPEFAIEIWNYILENGILPLEAS---ANVLLVGLRNLGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       163 ~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~a~~~~~~m~~~~  236 (274)
                      .+.|..++.   .-. +.+...+..|+.+-+    +.+.+.|..|+...   ..+.+...+..|+.    ++.+-+.+.|
T Consensus       155 l~~g~~~~~~d~~g~-TpL~~A~~~g~~eiv----~~Ll~~ga~~n~~~~~~~~t~l~~A~~~~~~----~iv~~Ll~~g  225 (413)
T PHA02875        155 IDHKACLDIEDCCGC-TPLIIAMAKGDIAIC----KMLLDSGANIDYFGKNGCVAALCYAIENNKI----DIVRLFIKRG  225 (413)
T ss_pred             HhcCCCCCCCCCCCC-CHHHHHHHcCCHHHH----HHHHhCCCCCCcCCCCCCchHHHHHHHcCCH----HHHHHHHHCC
Confidence            444443332   222 233444556665543    34455665554322   12344434455554    3556666777


Q ss_pred             CccCHH
Q 048737          237 ILIYDV  242 (274)
Q Consensus       237 ~~~~~~  242 (274)
                      ..++..
T Consensus       226 ad~n~~  231 (413)
T PHA02875        226 ADCNIM  231 (413)
T ss_pred             cCcchH
Confidence            777653

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=90.51  E-value=0.78  Score=24.38  Aligned_cols=24  Identities=25%  Similarity=0.447  Sum_probs=11.8

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHhC
Q 048737          212 LLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       212 l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      +..+|...|+.+.|.+++++....
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Confidence            344455555555555555554433

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.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.30  E-value=4.5  Score=34.90  Aligned_cols=101  Identities=8%  Similarity=0.060  Sum_probs=71.0

Q ss_pred             HHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCCh
Q 048737           38 TLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDV  117 (274)
Q Consensus        38 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  117 (274)
                      ...+.|+++.|.++..+..      +..-|..|.++..+.+++..|.+.|.+....           ..|+-.+...|+-
T Consensus       646 lal~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d~-----------~~LlLl~t~~g~~  708 (794)
T KOG0276|consen  646 LALKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARDL-----------GSLLLLYTSSGNA  708 (794)
T ss_pred             hhhhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcch-----------hhhhhhhhhcCCh
Confidence            4467788888888776543      4667888999999999999998888776543           3456667777777


Q ss_pred             hhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHH
Q 048737          118 DNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHE  161 (274)
Q Consensus       118 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (274)
                      +....+-....+.|.      .|...-+|...|+++++.+++..
T Consensus       709 ~~l~~la~~~~~~g~------~N~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  709 EGLAVLASLAKKQGK------NNLAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             hHHHHHHHHHHhhcc------cchHHHHHHHcCCHHHHHHHHHh
Confidence            766666666666653      23334466677888888777644

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=90.17  E-value=5.7  Score=28.99  Aligned_cols=220  Identities=13%  Similarity=0.040  Sum_probs=154.2

Q ss_pred             cCcHHHHHHHHHHHhcCCCC-CCHHHHHHHHHHHHhCCChhhHHHHHHHHHhc-CCccCccHHhHHHHHHHHHhcCChhh
Q 048737           42 GKQVDEALKFLRVMKGENCF-PTLKFFSNALDILVKLNDSTHTVQLWDIMVGI-GFNLMPNLIMYNAVVGLLCNNNDVDN  119 (274)
Q Consensus        42 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~  119 (274)
                      .+....+...+......... .....+......+...+.+..+...+...... .  .......+......+...++++.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~  113 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELEL--LPNLAEALLNLGLLLEALGKYEE  113 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhh--ccchHHHHHHHHHHHHHHhhHHH
Confidence            46667777777777664322 13577788888889999999999999888762 2  35667778888888889999999


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHH-HHHhcCCHhHHHHHHHHHHhCCCCC----CcchHHHHHHHHHhcCChHHHHHHH
Q 048737          120 VFRFFDQMVFHGAFPDSLTYNMIFE-CLIKNKKVHEVENFFHEMIKNEWQP----TPLNCATAITMLLDADEPEFAIEIW  194 (274)
Q Consensus       120 a~~~~~~~~~~~~~~~~~~~~~li~-~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~  194 (274)
                      +.+.+.........+ ......... .+...|+++.+...+.+....  .|    ....+......+...++.+.+...+
T Consensus       114 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  190 (291)
T COG0457         114 ALELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALEL--DPELNELAEALLALGALLEALGRYEEALELL  190 (291)
T ss_pred             HHHHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCccchHHHHHHhhhHHHHhcCHHHHHHHH
Confidence            999999988754333 222333333 788999999999999998652  33    2334444445567789999999999


Q ss_pred             HHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHH
Q 048737          195 NYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLER  267 (274)
Q Consensus       195 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~  267 (274)
                      ..............+..+...+...++++.+...+......... ....+..+...+...+..  +...+....+
T Consensus       191 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         191 EKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             HHHHhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99887543214677888888899999999999999998876322 234444444444444433  5555554443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=89.97  E-value=3.4  Score=33.02  Aligned_cols=93  Identities=9%  Similarity=0.045  Sum_probs=57.7

Q ss_pred             HHHHhccCcHHHHHHHHHHHhcCCCCC-CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhc
Q 048737           36 LITLIRGKQVDEALKFLRVMKGENCFP-TLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNN  114 (274)
Q Consensus        36 i~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  114 (274)
                      .+-|.+.|.+++|++.|......  .| ++.++..-..+|.+...+..|+.=-+.++..+   ..-.-.|+.-+.+-...
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd---~~Y~KAYSRR~~AR~~L  178 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD---KLYVKAYSRRMQARESL  178 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh---HHHHHHHHHHHHHHHHH
Confidence            34577788888888888776653  45 77777777888888887777766666665543   12223344444444444


Q ss_pred             CChhhHHHHHHHHHhcCCCCC
Q 048737          115 NDVDNVFRFFDQMVFHGAFPD  135 (274)
Q Consensus       115 ~~~~~a~~~~~~~~~~~~~~~  135 (274)
                      |...+|.+-++..+.  +.|+
T Consensus       179 g~~~EAKkD~E~vL~--LEP~  197 (536)
T KOG4648|consen  179 GNNMEAKKDCETVLA--LEPK  197 (536)
T ss_pred             hhHHHHHHhHHHHHh--hCcc
Confidence            555566655555555  3454

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=89.71  E-value=6.2  Score=29.49  Aligned_cols=76  Identities=9%  Similarity=-0.001  Sum_probs=47.3

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCC--CCCCcchHHHHHHH
Q 048737          104 YNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNE--WQPTPLNCATAITM  180 (274)
Q Consensus       104 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~  180 (274)
                      .+.-+..+.+.++.++|+...++-.+.. +.|..+-..+++.+|-.|+|++|..-++..-...  ..+-..+|..+|++
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            3444566677777888888777766653 2355666677788888888888877776655421  12223455555553

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=89.50  E-value=9.6  Score=30.59  Aligned_cols=139  Identities=12%  Similarity=0.166  Sum_probs=92.0

Q ss_pred             CCchHhHHHHHHHHHhcc------------CcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHh
Q 048737           25 NPEHVLAYETFLITLIRG------------KQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVG   92 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   92 (274)
                      .|.|+.+|-.++..--..            .-.+.-+.++++.++.+ +-+......++..+.+.-+.+...+-|+++..
T Consensus        15 ~P~di~~Wl~li~~Qd~~~~~~~~~~~~~~a~~E~klsilerAL~~n-p~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~   93 (321)
T PF08424_consen   15 NPHDIEAWLELIEFQDELFRLQSSSKAERRALAERKLSILERALKHN-PDSERLLLGYLEEGEKVWDSEKLAKKWEELLF   93 (321)
T ss_pred             CcccHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            788999999988653322            12456678888888773 45667777888888888888888899999988


Q ss_pred             cCCccCccHHhHHHHHHHHHh---cCChhhHHHHHHHHHhc------CC------CCC-----hhhHHHHHHHHHhcCCH
Q 048737           93 IGFNLMPNLIMYNAVVGLLCN---NNDVDNVFRFFDQMVFH------GA------FPD-----SLTYNMIFECLIKNKKV  152 (274)
Q Consensus        93 ~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~------~~------~~~-----~~~~~~li~~~~~~~~~  152 (274)
                      ..   +-+...|...++....   .-.++....+|.+....      +.      .++     ...+..+...+...|..
T Consensus        94 ~~---~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~fl~~aG~~  170 (321)
T PF08424_consen   94 KN---PGSPELWREYLDFRQSNFASFTVSDVRDVYEKCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRFLRQAGYT  170 (321)
T ss_pred             HC---CCChHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHCCch
Confidence            75   4567788887776554   23455666666554321      11      001     12233344445567888


Q ss_pred             hHHHHHHHHHHhCCC
Q 048737          153 HEVENFFHEMIKNEW  167 (274)
Q Consensus       153 ~~a~~~~~~~~~~~~  167 (274)
                      +.|..++..+.+.++
T Consensus       171 E~Ava~~Qa~lE~n~  185 (321)
T PF08424_consen  171 ERAVALWQALLEFNF  185 (321)
T ss_pred             HHHHHHHHHHHHHHc
Confidence            888888888887654

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=89.28  E-value=12  Score=31.34  Aligned_cols=206  Identities=12%  Similarity=0.149  Sum_probs=121.2

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHH-------HHHHHH-hCC---ChhhHHHHHHHHHhcCCc
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSN-------ALDILV-KLN---DSTHTVQLWDIMVGIGFN   96 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------l~~~~~-~~~---~~~~a~~~~~~~~~~~~~   96 (274)
                      -+.++..++....+.++..+|...+.-+..  +.|+...-.-       +-+..+ ...   +...-..+|+.....+  
T Consensus       297 li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~--ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~D--  372 (549)
T PF07079_consen  297 LIDRFGNLLSFKVKQVQTEEAKQYLALLKI--LDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYD--  372 (549)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHh--cCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhc--
Confidence            455777788888888888888888776654  2344332211       122222 111   2233345555555443  


Q ss_pred             cCccHHhHHHHH---HHHHhcCC-hhhHHHHHHHHHhcCCCC-ChhhHHHHH----HHHHh---cCCHhHHHHHHHHHHh
Q 048737           97 LMPNLIMYNAVV---GLLCNNND-VDNVFRFFDQMVFHGAFP-DSLTYNMIF----ECLIK---NKKVHEVENFFHEMIK  164 (274)
Q Consensus        97 ~~~~~~~~~~l~---~~~~~~~~-~~~a~~~~~~~~~~~~~~-~~~~~~~li----~~~~~---~~~~~~a~~~~~~~~~  164 (274)
                      +.. ......|+   .-+.+.|. -++|+++++...+-  .| |..+-|.+.    ..|.+   ...+..-..+-+-+.+
T Consensus       373 iDr-qQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~f--t~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e  449 (549)
T PF07079_consen  373 IDR-QQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQF--TNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITE  449 (549)
T ss_pred             ccH-HHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHh--ccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence            211 12222333   23555666 78899999988774  23 333333322    22322   1234444555555566


Q ss_pred             CCCCCCcch----HHHHHH--HHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCc
Q 048737          165 NEWQPTPLN----CATAIT--MLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRIL  238 (274)
Q Consensus       165 ~~~~~~~~~----~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  238 (274)
                      .|++|-...    -|.|.+  .+...|++.++.-.-..+.+  +.|++.+|..+--++....++++|+.++..+     +
T Consensus       450 ~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L-----P  522 (549)
T PF07079_consen  450 VGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKL-----P  522 (549)
T ss_pred             cCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC-----C
Confidence            787775433    333332  34567899888766555555  6789999999999999999999999999875     5


Q ss_pred             cCHHHHHHH
Q 048737          239 IYDVTMQKL  247 (274)
Q Consensus       239 ~~~~~~~~l  247 (274)
                      |+..++.+=
T Consensus       523 ~n~~~~dsk  531 (549)
T PF07079_consen  523 PNERMRDSK  531 (549)
T ss_pred             CchhhHHHH
Confidence            666666553

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=89.06  E-value=1.4  Score=21.41  Aligned_cols=27  Identities=11%  Similarity=0.297  Sum_probs=14.9

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHh
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                      +|..+...|...|++++|.+.|++..+
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            344555555555566666555555543

...

>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=88.68  E-value=5.9  Score=28.54  Aligned_cols=74  Identities=12%  Similarity=0.162  Sum_probs=35.1

Q ss_pred             hhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcC----C-------HhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcC
Q 048737          118 DNVFRFFDQMVFHGAFPD-SLTYNMIFECLIKNK----K-------VHEVENFFHEMIKNEWQPTPLNCATAITMLLDAD  185 (274)
Q Consensus       118 ~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~----~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  185 (274)
                      ++|++-|++.+.  +.|+ ..++..+..+|...+    +       +++|...|.+..+  ..|+..+|..-+....   
T Consensus        52 edAisK~eeAL~--I~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~--~~P~ne~Y~ksLe~~~---  124 (186)
T PF06552_consen   52 EDAISKFEEALK--INPNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVD--EDPNNELYRKSLEMAA---  124 (186)
T ss_dssp             HHHHHHHHHHHH--H-TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHh--cCCchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHh--cCCCcHHHHHHHHHHH---
Confidence            334444444444  3455 345555555554432    2       3344444444444  4577777777766653   


Q ss_pred             ChHHHHHHHHHHHHCC
Q 048737          186 EPEFAIEIWNYILENG  201 (274)
Q Consensus       186 ~~~~a~~~~~~~~~~~  201 (274)
                         +|-++..++.+.+
T Consensus       125 ---kap~lh~e~~~~~  137 (186)
T PF06552_consen  125 ---KAPELHMEIHKQG  137 (186)
T ss_dssp             ---THHHHHHHHHHSS
T ss_pred             ---hhHHHHHHHHHHH
Confidence               3555555555544

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.

>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=88.67  E-value=1.2  Score=21.58  Aligned_cols=27  Identities=19%  Similarity=0.151  Sum_probs=15.3

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhc
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKG   57 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~   57 (274)
                      +|..+...+...|++++|.+.|++..+
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            455555556666666666666655543

...

>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=88.60  E-value=0.73  Score=21.11  Aligned_cols=22  Identities=27%  Similarity=0.297  Sum_probs=13.1

Q ss_pred             HHHHHHHHhccCcHHHHHHHHH
Q 048737           32 YETFLITLIRGKQVDEALKFLR   53 (274)
Q Consensus        32 ~~~li~~~~~~~~~~~a~~~~~   53 (274)
                      ...+...+...|++++|..+++
T Consensus         4 ~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    4 RLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHh
Confidence            3445566666666666666554

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

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=88.54  E-value=6.5  Score=27.36  Aligned_cols=64  Identities=13%  Similarity=0.158  Sum_probs=36.5

Q ss_pred             HHhHHHHHHHH---HhcCChhhHHHHHHHHHhcCCCCChhhHH-HHHHHHHhcCCHhHHHHHHHHHHhCC
Q 048737          101 LIMYNAVVGLL---CNNNDVDNVFRFFDQMVFHGAFPDSLTYN-MIFECLIKNKKVHEVENFFHEMIKNE  166 (274)
Q Consensus       101 ~~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~li~~~~~~~~~~~a~~~~~~~~~~~  166 (274)
                      ..+.+.|++..   ...++.+++..+++.|.-.  .|+..-.. .-...+...|+|.+|..+|+...+.+
T Consensus         7 ~~iv~gLi~~~~~aL~~~d~~D~e~lLdALrvL--rP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561         7 NRLLGGLIEVLMYALRSADPYDAQAMLDALRVL--RPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            33444444432   3467777777777777653  44432221 12223467777888888887776653

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=88.51  E-value=12  Score=30.39  Aligned_cols=231  Identities=11%  Similarity=0.079  Sum_probs=137.3

Q ss_pred             HhccCcHHHHHHHHHHHhcC--CCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCcc---CccHHhHHHHHHHHHh
Q 048737           39 LIRGKQVDEALKFLRVMKGE--NCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNL---MPNLIMYNAVVGLLCN  113 (274)
Q Consensus        39 ~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~  113 (274)
                      +....+.++|+..+.+-..+  +....-.+|..+..+.++.|.++++...--.-++...+.   ..-...|..+.+++-+
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~   95 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK   95 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556666777666555432  111123456667777788888777664422211110001   1224566777777777


Q ss_pred             cCChhhHHHHHHHHHhc-CCCCC---hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCC---C--CcchHHHHHHHHHhc
Q 048737          114 NNDVDNVFRFFDQMVFH-GAFPD---SLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQ---P--TPLNCATAITMLLDA  184 (274)
Q Consensus       114 ~~~~~~a~~~~~~~~~~-~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~l~~~~~~~  184 (274)
                      ..++.+++.+-..-... |..|.   -....++..++...+.++++++.|+...+-...   |  ....+..|-..|...
T Consensus        96 l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l  175 (518)
T KOG1941|consen   96 LCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQL  175 (518)
T ss_pred             HHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHH
Confidence            77777777776654432 22231   133445667777778899999999887653211   1  235788999999999


Q ss_pred             CChHHHHHHHHHHHH----CCCCccH-----HHHHHHHHHHHhcCCcchHHHHHHHHHh----CCCcc-CHHHHHHHHHH
Q 048737          185 DEPEFAIEIWNYILE----NGILPLE-----ASANVLLVGLRNLGRLSDVRRFAEEMLN----RRILI-YDVTMQKLKKA  250 (274)
Q Consensus       185 ~~~~~a~~~~~~~~~----~~~~~~~-----~~~~~l~~~~~~~g~~~~a~~~~~~m~~----~~~~~-~~~~~~~l~~~  250 (274)
                      .|+++|.....+..+    .++..-.     .+.-.+.-++...|..-.|.+..++..+    .|-.| -......+.+.
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDI  255 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADI  255 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            999998877766544    2221111     1222344567788998888888887644    34333 23455667778


Q ss_pred             HHhcChh--HHHHHHHHHHHh
Q 048737          251 FYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       251 ~~~~g~~--a~~~~~~~~~~~  269 (274)
                      |...|+.  |..-++.+...+
T Consensus       256 yR~~gd~e~af~rYe~Am~~m  276 (518)
T KOG1941|consen  256 YRSRGDLERAFRRYEQAMGTM  276 (518)
T ss_pred             HHhcccHhHHHHHHHHHHHHH
Confidence            8888877  666666555443

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=88.39  E-value=0.93  Score=21.73  Aligned_cols=22  Identities=14%  Similarity=0.351  Sum_probs=10.6

Q ss_pred             HHHHHhcCChhhHHHHHHHHHh
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                      ..++.+.|++++|.+.|+++.+
T Consensus         7 a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    7 ARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHH
Confidence            3444444555555555554444

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.11  E-value=2.2  Score=22.68  Aligned_cols=24  Identities=17%  Similarity=0.212  Sum_probs=13.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHC
Q 048737          177 AITMLLDADEPEFAIEIWNYILEN  200 (274)
Q Consensus       177 l~~~~~~~~~~~~a~~~~~~~~~~  200 (274)
                      |..+|...|+.+.|..+++++...
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Confidence            445556666666666666665543

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.

>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]

Probab=88.09  E-value=11  Score=29.51  Aligned_cols=27  Identities=11%  Similarity=0.060  Sum_probs=15.3

Q ss_pred             hhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737          136 SLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus       136 ~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      ...+..+..-|++.++.+.+.+..++.
T Consensus       115 ~ea~~n~aeyY~qi~D~~ng~~~~~~~  141 (412)
T COG5187         115 SEADRNIAEYYCQIMDIQNGFEWMRRL  141 (412)
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            345555666666666666665555443

>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=88.04  E-value=2.2  Score=25.94  Aligned_cols=46  Identities=9%  Similarity=0.121  Sum_probs=22.1

Q ss_pred             hcCChhhHHHHHHHHHhcCCCCC--hhhHHHHHHHHHhcCCHhHHHHH
Q 048737          113 NNNDVDNVFRFFDQMVFHGAFPD--SLTYNMIFECLIKNKKVHEVENF  158 (274)
Q Consensus       113 ~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~  158 (274)
                      ..++-++|+..|...++.-..|.  -.++..++.+|+..|++.+++++
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            34445555555555544322211  13445555555555555555444

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

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.97  E-value=8.6  Score=28.14  Aligned_cols=134  Identities=7%  Similarity=0.063  Sum_probs=84.0

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHH--HHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHH
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFS--NALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNA  106 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  106 (274)
                      ...|..++.... .+.+ +.....+++....-.....++.  .+...+...++++.|+.-+++......+-.....+--.
T Consensus        54 S~~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lR  131 (207)
T COG2976          54 SAQYQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALR  131 (207)
T ss_pred             HHHHHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHH
Confidence            345666766654 3334 5556666666543122222222  23466788899999999999887542000111223334


Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCC
Q 048737          107 VVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNE  166 (274)
Q Consensus       107 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  166 (274)
                      |.+.....|.+|+|+.+++.....+.  .......-...+...|+-++|..-|...++.+
T Consensus       132 LArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         132 LARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            55667788999999999988765422  22334445567889999999999999988865

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=87.81  E-value=2.3  Score=24.59  Aligned_cols=47  Identities=11%  Similarity=0.203  Sum_probs=30.4

Q ss_pred             chHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhc
Q 048737            7 NVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKG   57 (274)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~   57 (274)
                      .++...++.+.++..   .. |-.-.-.+|.++...|++++|.++++++.+
T Consensus         5 ~~~~~~~~~~~lR~~---RH-D~~NhLqvI~gllqlg~~~~a~eYi~~~~~   51 (62)
T PF14689_consen    5 QLEELEELIDSLRAQ---RH-DFLNHLQVIYGLLQLGKYEEAKEYIKELSK   51 (62)
T ss_dssp             -HHHHHHHHHHHHHH---HH-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH---hH-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            455566666666553   33 444555678888888888888888877654

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=87.53  E-value=9.3  Score=29.71  Aligned_cols=91  Identities=10%  Similarity=-0.045  Sum_probs=59.9

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHh
Q 048737          104 YNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLD  183 (274)
Q Consensus       104 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  183 (274)
                      +-.=|.+++..++|.+++...-+--+.--+........-|-.|.+.+.+..+.++-+.-....-.-+...|.+++..|..
T Consensus        86 cvvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl  165 (309)
T PF07163_consen   86 CVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLL  165 (309)
T ss_pred             hhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHH
Confidence            34446888888999888776555433222223445555566778999998888888777664222334457777666654


Q ss_pred             -----cCChHHHHHHH
Q 048737          184 -----ADEPEFAIEIW  194 (274)
Q Consensus       184 -----~~~~~~a~~~~  194 (274)
                           .|.+++|+++.
T Consensus       166 ~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  166 HVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHhccccHHHHHHHH
Confidence                 58999998876

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

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.32  E-value=24  Score=32.52  Aligned_cols=39  Identities=15%  Similarity=0.159  Sum_probs=22.6

Q ss_pred             HHhcCCcchHHHHHHHHHh-------------CCCccCHHHHHHHHHHHHhc
Q 048737          216 LRNLGRLSDVRRFAEEMLN-------------RRILIYDVTMQKLKKAFYNE  254 (274)
Q Consensus       216 ~~~~g~~~~a~~~~~~m~~-------------~~~~~~~~~~~~l~~~~~~~  254 (274)
                      +.+.|+.++|+.++-....             ....++...|..+++.+...
T Consensus       694 l~rl~khe~aL~Iyv~~L~d~~~A~~Yc~~~y~~~~~~~~~y~~lL~~~l~~  745 (877)
T KOG2063|consen  694 LGRLGKHEEALHIYVHELDDIDAAESYCLPQYESDKTNKEIYLTLLRIYLNP  745 (877)
T ss_pred             HhhhhhHHHHHHHHHHHhcchhHHHHHHHHhccCCCcccHHHHHHHHHHhcc
Confidence            3466666666666555443             12334666777777776655

>PHA02875 ankyrin repeat protein; Provisional

Probab=87.23  E-value=15  Score=30.50  Aligned_cols=26  Identities=8%  Similarity=0.194  Sum_probs=11.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCcc
Q 048737          176 TAITMLLDADEPEFAIEIWNYILENGILPL  205 (274)
Q Consensus       176 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  205 (274)
                      +++...+..|+.+-+    +.+.+.|..++
T Consensus       204 t~l~~A~~~~~~~iv----~~Ll~~gad~n  229 (413)
T PHA02875        204 AALCYAIENNKIDIV----RLFIKRGADCN  229 (413)
T ss_pred             hHHHHHHHcCCHHHH----HHHHHCCcCcc
Confidence            344434445554432    33334555444

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=87.01  E-value=28  Score=32.97  Aligned_cols=174  Identities=14%  Similarity=0.094  Sum_probs=95.2

Q ss_pred             HHHHhccCcHHHHHHHHHHHhcC-----CCCCCH--HHHHHHHHHHHhCC--ChhhHHHHHH------HHHhcCCccCcc
Q 048737           36 LITLIRGKQVDEALKFLRVMKGE-----NCFPTL--KFFSNALDILVKLN--DSTHTVQLWD------IMVGIGFNLMPN  100 (274)
Q Consensus        36 i~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~--~~~~~l~~~~~~~~--~~~~a~~~~~------~~~~~~~~~~~~  100 (274)
                      +-+-..+.++.+=+-+++++...     .++.|.  .-|...+.-+..+|  -+++...+.+      .....   +.|+
T Consensus       858 ~VAq~SqkDPkEyLP~L~el~~m~~~~rkF~ID~~L~ry~~AL~hLs~~~~~~~~e~~n~I~kh~Ly~~aL~l---y~~~  934 (1265)
T KOG1920|consen  858 LVAQKSQKDPKEYLPFLNELKKMETLLRKFKIDDYLKRYEDALSHLSECGETYFPECKNYIKKHGLYDEALAL---YKPD  934 (1265)
T ss_pred             HHHHHhccChHHHHHHHHHHhhchhhhhheeHHHHHHHHHHHHHHHHHcCccccHHHHHHHHhcccchhhhhe---eccC
Confidence            33445567788888888777632     112221  12334444444444  3344433322      22222   2455


Q ss_pred             HHhHHHHH----HHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcc--hH
Q 048737          101 LIMYNAVV----GLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPL--NC  174 (274)
Q Consensus       101 ~~~~~~l~----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~  174 (274)
                      ...+....    +.+.....+++|--.|+..-+         ....+.+|...|+|.+|..+..++...   -+..  +-
T Consensus       935 ~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a 1002 (1265)
T KOG1920|consen  935 SEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEG---KDELVILA 1002 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCC---HHHHHHHH
Confidence            55544444    444556777777777765432         123566788888888888887766431   1221  12


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 048737          175 ATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEM  232 (274)
Q Consensus       175 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  232 (274)
                      ..|+.-+...+++-+|-++..+....   |     ...+..|++...+++|..+...-
T Consensus      1003 ~~L~s~L~e~~kh~eAa~il~e~~sd---~-----~~av~ll~ka~~~~eAlrva~~~ 1052 (1265)
T KOG1920|consen 1003 EELVSRLVEQRKHYEAAKILLEYLSD---P-----EEAVALLCKAKEWEEALRVASKA 1052 (1265)
T ss_pred             HHHHHHHHHcccchhHHHHHHHHhcC---H-----HHHHHHHhhHhHHHHHHHHHHhc
Confidence            45667777778887777776655432   1     22344556666777777665543

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=86.98  E-value=1.8  Score=33.86  Aligned_cols=45  Identities=16%  Similarity=0.140  Sum_probs=30.0

Q ss_pred             CCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHH
Q 048737           24 WNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFS   68 (274)
Q Consensus        24 ~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   68 (274)
                      +.|++...|+.-|....+.|++++|+.++++..+.|+.--..+|-
T Consensus       252 v~~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFi  296 (303)
T PRK10564        252 MLNDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFI  296 (303)
T ss_pred             cCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHH
Confidence            345455556677777777777777777777777777554444443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=86.64  E-value=15  Score=29.57  Aligned_cols=65  Identities=14%  Similarity=0.040  Sum_probs=42.4

Q ss_pred             ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCC---CcchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048737          135 DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQP---TPLNCATAITMLLDADEPEFAIEIWNYILE  199 (274)
Q Consensus       135 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  199 (274)
                      ...+|..+...+.+.|+++.|...+..+...+..+   ++.....-.+..-..|+..+|...++...+
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            45667777777888888888888887776543111   233444445556667777777777766665

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=86.59  E-value=2.1  Score=26.03  Aligned_cols=46  Identities=7%  Similarity=0.077  Sum_probs=28.0

Q ss_pred             ccCcHHHHHHHHHHHhcCCCCCC--HHHHHHHHHHHHhCCChhhHHHH
Q 048737           41 RGKQVDEALKFLRVMKGENCFPT--LKFFSNALDILVKLNDSTHTVQL   86 (274)
Q Consensus        41 ~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~   86 (274)
                      ..++.++|+..+....+.-..+.  -.++..|+.+++..|++.+++++
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            55667777777777666432222  23455666777777777666654

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

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=86.37  E-value=2.4  Score=20.03  Aligned_cols=29  Identities=21%  Similarity=0.407  Sum_probs=19.8

Q ss_pred             cchHHHHHHHHHHHhccCCCCchHhHHHHHHH
Q 048737            6 GNVVEANKTFGEMVERFEWNPEHVLAYETFLI   37 (274)
Q Consensus         6 g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~   37 (274)
                      |+.+.|..+|+++...   .|.++..|...+.
T Consensus         1 ~~~~~~r~i~e~~l~~---~~~~~~~W~~y~~   29 (33)
T smart00386        1 GDIERARKIYERALEK---FPKSVELWLKYAE   29 (33)
T ss_pred             CcHHHHHHHHHHHHHH---CCCChHHHHHHHH
Confidence            4677788888887766   4556667766554

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=85.56  E-value=16  Score=28.75  Aligned_cols=59  Identities=8%  Similarity=0.083  Sum_probs=36.0

Q ss_pred             hHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHH
Q 048737          138 TYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYI  197 (274)
Q Consensus       138 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  197 (274)
                      +++.....|..+|.+.+|.++.++.+... +.+...+-.|+..+...|+--.|..-++++
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyery  339 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERY  339 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHH
Confidence            34445566667777777777776666543 445566666777777777655555554444

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=85.45  E-value=9  Score=25.82  Aligned_cols=46  Identities=13%  Similarity=0.149  Sum_probs=28.6

Q ss_pred             HHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737           83 TVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      ..+-++.+...+  +.|++.+...-++++.+.+|+..|.++|+-.+..
T Consensus        68 vrkglN~l~~yD--lVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K  113 (149)
T KOG4077|consen   68 VRKGLNNLFDYD--LVPSPKVIEAALRACRRVNDFATAVRILEAIKDK  113 (149)
T ss_pred             HHHHHHhhhccc--cCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            444555555555  6666666666666666666666666666666543

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=84.23  E-value=12  Score=26.09  Aligned_cols=59  Identities=24%  Similarity=0.199  Sum_probs=24.5

Q ss_pred             HHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcC
Q 048737          161 EMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLG  220 (274)
Q Consensus       161 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  220 (274)
                      .+.+.|++++.. -..+++.+...++.-.|.++++.+.+.+...+..|.-.-+..+...|
T Consensus        11 ~lk~~glr~T~q-R~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~G   69 (145)
T COG0735          11 RLKEAGLRLTPQ-RLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAG   69 (145)
T ss_pred             HHHHcCCCcCHH-HHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCC
Confidence            334444443322 22344444444444445555555555444333333333333333333

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=84.20  E-value=16  Score=27.78  Aligned_cols=120  Identities=10%  Similarity=-0.035  Sum_probs=70.7

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHH-HHHHHHHHHhCCChh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKF-FSNALDILVKLNDST   81 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~   81 (274)
                      ....+++.|...|.+....   .|..+..|+.-+-.+.+..+|+.+..=-.+.++  +.|+..- .-.+.........++
T Consensus        21 f~~k~y~~ai~~y~raI~~---nP~~~~Y~tnralchlk~~~~~~v~~dcrralq--l~~N~vk~h~flg~~~l~s~~~~   95 (284)
T KOG4642|consen   21 FIPKRYDDAIDCYSRAICI---NPTVASYYTNRALCHLKLKHWEPVEEDCRRALQ--LDPNLVKAHYFLGQWLLQSKGYD   95 (284)
T ss_pred             cchhhhchHHHHHHHHHhc---CCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHh--cChHHHHHHHHHHHHHHhhcccc
Confidence            3445677777766666443   774456667777777777888777766666555  3455432 333445556667777


Q ss_pred             hHHHHHHHHHhcC--CccCccHHhHHHHHHHHHhcCChhhHHHHHHHH
Q 048737           82 HTVQLWDIMVGIG--FNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQM  127 (274)
Q Consensus        82 ~a~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  127 (274)
                      .|...+.+....+  .++++-...++.|..+--+.-...+..++.+..
T Consensus        96 eaI~~Lqra~sl~r~~~~~~~~di~~~L~~ak~~~w~v~e~~Ri~Q~~  143 (284)
T KOG4642|consen   96 EAIKVLQRAYSLLREQPFTFGDDIPKALRDAKKKRWEVSEEKRIRQEL  143 (284)
T ss_pred             HHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHhCccchhHHHHHHHHh
Confidence            7877777764322  113444556666666655544455555555443

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=83.43  E-value=9.3  Score=25.75  Aligned_cols=46  Identities=17%  Similarity=0.250  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048737          154 EVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILE  199 (274)
Q Consensus       154 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  199 (274)
                      +..+-+..+..-.+.|++.....-+++|-+.+|+..|.++|+-++.
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~  112 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKD  112 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3444444444445555555555555555555555555555555543

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=83.35  E-value=9.7  Score=24.51  Aligned_cols=49  Identities=14%  Similarity=0.270  Sum_probs=20.2

Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC
Q 048737          111 LCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                      +...|++++|..+.+.+    ..||...|-.+..  .+.|--++...-+.+|..+
T Consensus        49 LmNrG~Yq~Al~l~~~~----~~pdlepw~ALce--~rlGl~s~l~~rl~rla~s   97 (115)
T TIGR02508        49 LMNRGDYQSALQLGNKL----CYPDLEPWLALCE--WRLGLGSALESRLNRLAAS   97 (115)
T ss_pred             HHccchHHHHHHhcCCC----CCchHHHHHHHHH--HhhccHHHHHHHHHHHHhC
Confidence            44444454444444433    2344444444432  2333333333333344333

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=83.19  E-value=13  Score=25.83  Aligned_cols=93  Identities=12%  Similarity=0.070  Sum_probs=54.9

Q ss_pred             HHhcCCCCCh--hhHHHHHHHHHhcCCHhHHHHHHHHHHhCC-----CCCCcchHHHHHHHHHhcCC-hHHHHHHHHHHH
Q 048737          127 MVFHGAFPDS--LTYNMIFECLIKNKKVHEVENFFHEMIKNE-----WQPTPLNCATAITMLLDADE-PEFAIEIWNYIL  198 (274)
Q Consensus       127 ~~~~~~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~  198 (274)
                      |.+.+..++.  ...++++.-....+++.....+++.+....     -..+...|.+++.+.+...- ---+..+|..++
T Consensus        28 ~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk  107 (145)
T PF13762_consen   28 MQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLK  107 (145)
T ss_pred             hhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHH
Confidence            3433444443  334666666666667777777666663210     02345567777777755444 334566677777


Q ss_pred             HCCCCccHHHHHHHHHHHHhc
Q 048737          199 ENGILPLEASANVLLVGLRNL  219 (274)
Q Consensus       199 ~~~~~~~~~~~~~l~~~~~~~  219 (274)
                      +.+.+++..-|..++.++.+.
T Consensus       108 ~~~~~~t~~dy~~li~~~l~g  128 (145)
T PF13762_consen  108 KNDIEFTPSDYSCLIKAALRG  128 (145)
T ss_pred             HcCCCCCHHHHHHHHHHHHcC
Confidence            666777777777777766554

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=83.06  E-value=21  Score=28.07  Aligned_cols=126  Identities=13%  Similarity=0.106  Sum_probs=64.2

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhcCCCCChhhH-------HHHHHHHHhcCCHhHHHHHHHHHHh----CCCCCCcchHH
Q 048737          107 VVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTY-------NMIFECLIKNKKVHEVENFFHEMIK----NEWQPTPLNCA  175 (274)
Q Consensus       107 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~  175 (274)
                      +.+-..+.+++++|+..+.+++..|+..|..+.       ..+...|...|+...--++.....+    -..+.......
T Consensus         9 ~a~~~v~~~~~~~ai~~yk~iL~kg~s~dek~~nEqE~tvlel~~lyv~~g~~~~l~~~i~~sre~m~~ftk~k~~Kiir   88 (421)
T COG5159           9 LANNAVKSNDIEKAIGEYKRILGKGVSKDEKTLNEQEATVLELFKLYVSKGDYCSLGDTITSSREAMEDFTKPKITKIIR   88 (421)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHhcCCCChhhhhhhHHHHHHHHHHHHHHhcCCcchHHHHHHhhHHHHHHhcchhHHHHHH
Confidence            344455677888888888888887777665443       3456667777766654444433221    11111223344


Q ss_pred             HHHHHHHh-cCChHHHHHHHHHHHHCCCCccH-----HHHHHHHHHHHhcCCcchHHHHHHHH
Q 048737          176 TAITMLLD-ADEPEFAIEIWNYILENGILPLE-----ASANVLLVGLRNLGRLSDVRRFAEEM  232 (274)
Q Consensus       176 ~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~a~~~~~~m  232 (274)
                      +|+..+.. ...++....+.....+...+-+.     ..=.-++..+.+.|++.+|+.+...+
T Consensus        89 tLiekf~~~~dsl~dqi~v~~~~iewA~rEkr~fLr~~Le~Kli~l~y~~~~YsdalalIn~l  151 (421)
T COG5159          89 TLIEKFPYSSDSLEDQIKVLTALIEWADREKRKFLRLELECKLIYLLYKTGKYSDALALINPL  151 (421)
T ss_pred             HHHHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            44444433 23455555555555443222211     11223445555666666665554433

>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF

Probab=83.03  E-value=2  Score=29.13  Aligned_cols=31  Identities=23%  Similarity=0.156  Sum_probs=18.0

Q ss_pred             hcCCcchHHHHHHHHHhCCCccCHHHHHHHHHH
Q 048737          218 NLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKA  250 (274)
Q Consensus       218 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~  250 (274)
                      ..|.-.+|..+|+.|++.|-+||  .|+.|+..
T Consensus       107 ~ygsk~DaY~VF~kML~~G~pPd--dW~~Ll~~  137 (140)
T PF11663_consen  107 AYGSKTDAYAVFRKMLERGNPPD--DWDALLKE  137 (140)
T ss_pred             hhccCCcHHHHHHHHHhCCCCCc--cHHHHHHH
Confidence            34555566666666666666665  34555544

The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=82.86  E-value=16  Score=26.56  Aligned_cols=21  Identities=10%  Similarity=0.143  Sum_probs=10.8

Q ss_pred             HHHhccCcHHHHHHHHHHHhc
Q 048737           37 ITLIRGKQVDEALKFLRVMKG   57 (274)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~~~~   57 (274)
                      ..|.+.|.+++|.+++++...
T Consensus       119 ~VCm~~g~Fk~A~eiLkr~~~  139 (200)
T cd00280         119 AVCMENGEFKKAEEVLKRLFS  139 (200)
T ss_pred             HHHHhcCchHHHHHHHHHHhc
Confidence            345555555555555555543

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=82.75  E-value=5.4  Score=21.60  Aligned_cols=34  Identities=15%  Similarity=0.125  Sum_probs=20.7

Q ss_pred             HhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHH
Q 048737           39 LIRGKQVDEALKFLRVMKGENCFPTLKFFSNALD   72 (274)
Q Consensus        39 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   72 (274)
                      ..+.|-.+++..++++|.+.|+..++..+..++.
T Consensus        12 Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~   45 (48)
T PF11848_consen   12 AKRRGLISEVKPLLDRLQQAGFRISPKLIEEILR   45 (48)
T ss_pred             HHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHH
Confidence            3455666666666666666666666666655543

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=82.52  E-value=5.9  Score=21.44  Aligned_cols=31  Identities=13%  Similarity=0.248  Sum_probs=16.5

Q ss_pred             hcCCcchHHHHHHHHHhCCCccCHHHHHHHH
Q 048737          218 NLGRLSDVRRFAEEMLNRRILIYDVTMQKLK  248 (274)
Q Consensus       218 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~  248 (274)
                      +.|-.+++..++++|.+.|+..+...|..++
T Consensus        14 ~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   14 RRGLISEVKPLLDRLQQAGFRISPKLIEEIL   44 (48)
T ss_pred             HcCChhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence            4445555555555555555555555554444

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=82.32  E-value=31  Score=29.58  Aligned_cols=180  Identities=8%  Similarity=0.060  Sum_probs=127.9

Q ss_pred             CCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhH
Q 048737           60 CFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTY  139 (274)
Q Consensus        60 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  139 (274)
                      .+.|.....+++..+...-.+.-++.+-.++...|    .+-..+..++.+|... ..++-..+|+++.+..+  |....
T Consensus        62 ~~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~----e~kmal~el~q~y~en-~n~~l~~lWer~ve~df--nDvv~  134 (711)
T COG1747          62 QLLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG----ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF--NDVVI  134 (711)
T ss_pred             ccccchHHHHHHHHhccchHHHHHHHHHHHHHHhc----chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc--hhHHH
Confidence            34567777888999988888888999999999866    6778899999999998 67788999999988644  44455


Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHHhCCCCC--C---cchHHHHHHHHHhcCChHHHHHHHHHHHH-CCCCccHHHHHHHH
Q 048737          140 NMIFECLIKNKKVHEVENFFHEMIKNEWQP--T---PLNCATAITMLLDADEPEFAIEIWNYILE-NGILPLEASANVLL  213 (274)
Q Consensus       140 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~  213 (274)
                      ..-+..+...++..++..+|.+....=++.  +   ...|..|...-  ..+.+....+...+.. .|...-...+.-+-
T Consensus       135 ~ReLa~~yEkik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~  212 (711)
T COG1747         135 GRELADKYEKIKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVY  212 (711)
T ss_pred             HHHHHHHHHHhchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHH
Confidence            544444555588899999999887543211  1   12455554431  3577777777777765 35445556777777


Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHH
Q 048737          214 VGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKK  249 (274)
Q Consensus       214 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~  249 (274)
                      .-|....++++|++++..+.+..-. |...-..++.
T Consensus       213 ~~Ys~~eN~~eai~Ilk~il~~d~k-~~~ar~~~i~  247 (711)
T COG1747         213 KKYSENENWTEAIRILKHILEHDEK-DVWARKEIIE  247 (711)
T ss_pred             HHhccccCHHHHHHHHHHHhhhcch-hhhHHHHHHH
Confidence            8899999999999999988776422 3333333443

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=81.21  E-value=39  Score=30.01  Aligned_cols=150  Identities=11%  Similarity=0.020  Sum_probs=70.9

Q ss_pred             HhHHHHHHHHH-hcCChhhHHHHHHHHHhcCCCCCh-----hhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCC----CCc
Q 048737          102 IMYNAVVGLLC-NNNDVDNVFRFFDQMVFHGAFPDS-----LTYNMIFECLIKNKKVHEVENFFHEMIKNEWQ----PTP  171 (274)
Q Consensus       102 ~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~----~~~  171 (274)
                      .++-.+...+. ...+.+.|+..+.+....--+++-     ..-..++..+.+.+... |...+++.++.--.    +-.
T Consensus        60 ~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~  138 (608)
T PF10345_consen   60 RVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWY  138 (608)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHH
Confidence            34444455444 456677777777655432211221     11234445555555433 66666665543111    111


Q ss_pred             chHHHH-HHHHHhcCChHHHHHHHHHHHHC---CCCccHHHHHHHHHHHH--hcCCcchHHHHHHHHHhCCC--------
Q 048737          172 LNCATA-ITMLLDADEPEFAIEIWNYILEN---GILPLEASANVLLVGLR--NLGRLSDVRRFAEEMLNRRI--------  237 (274)
Q Consensus       172 ~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~--~~g~~~~a~~~~~~m~~~~~--------  237 (274)
                      ..|..+ +..+...+++..|.+.++.+...   ...|...++..++.+..  +.+..+++.+.++++.....        
T Consensus       139 ~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~  218 (608)
T PF10345_consen  139 YAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSV  218 (608)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCC
Confidence            122222 22222236777777777666542   12344455555554443  33445666666665533211        


Q ss_pred             -ccCHHHHHHHHHHHH
Q 048737          238 -LIYDVTMQKLKKAFY  252 (274)
Q Consensus       238 -~~~~~~~~~l~~~~~  252 (274)
                       .|-..+|..+++.++
T Consensus       219 ~~~qL~~~~lll~l~~  234 (608)
T PF10345_consen  219 HIPQLKALFLLLDLCC  234 (608)
T ss_pred             CcHHHHHHHHHHHHHH
Confidence             234456666666554

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 [].

>smart00028 TPR Tetratricopeptide repeats

Probab=80.54  E-value=3.1  Score=18.92  Aligned_cols=27  Identities=19%  Similarity=0.144  Sum_probs=16.9

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhc
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKG   57 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~   57 (274)
                      +|..+...+...++++.|...+....+
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~   29 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALE   29 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            455566666666666666666666554

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=80.09  E-value=22  Score=26.39  Aligned_cols=55  Identities=15%  Similarity=0.086  Sum_probs=23.1

Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          180 MLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       180 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      ++.+.+.++.|+.-..+.++.+. ........-..+|.+...+++|++=|+.+.+.
T Consensus       143 a~iKl~k~e~aI~dcsKaiel~p-ty~kAl~RRAeayek~ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  143 ALIKLRKWESAIEDCSKAIELNP-TYEKALERRAEAYEKMEKYEEALEDYKKILES  197 (271)
T ss_pred             HHHHhhhHHHHHHHHHhhHhcCc-hhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHh
Confidence            34444555555544444444332 01111111123344445555555555555544

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	274
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	9e-05

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 56.0 bits (133), Expect = 5e-09
 Identities = 19/142 (13%), Positives = 40/142 (28%), Gaps = 2/142 (1%)

Query: 41  RGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIG-FNLMP 99
               +D                  +         +  +       L  +  G      + 
Sbjct: 104 GKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLL 163

Query: 100 NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK-NKKVHEVENF 158
            L MYNAV+           +      +   G  PD L+Y    +C+ + ++    +E  
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERC 223

Query: 159 FHEMIKNEWQPTPLNCATAITM 180
             +M +   +   L  A  ++ 
Sbjct: 224 LEQMSQEGLKLQALFTAVLLSE 245

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 46.3 bits (108), Expect = 6e-06
 Identities = 23/170 (13%), Positives = 42/170 (24%), Gaps = 4/170 (2%)

Query: 96  NLMPNLIMYNAVVGLLCNNNDVD---NVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKV 152
            L        A        + +    ++                  YN +     +    
Sbjct: 122 QLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAF 181

Query: 153 HEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIE-IWNYILENGILPLEASANV 211
            E+      +      P  L+ A A+  +   D+    IE     + + G+        V
Sbjct: 182 KELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAV 241

Query: 212 LLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRSMRDR 261
           LL        L  V +          L   V   KL +  Y +   +   
Sbjct: 242 LLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYP 291

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 42.9 bits (99), Expect = 9e-05
 Identities = 15/161 (9%), Positives = 43/161 (26%), Gaps = 4/161 (2%)

Query: 4   KEGNVVEANKTFGEMVERFEWN-PEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFP 62
               +  A+        + +      +  Y   ++   R     E +  L ++K     P
Sbjct: 139 LTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTP 198

Query: 63  TLKFFSNALDILVKLNDSTHTVQ-LWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVF 121
            L  ++ AL  + + +    T++   + M   G       +    ++        +  V 
Sbjct: 199 DLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLK--LQALFTAVLLSEEDRATVLKAVH 256

Query: 122 RFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEM 162
           +           P  +  + +   +               +
Sbjct: 257 KVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPL 297

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	274
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	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.93
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.9
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.89
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.89
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.89
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.88
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.87
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.87
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.86
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.86
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.86
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.85
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.84
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.84
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.84
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.83
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.82
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.81
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.81
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.8
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.8
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.8
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.79
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.79
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.79
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.79
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.78
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.78
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.77
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.77
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.77
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.77
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.77
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.76
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.76
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.75
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.74
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.74
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.73
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.71
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.7
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.7
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.69
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.68
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.68
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.67
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.67
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.66
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.63
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.62
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.62
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.62
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.61
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.61
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.6
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.59
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.59
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.58
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.57
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.57
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.56
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.56
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.55
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.54
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.54
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.53
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.52
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.51
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.5
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.5
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.48
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.47
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.44
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.43
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.42
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.42
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.4
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.39
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.39
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.38
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.38
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.38
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.37
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.36
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.36
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.36
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.36
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.35
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.35
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.34
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.33
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.33
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.31
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.31
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.29
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.29
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.29
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.27
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.26
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.26
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.26
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.25
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.23
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.23
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.2
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.19
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.19
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.18
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	99.16
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.16
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.13
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.12
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.12
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.12
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.12
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.11
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.09
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.09
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.08
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.08
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.07
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.06
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.05
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.05
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.04
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.04
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.03
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.01
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.0
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	99.0
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.0
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.99
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.98
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.98
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.96
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.96
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.96
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.96
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.96
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.95
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.93
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.88
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.87
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.87
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.85
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.85
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.84
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.84
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.83
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.82
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.81
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.81
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.81
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.81
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.8
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.79
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.77
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.74
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.74
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.74
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.73
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.7
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.67
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.67
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.67
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.66
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.65
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.64
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.63
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.62
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.61
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.58
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.57
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.56
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.56
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.54
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.53
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.52
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.52
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.5
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.49
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.47
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.46
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.45
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.44
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.42
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.37
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.36
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.34
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.31
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.29
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.29
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.28
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.27
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.26
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.19
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.15
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.08
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.07
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.04
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.95
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.8
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.78
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.64
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.62
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.56
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.54
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.47
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.45
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.43
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.4
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.35
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.33
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	97.25
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.23
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.14
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.09
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	97.03
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.96
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.95
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.92
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.88
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.81
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.57
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.64
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.46
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	95.07
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.06
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.99
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	94.89
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.88
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.88
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	94.84
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.73
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.5
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.94
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	92.86
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	92.72
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	92.71
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	92.68
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	92.55
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	92.44
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	92.44
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	92.16
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	92.05
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	91.94
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	91.25
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	90.93
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	90.57
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	89.57
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	88.52
2ion_A	152	PDCD4, programmed cell death 4, PDCD4; alpha-helic	88.25
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	87.66
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	87.06
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	86.98
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	86.77
2nsz_A	129	Programmed cell death protein 4; PDCD4, tumor supp	86.63
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	86.26
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	86.07
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	85.52
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	84.47
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	84.42
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	84.31
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	84.06
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	83.49
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	82.86
2p58_C	116	Putative type III secretion protein YSCG; type III	81.82
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	81.54
2zu6_B	307	Programmed cell death protein 4; protein-protein c	81.53
2p58_C	116	Putative type III secretion protein YSCG; type III	80.68

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=2.2e-38  Score=262.54  Aligned_cols=214  Identities=13%  Similarity=0.116  Sum_probs=114.8

Q ss_pred             HHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHH
Q 048737           11 ANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIM   90 (274)
Q Consensus        11 a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   90 (274)
                      +..+++++.++ +..+.....++.+|.+|++.|++++|+++|++|.+.|++||..||++||.+|++.+....+       
T Consensus         9 ~e~L~~~~~~k-~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~-------   80 (501)
T 4g26_A            9 SENLSRKAKKK-AIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES-------   80 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS-------
T ss_pred             HHHHHHHHHHh-cccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh-------
Confidence            33444444443 4333122345555666666666666666666666666666666666666666554432110       


Q ss_pred             HhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCC
Q 048737           91 VGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT  170 (274)
Q Consensus        91 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~  170 (274)
                                           .+.++.++|.++|++|...|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||
T Consensus        81 ---------------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd  139 (501)
T 4g26_A           81 ---------------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPR  139 (501)
T ss_dssp             ---------------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCC
T ss_pred             ---------------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc
Confidence                                 00112455555666666666666666666666666666666666666666666666666


Q ss_pred             cchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHH
Q 048737          171 PLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKA  250 (274)
Q Consensus       171 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~  250 (274)
                      ..||+++|.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.+++++|.+.|..|+..||+.++..
T Consensus       140 ~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~  219 (501)
T 4g26_A          140 LRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEW  219 (501)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHH
T ss_pred             cceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHH
Confidence            66666666666666666666666666666666666666666666666666666666666666666666666666666555


Q ss_pred             HHh
Q 048737          251 FYN  253 (274)
Q Consensus       251 ~~~  253 (274)
                      |+.
T Consensus       220 F~s  222 (501)
T 4g26_A          220 FKS  222 (501)
T ss_dssp             HHS
T ss_pred             Hhc
Confidence            554

>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=4.1e-38  Score=260.88  Aligned_cols=180  Identities=16%  Similarity=0.236  Sum_probs=159.9

Q ss_pred             CcccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCc---------HHHHHHHHHHHhcCCCCCCHHHHHHHH
Q 048737            1 GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQ---------VDEALKFLRVMKGENCFPTLKFFSNAL   71 (274)
Q Consensus         1 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~---------~~~a~~~~~~~~~~~~~~~~~~~~~l~   71 (274)
                      +|++.|++++|+++|++|.+. |+.| |..+|++||.+|++.+.         +++|.++|++|.+.|+.||..||++||
T Consensus        35 ~c~k~G~~~~A~~lf~~M~~~-Gv~p-d~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI  112 (501)
T 4g26_A           35 MCSKKGDVLEALRLYDEARRN-GVQL-SQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGA  112 (501)
T ss_dssp             HTTTSCCHHHHHHHHHHHHHH-TCCC-CHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHc-CCCC-CHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHHHH
Confidence            489999999999999999996 9999 89999999999987654         678888888888888888888888888


Q ss_pred             HHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 048737           72 DILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKK  151 (274)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  151 (274)
                      .+|++.|++++|.++|++|.+.|  +.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||++||.+|++.|+
T Consensus       113 ~~~~~~g~~~~A~~l~~~M~~~g--~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~  190 (501)
T 4g26_A          113 RLAVAKDDPEMAFDMVKQMKAFG--IQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKN  190 (501)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHTT--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcC--CCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCC
Confidence            88888888888888888888888  8888888888888888888888888888888888888888888888888888888


Q ss_pred             HhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc
Q 048737          152 VHEVENFFHEMIKNEWQPTPLNCATAITMLLDA  184 (274)
Q Consensus       152 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  184 (274)
                      +++|.+++++|.+.|..|+..||+.++..|+..
T Consensus       191 ~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          191 ADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            888888888888888888888888888888764

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.97  E-value=1.1e-27  Score=204.03  Aligned_cols=255  Identities=8%  Similarity=-0.030  Sum_probs=161.7

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhH
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHT   83 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   83 (274)
                      +.|++++|+++|+++.+.   .|.+..+|+.++.++.+.|++++|.++++++.+. .+.+..++..++..|.+.|++++|
T Consensus       317 ~~g~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A  392 (597)
T 2xpi_A          317 VRSRFIDVLAITTKILEI---DPYNLDVYPLHLASLHESGEKNKLYLISNDLVDR-HPEKAVTWLAVGIYYLCVNKISEA  392 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHH---CTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTSHHHHHHHHHHHHHTTCHHHH
T ss_pred             HhcCHHHHHHHHHHHHHc---CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHhccHHHH
Confidence            344444444444444433   3334444444444444444444444444444432 234566666777777777777777


Q ss_pred             HHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737           84 VQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      .++|+++.+..   +.+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|+.++.+|.+.|++++|.++|+++.
T Consensus       393 ~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  468 (597)
T 2xpi_A          393 RRYFSKSSTMD---PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSY  468 (597)
T ss_dssp             HHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            77777776654   4456677777777777777777777777776653 2356677777777777777777777777776


Q ss_pred             hCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCcc--HHHHHHHHHHHHhcCCcchHHHHHHHHHhCCC
Q 048737          164 KNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILEN----GILPL--EASANVLLVGLRNLGRLSDVRRFAEEMLNRRI  237 (274)
Q Consensus       164 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  237 (274)
                      +.. +.+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..+..+|.+.|++++|.++|+++.+.+ 
T Consensus       469 ~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-  546 (597)
T 2xpi_A          469 ALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-  546 (597)
T ss_dssp             HHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-
Confidence            543 335666777777777777777777777777654    44565  5677777777777777777777777776654 


Q ss_pred             ccCHHHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          238 LIYDVTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       238 ~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                      +.+..+|..+..+|.+.|+.  |.+.++++++.
T Consensus       547 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  579 (597)
T 2xpi_A          547 TNDANVHTAIALVYLHKKIPGLAITHLHESLAI  579 (597)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            33667777777777777766  77777666654

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.96  E-value=1.9e-27  Score=202.67  Aligned_cols=258  Identities=11%  Similarity=-0.069  Sum_probs=232.5

Q ss_pred             CcccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCh
Q 048737            1 GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDS   80 (274)
Q Consensus         1 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   80 (274)
                      +|.+.|++++|.++|+++.+.    |+++.+|+.++..|.+.|++++|+++|+++.+.+ +.+..++..++.++.+.|++
T Consensus       281 ~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~  355 (597)
T 2xpi_A          281 KTSHEDELRRAEDYLSSINGL----EKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEK  355 (597)
T ss_dssp             TTTTHHHHHHHHHHHHTSTTG----GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCH
T ss_pred             HHcCcchHHHHHHHHHHhhcC----CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCH
Confidence            367889999999999999763    4489999999999999999999999999999764 44778899999999999999


Q ss_pred             hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHH
Q 048737           81 THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFH  160 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (274)
                      ++|..+++++.+..   +.+..+|+.++.+|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+
T Consensus       356 ~~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  431 (597)
T 2xpi_A          356 NKLYLISNDLVDRH---PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYT  431 (597)
T ss_dssp             HHHHHHHHHHHHHC---TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC---cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999765   6678999999999999999999999999998753 3368899999999999999999999999


Q ss_pred             HHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC----C
Q 048737          161 EMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR----R  236 (274)
Q Consensus       161 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~----~  236 (274)
                      ++.+.+ +.+..+|..++.+|.+.|++++|.++|+++.+... .+..+|+.++..|.+.|++++|.++|+++.+.    +
T Consensus       432 ~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  509 (597)
T 2xpi_A          432 TAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQ-YDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQ  509 (597)
T ss_dssp             HHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccc
Confidence            999864 45788999999999999999999999999998653 57889999999999999999999999999876    6


Q ss_pred             CccC--HHHHHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          237 ILIY--DVTMQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       237 ~~~~--~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      ..|+  ..+|..+..+|.+.|+.  |.+.++++++..
T Consensus       510 ~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  546 (597)
T 2xpi_A          510 SNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS  546 (597)
T ss_dssp             CCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             cchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            6787  78999999999999998  999999988754

>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=99.93  E-value=8.3e-23  Score=165.23  Aligned_cols=234  Identities=11%  Similarity=0.020  Sum_probs=151.4

Q ss_pred             CchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHH
Q 048737           26 PEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYN  105 (274)
Q Consensus        26 p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  105 (274)
                      |++...+..+...+...|++++|++.|+++.+.. +.+..+|..+...+...|+++.|...|+++.+.+   +.+...|.
T Consensus       132 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~  207 (388)
T 1w3b_A          132 PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD---PNFLDAYI  207 (388)
T ss_dssp             TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC---TTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC---CCcHHHHH
Confidence            3333334444444444444444444444444321 2234445555555555555555555555555543   33344555


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcC
Q 048737          106 AVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDAD  185 (274)
Q Consensus       106 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  185 (274)
                      .+...+...|++++|...|++..... +.+..++..+...|...|++++|...++++.+.. +.+..++..+...+.+.|
T Consensus       208 ~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  285 (388)
T 1w3b_A          208 NLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKG  285 (388)
T ss_dssp             HHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcC
Confidence            55555555566666666665555432 1246677778888888888888888888887753 234567888888888888


Q ss_pred             ChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHH
Q 048737          186 EPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFD  263 (274)
Q Consensus       186 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~  263 (274)
                      ++++|...++++.+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..+..++.+.|+.  |.+.++
T Consensus       286 ~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~  363 (388)
T 1w3b_A          286 SVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYK  363 (388)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            8888888888888764 3567788888888888888888888888887653 34567788888888888877  888887


Q ss_pred             HHHH
Q 048737          264 SLER  267 (274)
Q Consensus       264 ~~~~  267 (274)
                      ++++
T Consensus       364 ~a~~  367 (388)
T 1w3b_A          364 EAIR  367 (388)
T ss_dssp             HHHT
T ss_pred             HHHh
Confidence            7764

>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=99.92  E-value=1.2e-22  Score=164.36  Aligned_cols=256  Identities=10%  Similarity=0.045  Sum_probs=136.6

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhH
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHT   83 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   83 (274)
                      +.|++++|...++.....   .|.+..+|..+...+.+.|++++|++.|+++.+.. +.+..+|..+..++.+.|++++|
T Consensus        45 ~~~~~~~a~~~~~~a~~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A  120 (388)
T 1w3b_A           45 QCRRLDRSAHFSTLAIKQ---NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGA  120 (388)
T ss_dssp             HTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHH
T ss_pred             HcCCHHHHHHHHHHHHhc---CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHH
Confidence            345555555555555443   44455555555555555555555555555555431 22334455555555555555555


Q ss_pred             HHHHHHHHhcCCc-------------------------------cCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCC
Q 048737           84 VQLWDIMVGIGFN-------------------------------LMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGA  132 (274)
Q Consensus        84 ~~~~~~~~~~~~~-------------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  132 (274)
                      .+.|+++.+...+                               .+.+..+|..+..++.+.|++++|...|+++.+..+
T Consensus       121 ~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  200 (388)
T 1w3b_A          121 VQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP  200 (388)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            5555555543300                               022334444444444444444444444444444321


Q ss_pred             CCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHH
Q 048737          133 FPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVL  212 (274)
Q Consensus       133 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  212 (274)
                       .+...|..+...+...|++++|...+++..+.. +.+..++..+..++...|++++|...++++.+.+. .+..+|..+
T Consensus       201 -~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l  277 (388)
T 1w3b_A          201 -NFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNL  277 (388)
T ss_dssp             -TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHH
T ss_pred             -CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHH
Confidence             123444444444445555555555555444421 12245566666666667777777777766666442 334566666


Q ss_pred             HHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHH
Q 048737          213 LVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLER  267 (274)
Q Consensus       213 ~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~  267 (274)
                      ...+.+.|++++|...|+++.+.. +.+..++..+...+.+.|+.  |.+.++++++
T Consensus       278 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  333 (388)
T 1w3b_A          278 ANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALE  333 (388)
T ss_dssp             HHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            667777777777777777766552 34566666666777776666  6666665543

>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=99.91  E-value=1.1e-21  Score=161.45  Aligned_cols=189  Identities=13%  Similarity=0.095  Sum_probs=109.7

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|++++|+.+|+++.+.   .|.+..+|..++.++...|++++|+..|+++.+.+ +.+...+..+..++.+.|+++
T Consensus        36 ~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  111 (450)
T 2y4t_A           36 LLAAGQLADALSQFHAAVDG---DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLD  111 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHCCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHH
Confidence            34567777777777777654   56566677777777777777777777777776643 334666666777777777777


Q ss_pred             hHHHHHHHHHhcCCccCccH---HhHHHHH------------HHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNL---IMYNAVV------------GLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECL  146 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~---~~~~~l~------------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  146 (274)
                      +|...|+++.+..   +.+.   ..+..+.            ..+.+.|++++|...|+++.+.. +.+..++..+...|
T Consensus       112 ~A~~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  187 (450)
T 2y4t_A          112 EAEDDFKKVLKSN---PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECF  187 (450)
T ss_dssp             HHHHHHHHHHTSC---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC---CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            7777777776654   2233   3443332            22555566666666665555432 22445555555555


Q ss_pred             HhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048737          147 IKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILE  199 (274)
Q Consensus       147 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  199 (274)
                      ...|++++|...|+++.+.. +.+..++..+..+|...|++++|...++++.+
T Consensus       188 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  239 (450)
T 2y4t_A          188 IKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLK  239 (450)
T ss_dssp             HHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555554432 22344455555555555555555555555544

>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=99.91  E-value=2.5e-21  Score=159.36  Aligned_cols=255  Identities=10%  Similarity=0.012  Sum_probs=216.3

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC-H---HHHHHH-------
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT-L---KFFSNA-------   70 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~---~~~~~l-------   70 (274)
                      |.+.|++++|+..|+++.+.   .|.+..+|..++..|.+.|++++|++.|+++.+..  |+ .   ..+..+       
T Consensus        70 ~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~  144 (450)
T 2y4t_A           70 FLAMGKSKAALPDLTKVIQL---KMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN--PSENEEKEAQSQLIKSDEMQ  144 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhc---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHHHHHH
Confidence            56789999999999999876   78789999999999999999999999999999753  44 3   555555       


Q ss_pred             -----HHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048737           71 -----LDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC  145 (274)
Q Consensus        71 -----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (274)
                           ...+...|+++.|...|+++.+..   +.+..++..+..+|.+.|++++|...|+++.+.. +.+..+|..+...
T Consensus       145 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  220 (450)
T 2y4t_A          145 RLRSQALNAFGSGDYTAAIAFLDKILEVC---VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTL  220 (450)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence                 444889999999999999999875   6678899999999999999999999999998763 3468999999999


Q ss_pred             HHhcCCHhHHHHHHHHHHhCCCCCCc-chHHHH------------HHHHHhcCChHHHHHHHHHHHHCCCC-cc--HHHH
Q 048737          146 LIKNKKVHEVENFFHEMIKNEWQPTP-LNCATA------------ITMLLDADEPEFAIEIWNYILENGIL-PL--EASA  209 (274)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~-~~--~~~~  209 (274)
                      |...|++++|...|+++.+.  .|+. ..+..+            ...+...|++++|...|+++.+.... |.  ...+
T Consensus       221 ~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~  298 (450)
T 2y4t_A          221 YYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSK  298 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHH
Confidence            99999999999999999874  4554 344444            78899999999999999999885422 11  4578


Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          210 NVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       210 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                      ..+...+.+.|++++|...++++.+.. +.+...+..+..+|...|+.  |.+.++++++.
T Consensus       299 ~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  358 (450)
T 2y4t_A          299 ERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEH  358 (450)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            889999999999999999999998763 34678999999999999988  88888888753

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.90  E-value=1.8e-21  Score=156.02  Aligned_cols=247  Identities=12%  Similarity=0.017  Sum_probs=203.9

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|++++|++.|+++.+.   .|.+..+|..+...+...|++++|+..|+++.+.. +.+..++..+..++...|+++
T Consensus        75 ~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  150 (365)
T 4eqf_A           75 RLKEGDLPVTILFMEAAILQ---DPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTSHQQ  150 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHCCCHHHHHHHHHHHHHh---CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccccHH
Confidence            45789999999999999876   78889999999999999999999999999998853 456889999999999999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhH----------HHHHHHHHhcCChhhHHHHHHHHHhcCCC-CChhhHHHHHHHHHhcC
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMY----------NAVVGLLCNNNDVDNVFRFFDQMVFHGAF-PDSLTYNMIFECLIKNK  150 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~----------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~  150 (274)
                      +|...++++.+..   +.+...+          ..+...+.+.|++++|...|+++.+.... ++..++..+...|...|
T Consensus       151 ~A~~~~~~al~~~---p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g  227 (365)
T 4eqf_A          151 DACEALKNWIKQN---PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSG  227 (365)
T ss_dssp             HHHHHHHHHHHHC---HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC---ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCC
Confidence            9999999999865   2333333          34578899999999999999999886432 15889999999999999


Q ss_pred             CHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHH
Q 048737          151 KVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAE  230 (274)
Q Consensus       151 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  230 (274)
                      ++++|...+++..+.. +.+..++..+..+|...|++++|...+++..+... .+..++..+..+|...|++++|...|+
T Consensus       228 ~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~  305 (365)
T 4eqf_A          228 EFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQP-GFIRSRYNLGISCINLGAYREAVSNFL  305 (365)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CchHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999998753 34577899999999999999999999999998652 457889999999999999999999999


Q ss_pred             HHHhCCCc-----------cCHHHHHHHHHHHHhcChh
Q 048737          231 EMLNRRIL-----------IYDVTMQKLKKAFYNESRS  257 (274)
Q Consensus       231 ~m~~~~~~-----------~~~~~~~~l~~~~~~~g~~  257 (274)
                      +..+....           .+...|..+..++...|+.
T Consensus       306 ~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  343 (365)
T 4eqf_A          306 TALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQP  343 (365)
T ss_dssp             HHHHHHHCC------------CHHHHHHHHHHHHHTCH
T ss_pred             HHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcH
Confidence            98764211           1357788899999888887

>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=99.89  E-value=7.8e-21  Score=149.89  Aligned_cols=255  Identities=11%  Similarity=-0.012  Sum_probs=210.1

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCC-Chh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLN-DST   81 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~   81 (274)
                      ...|++++|+++|+++.+.   .|.+...+..++..+...|++++|..+++++.+.. +.+...+..+...+...| +++
T Consensus        33 ~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  108 (330)
T 3hym_B           33 YYNCDFKMCYKLTSVVMEK---DPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNE  108 (330)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---CTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHH
T ss_pred             HHcCCHHHHHHHHHHHHHc---CCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHH
Confidence            4568999999999999776   77777788888899999999999999999988753 446778888889999999 899


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHE  161 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (274)
                      .|...|+++.+..   +.+...|..+..++...|++++|...|++..+... .+...+..+...|...|++++|...+++
T Consensus       109 ~A~~~~~~a~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~  184 (330)
T 3hym_B          109 HARRYLSKATTLE---KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLTNNSKLAERFFSQ  184 (330)
T ss_dssp             HHHHHHHHHHTTC---TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC---CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            9999999998875   55677889999999999999999999999887632 3467777788899999999999999999


Q ss_pred             HHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCC--------CCccHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 048737          162 MIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENG--------ILPLEASANVLLVGLRNLGRLSDVRRFAEEML  233 (274)
Q Consensus       162 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  233 (274)
                      ..+.. +.+...+..+...+...|++++|...+++..+..        .+.+..++..+...|...|++++|...+++..
T Consensus       185 al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  263 (330)
T 3hym_B          185 ALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQAL  263 (330)
T ss_dssp             HHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            88754 3456788888999999999999999998887632        13345688889999999999999999999988


Q ss_pred             hCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHH
Q 048737          234 NRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLER  267 (274)
Q Consensus       234 ~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~  267 (274)
                      +.. +.+...+..+...+...|+.  |.+.++++++
T Consensus       264 ~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  298 (330)
T 3hym_B          264 VLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALG  298 (330)
T ss_dssp             HHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT
T ss_pred             hhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHc
Confidence            764 33567888888899998887  7777776554

>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=99.89  E-value=5.1e-21  Score=153.39  Aligned_cols=260  Identities=14%  Similarity=0.025  Sum_probs=210.7

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|++++|+..|+++.+.   .|.+..+|..+...+...|++++|++.|+++.+.. +.+..++..+..++...|+++
T Consensus        74 ~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~  149 (368)
T 1fch_A           74 RLQEGDLPNAVLLFEAAVQQ---DPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQR  149 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHS---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHH
Confidence            45678999999999999776   78788899999999999999999999999988764 457888999999999999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHH---------------HHHHHHhcCChhhHHHHHHHHHhcCCCC-ChhhHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNA---------------VVGLLCNNNDVDNVFRFFDQMVFHGAFP-DSLTYNMIFEC  145 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~  145 (274)
                      +|...++++....   +.+...+..               .+..+...|++++|...|+++.+..... +..++..+...
T Consensus       150 ~A~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~  226 (368)
T 1fch_A          150 QACEILRDWLRYT---PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVL  226 (368)
T ss_dssp             HHHHHHHHHHHTS---TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC---cCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHH
Confidence            9999999998865   333333321               1333448899999999999988764221 47889999999


Q ss_pred             HHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchH
Q 048737          146 LIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDV  225 (274)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  225 (274)
                      |...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+... .+..++..+..+|...|++++|
T Consensus       227 ~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A  304 (368)
T 1fch_A          227 FNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQP-GYIRSRYNLGISCINLGAHREA  304 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHH
Confidence            999999999999999998753 33567899999999999999999999999988653 5678899999999999999999


Q ss_pred             HHHHHHHHhCCCcc----------CHHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          226 RRFAEEMLNRRILI----------YDVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       226 ~~~~~~m~~~~~~~----------~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      ...|++..+.....          ...+|..+..++...|+.  |..++.+.++.++
T Consensus       305 ~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~  361 (368)
T 1fch_A          305 VEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARDLSTLL  361 (368)
T ss_dssp             HHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHHHHHHH
Confidence            99999987642111          267899999999999987  7777776665544

>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=99.89  E-value=4.4e-21  Score=151.11  Aligned_cols=259  Identities=8%  Similarity=0.003  Sum_probs=215.5

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      +.+.|++++|..+|+++.+.   .|.+..+|..+...+...|++++|.+.++++.+.. +.+..++..+...+...|+++
T Consensus        31 ~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~  106 (327)
T 3cv0_A           31 MLKLANLAEAALAFEAVCQA---APEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNAN  106 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHhccHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHH
Confidence            45679999999999999876   78788999999999999999999999999998863 457888999999999999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHH--------------HH-HHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAV--------------VG-LLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECL  146 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  146 (274)
                      +|...++++.+..   +.+...+..+              .. .+...|++++|...++++.+.. +.+..++..+...|
T Consensus       107 ~A~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~  182 (327)
T 3cv0_A          107 AALASLRAWLLSQ---PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLY  182 (327)
T ss_dssp             HHHHHHHHHHHTS---TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC---CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            9999999999865   3344444444              33 4778899999999999998864 33688999999999


Q ss_pred             HhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHH
Q 048737          147 IKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVR  226 (274)
Q Consensus       147 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  226 (274)
                      ...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+... .+...+..+...|...|++++|.
T Consensus       183 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~g~~~~A~  260 (327)
T 3cv0_A          183 NLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDINP-GYVRVMYNMAVSYSNMSQYDLAA  260 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhccHHHHH
Confidence            99999999999999998754 34567889999999999999999999999988653 46778999999999999999999


Q ss_pred             HHHHHHHhCCCcc-----------CHHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          227 RFAEEMLNRRILI-----------YDVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       227 ~~~~~m~~~~~~~-----------~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      ..+++..+.....           +...+..+..++...|+.  |.+++++.++...
T Consensus       261 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~  317 (327)
T 3cv0_A          261 KQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVEPFA  317 (327)
T ss_dssp             HHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSHHHH
T ss_pred             HHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcc
Confidence            9999987753221           477889999999999988  7777766555443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.88  E-value=5.3e-23  Score=176.89  Aligned_cols=152  Identities=11%  Similarity=0.042  Sum_probs=122.9

Q ss_pred             ccHHhHHHHHHHHHhcCChhhHHHHHHHHH---hcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHH
Q 048737           99 PNLIMYNAVVGLLCNNNDVDNVFRFFDQMV---FHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCA  175 (274)
Q Consensus        99 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  175 (274)
                      .-..|||+||++|++.|++++|.++|++|.   ..|+.||+.|||+||.+||+.|++++|.++|++|.+.|+.||..||+
T Consensus       125 ~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYn  204 (1134)
T 3spa_A          125 GQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            346789999999999999999999998875   45789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCh-HHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccC------HHHHHHHH
Q 048737          176 TAITMLLDADEP-EFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY------DVTMQKLK  248 (274)
Q Consensus       176 ~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~------~~~~~~l~  248 (274)
                      ++|+++++.|+. +.|.++|++|.+.|+.||..+|++++.++.+.    .+++.++++ ..+..|+      ..|...|.
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~  279 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLR  279 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHH
Confidence            999999999874 78899999999999999999999988765554    233333333 3344443      34455566


Q ss_pred             HHHHhcC
Q 048737          249 KAFYNES  255 (274)
Q Consensus       249 ~~~~~~g  255 (274)
                      +.|.+.+
T Consensus       280 dl~s~d~  286 (1134)
T 3spa_A          280 DVYAKDG  286 (1134)
T ss_dssp             HHHCCCS
T ss_pred             HHHccCC
Confidence            6666555

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.87  E-value=7.1e-19  Score=140.08  Aligned_cols=188  Identities=13%  Similarity=0.091  Sum_probs=110.6

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   82 (274)
                      .+.|++++|+..|+++.+.   .|.++.+|..+...+...|++++|+..++++.+.. +.+...+..+..++...|++++
T Consensus        14 ~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~   89 (359)
T 3ieg_A           14 LAAGQLADALSQFHAAVDG---DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDE   89 (359)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHcCCHHHHHHHHHHHHhh---CcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHH
Confidence            4566777777777776654   56566677777777777777777777777766542 2345666666666666777777


Q ss_pred             HHHHHHHHHhcCCccC---ccHHhHHHH------------HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 048737           83 TVQLWDIMVGIGFNLM---PNLIMYNAV------------VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLI  147 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~---~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  147 (274)
                      |...++++.+..   +   .+...+..+            ...+...|++++|.+.++++.+.. +.+...+..+...+.
T Consensus        90 A~~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~  165 (359)
T 3ieg_A           90 AEDDFKKVLKSN---PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFI  165 (359)
T ss_dssp             HHHHHHHHHTSC---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC---CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHH
Confidence            777777666643   2   233334333            355556666666666666655542 224555555555666


Q ss_pred             hcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048737          148 KNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILE  199 (274)
Q Consensus       148 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  199 (274)
                      ..|++++|...++++.+.. +.+...+..+...+...|++++|...+++..+
T Consensus       166 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~  216 (359)
T 3ieg_A          166 KEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLK  216 (359)
T ss_dssp             HTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            6666666666666555432 22344555555555555555555555555544

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.87  E-value=3.8e-22  Score=171.67  Aligned_cols=151  Identities=15%  Similarity=0.161  Sum_probs=126.4

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhc---CCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKG---ENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMY  104 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  104 (274)
                      ...+|++||.+|++.|++++|.++|.+|.+   .|+.||..|||+||++|++.|++++|.++|++|.+.|  +.||.+||
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G--~~PDvvTY  203 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG--LTPDLLSY  203 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT--CCCCHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcC--CCCcHHHH
Confidence            345899999999999999999999988764   5789999999999999999999999999999999999  99999999


Q ss_pred             HHHHHHHHhcCCh-hhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCC------cchHHHH
Q 048737          105 NAVVGLLCNNNDV-DNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT------PLNCATA  177 (274)
Q Consensus       105 ~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l  177 (274)
                      |++|.++++.|+. ++|.++|++|.+.|+.||..+|++++.++.+.    .+++..+++ ..+..|+      ..+...|
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL  278 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLL  278 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTT
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHH
Confidence            9999999999985 78999999999999999999999999877663    444555544 3344444      4455566


Q ss_pred             HHHHHhcC
Q 048737          178 ITMLLDAD  185 (274)
Q Consensus       178 ~~~~~~~~  185 (274)
                      .+.|.+.+
T Consensus       279 ~dl~s~d~  286 (1134)
T 3spa_A          279 RDVYAKDG  286 (1134)
T ss_dssp             HHHHCCCS
T ss_pred             HHHHccCC
Confidence            66666554

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.86  E-value=1.3e-18  Score=138.48  Aligned_cols=255  Identities=9%  Similarity=0.006  Sum_probs=213.1

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCC----CHHHHHHH-------
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFP----TLKFFSNA-------   70 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l-------   70 (274)
                      |...|++++|+..|+++.+.   .|.+..+|..+...+...|++++|+..|+++.+.  .|    +...+..+       
T Consensus        47 ~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~  121 (359)
T 3ieg_A           47 FLAMGKSKAALPDLTKVIAL---KMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQ  121 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHh---CCCcchHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHH
Confidence            45679999999999999876   7878899999999999999999999999999875  34    34444444       


Q ss_pred             -----HHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048737           71 -----LDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC  145 (274)
Q Consensus        71 -----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (274)
                           ...+...|++++|...++++.+..   +.+..++..+..++...|++++|...++++.+.. +.+..++..+...
T Consensus       122 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  197 (359)
T 3ieg_A          122 RLRSQALDAFDGADYTAAITFLDKILEVC---VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTL  197 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC---CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence                 578889999999999999999875   6678899999999999999999999999998863 3468899999999


Q ss_pred             HHhcCCHhHHHHHHHHHHhCCCCCCc-chHH------------HHHHHHHhcCChHHHHHHHHHHHHCCCCccH----HH
Q 048737          146 LIKNKKVHEVENFFHEMIKNEWQPTP-LNCA------------TAITMLLDADEPEFAIEIWNYILENGILPLE----AS  208 (274)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~------------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~  208 (274)
                      +...|++++|...+++..+..  |+. ..+.            .+...+.+.|++++|...+++..+.... +.    ..
T Consensus       198 ~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~  274 (359)
T 3ieg_A          198 YYQLGDHELSLSEVRECLKLD--QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRS  274 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhhC--ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHH
Confidence            999999999999999998753  443 3332            2366788999999999999999886532 22    33


Q ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          209 ANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       209 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      +..+...+...|++++|...+++..+.. +.+..++..+...+...|+.  |.+.++++++..
T Consensus       275 ~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  336 (359)
T 3ieg_A          275 KERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN  336 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            5567788999999999999999998863 33778899999999999988  888888877543

>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=5e-19  Score=139.49  Aligned_cols=246  Identities=9%  Similarity=-0.042  Sum_probs=210.3

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccC-cHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGK-QVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDS   80 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   80 (274)
                      +.+.|++++|...|+++.+.   .|.++.+|..+...+...| ++++|+..|++..+.. +.+...+..+...+...|++
T Consensus        66 ~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~  141 (330)
T 3hym_B           66 LVELNKANELFYLSHKLVDL---YPSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEH  141 (330)
T ss_dssp             HHHHTCHHHHHHHHHHHHHH---CTTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCH
T ss_pred             HHHhhhHHHHHHHHHHHHHh---CcCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCH
Confidence            34679999999999999876   7878899999999999999 9999999999999864 44678899999999999999


Q ss_pred             hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHH
Q 048737           81 THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFH  160 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (274)
                      ++|...++++.+..   +.+...+..+...|...|++++|...+++..+.. +.+..++..+...+...|++++|...++
T Consensus       142 ~~A~~~~~~a~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  217 (330)
T 3hym_B          142 DQAMAAYFTAAQLM---KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFL  217 (330)
T ss_dssp             HHHHHHHHHHHHHT---TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc---cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHH
Confidence            99999999999875   4567778889999999999999999999998864 3467889999999999999999999999


Q ss_pred             HHHhCC--------CCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 048737          161 EMIKNE--------WQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEM  232 (274)
Q Consensus       161 ~~~~~~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  232 (274)
                      +..+..        .+.+..++..+..++...|++++|...+++..+... .+...+..+...|...|++++|...+++.
T Consensus       218 ~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~a  296 (330)
T 3hym_B          218 DALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIP-QNASTYSAIGYIHSLMGNFENAVDYFHTA  296 (330)
T ss_dssp             HHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCHHHHHHHHHTT
T ss_pred             HHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCc-cchHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            987631        133456899999999999999999999999998653 46678999999999999999999999998


Q ss_pred             HhCCCccCHHHHHHHHHHH-HhcChh
Q 048737          233 LNRRILIYDVTMQKLKKAF-YNESRS  257 (274)
Q Consensus       233 ~~~~~~~~~~~~~~l~~~~-~~~g~~  257 (274)
                      .+.. +.+...+..+..++ ...|+.
T Consensus       297 l~~~-p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          297 LGLR-RDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             TTTC-SCCHHHHHHHHHHHHTTTTC-
T ss_pred             HccC-CCchHHHHHHHHHHHHHhCch
Confidence            8764 33667777777777 455554

>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=99.86  E-value=3.5e-19  Score=142.71  Aligned_cols=258  Identities=9%  Similarity=-0.023  Sum_probs=204.9

Q ss_pred             ccccchHHHHH-HHHHHHhccCCCCch----HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhC
Q 048737            3 EKEGNVVEANK-TFGEMVERFEWNPEH----VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKL   77 (274)
Q Consensus         3 ~~~g~~~~a~~-~~~~~~~~~~~~p~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   77 (274)
                      ...|++++|.+ .|++...   +.|.+    ...+..+...+.+.|++++|+..|+++.+.. +.+..++..+..++...
T Consensus        36 ~~~~~~~~a~~~~~~~a~~---~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  111 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQ---FEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAEN  111 (368)
T ss_dssp             ----------CHHHHCCCC---CCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhhhhHHHh---cCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHC
Confidence            34567778877 7776533   24433    4568889999999999999999999999864 55788999999999999


Q ss_pred             CChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHH---------------H
Q 048737           78 NDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNM---------------I  142 (274)
Q Consensus        78 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---------------l  142 (274)
                      |+++.|...|+++.+..   +.+..++..+..+|...|++++|.+.++++...... +...+..               .
T Consensus       112 g~~~~A~~~~~~al~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~  187 (368)
T 1fch_A          112 EQELLAISALRRCLELK---PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRI  187 (368)
T ss_dssp             TCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CT
T ss_pred             cCHHHHHHHHHHHHhcC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHH
Confidence            99999999999999976   667889999999999999999999999999886432 2222221               2


Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhCCCC-CCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCC
Q 048737          143 FECLIKNKKVHEVENFFHEMIKNEWQ-PTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGR  221 (274)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  221 (274)
                      +..+...|++++|...++++.+.... ++..++..+...+...|++++|...++++.+... .+..++..+...+...|+
T Consensus       188 ~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~  266 (368)
T 1fch_A          188 LGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQ  266 (368)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHcCC
Confidence            34444889999999999999875311 1467889999999999999999999999988653 457889999999999999


Q ss_pred             cchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          222 LSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       222 ~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      +++|...|+++.+.. +.+...+..+..++.+.|+.  |.+.++++++...
T Consensus       267 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  316 (368)
T 1fch_A          267 SEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQR  316 (368)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            999999999998764 34678899999999999988  9999998887643

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.85  E-value=1.4e-18  Score=145.20  Aligned_cols=88  Identities=8%  Similarity=0.001  Sum_probs=65.0

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|++++|+..|+++...   .| ++.+|..++.++.+.|++++|+..++++.+.+ +.+..++..+..++...|+++
T Consensus        16 ~~~~g~~~~A~~~~~~al~~---~p-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~   90 (514)
T 2gw1_A           16 FFRNKKYDDAIKYYNWALEL---KE-DPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFA   90 (514)
T ss_dssp             HHHTSCHHHHHHHHHHHHHH---CC-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHhccHHHHHHHHHHHHhc---Cc-cHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHH
Confidence            45667888888888888765   56 67778888888888888888888888777653 445667777777777777777


Q ss_pred             hHHHHHHHHHhcC
Q 048737           82 HTVQLWDIMVGIG   94 (274)
Q Consensus        82 ~a~~~~~~~~~~~   94 (274)
                      +|...|+++...+
T Consensus        91 ~A~~~~~~~~~~~  103 (514)
T 2gw1_A           91 DAMFDLSVLSLNG  103 (514)
T ss_dssp             HHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHhcC
Confidence            7777777776543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.84  E-value=2.2e-18  Score=133.86  Aligned_cols=246  Identities=12%  Similarity=0.070  Sum_probs=199.1

Q ss_pred             cccchHHHHHHHHHHHhccCCCCch-HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhh
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEH-VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   82 (274)
                      ..|+++.|+..++.+...   .|++ ......+..+|...|+++.|+..++.    .-+|+..++..+...+...++.+.
T Consensus        11 ~~g~y~~ai~~~~~~~~~---~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~   83 (291)
T 3mkr_A           11 YIGSYQQCINEAQRVKPS---SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDA   83 (291)
T ss_dssp             HTTCHHHHHHHHHHSCCC---SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHH
T ss_pred             HHHHHHHHHHHHHhcccC---CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHH
Confidence            468999999998887443   6644 34667788999999999999986644    245677888889999999999999


Q ss_pred             HHHHHHHHHhcCCccCc-cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHH
Q 048737           83 TVQLWDIMVGIGFNLMP-NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHE  161 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (274)
                      |.+.++++...+  ..| +...+..+..++.+.|++++|++.+++      +.+...+..++..+.+.|++++|.+.+++
T Consensus        84 A~~~l~~ll~~~--~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~  155 (291)
T 3mkr_A           84 IVAELDREMSRS--VDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKK  155 (291)
T ss_dssp             HHHHHHHHHHSC--CCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhcc--cCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999998765  334 566677778999999999999999987      35788999999999999999999999999


Q ss_pred             HHhCCCCCCcchH---HHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCc
Q 048737          162 MIKNEWQPTPLNC---ATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRIL  238 (274)
Q Consensus       162 ~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  238 (274)
                      +.+..  |+....   ..++..+...|++++|..+|+++.+.. +.+...++.+..++.+.|++++|...|++..+.. +
T Consensus       156 ~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p  231 (291)
T 3mkr_A          156 MQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-S  231 (291)
T ss_dssp             HHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            98853  664322   123344455689999999999999874 4678899999999999999999999999998764 3


Q ss_pred             cCHHHHHHHHHHHHhcChh---HHHHHHHHHHH
Q 048737          239 IYDVTMQKLKKAFYNESRS---MRDRFDSLERR  268 (274)
Q Consensus       239 ~~~~~~~~l~~~~~~~g~~---a~~~~~~~~~~  268 (274)
                      -+..++..++..+...|+.   +.++++++++.
T Consensus       232 ~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          232 GHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            3778888999999988876   45677776654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.84  E-value=7.5e-19  Score=140.82  Aligned_cols=235  Identities=10%  Similarity=-0.024  Sum_probs=195.8

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      +...|..+...+.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|...|+++.+..   +.+..++..+
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~l  139 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ---PNNLKALMAL  139 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC---CCCHHHHHHH
Confidence            34458899999999999999999999999863 5578899999999999999999999999999975   5678899999


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCC-hh----------hHHHHHHHHHhcCCHhHHHHHHHHHHhCCCC-CCcchHH
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAFPD-SL----------TYNMIFECLIKNKKVHEVENFFHEMIKNEWQ-PTPLNCA  175 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~----------~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~  175 (274)
                      ..+|...|++++|...|+++.+..  |+ ..          .+..+...+...|++++|..+++++.+..-. ++..++.
T Consensus       140 ~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~  217 (365)
T 4eqf_A          140 AVSYTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQT  217 (365)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHH
T ss_pred             HHHHHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHH
Confidence            999999999999999999998753  32 22          2334578899999999999999999886411 1577899


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcC
Q 048737          176 TAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNES  255 (274)
Q Consensus       176 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g  255 (274)
                      .+...+...|++++|...+++..+... .+..+|..+..+|...|++++|...|++..+.. +.+..++..+..+|...|
T Consensus       218 ~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  295 (365)
T 4eqf_A          218 GLGVLFHLSGEFNRAIDAFNAALTVRP-EDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLG  295 (365)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCC
Confidence            999999999999999999999998653 567899999999999999999999999998863 335788999999999999


Q ss_pred             hh--HHHHHHHHHHHhh
Q 048737          256 RS--MRDRFDSLERRWK  270 (274)
Q Consensus       256 ~~--a~~~~~~~~~~~~  270 (274)
                      +.  |.+.++++++...
T Consensus       296 ~~~~A~~~~~~al~~~~  312 (365)
T 4eqf_A          296 AYREAVSNFLTALSLQR  312 (365)
T ss_dssp             CCHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCc
Confidence            88  9999999887653

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.84  E-value=2.2e-18  Score=143.93  Aligned_cols=259  Identities=12%  Similarity=0.038  Sum_probs=219.9

Q ss_pred             ccccchHHHHHHHHHHHh-----c--cCC----CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHH
Q 048737            3 EKEGNVVEANKTFGEMVE-----R--FEW----NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNAL   71 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~-----~--~~~----~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   71 (274)
                      .+.|++++|+..|+++..     .  ..-    .|.+..+|..+...+...|++++|+..|+++.+..  |+...+..+.
T Consensus       200 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~  277 (514)
T 2gw1_A          200 RSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMA  277 (514)
T ss_dssp             CCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHH
T ss_pred             hhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHH
Confidence            358999999999999876     1  000    15567889999999999999999999999998854  4488899999


Q ss_pred             HHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 048737           72 DILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKK  151 (274)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  151 (274)
                      .++...|+++.|...++++.+..   +.+..++..+..++...|++++|...|++..+... .+..++..+...+...|+
T Consensus       278 ~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~  353 (514)
T 2gw1_A          278 LIMADRNDSTEYYNYFDKALKLD---SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDP-ENIFPYIQLACLAYRENK  353 (514)
T ss_dssp             HHHHTSSCCTTGGGHHHHHHTTC---TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCS-SCSHHHHHHHHHTTTTTC
T ss_pred             HHHHHCCCHHHHHHHHHHHhhcC---cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCh-hhHHHHHHHHHHHHHcCC
Confidence            99999999999999999999875   56788899999999999999999999999988643 367889999999999999


Q ss_pred             HhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-cc----HHHHHHHHHHHHh---cCCcc
Q 048737          152 VHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGIL-PL----EASANVLLVGLRN---LGRLS  223 (274)
Q Consensus       152 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~---~g~~~  223 (274)
                      +++|...++++.+.. +.+...+..+...+...|++++|...++++.+.... ++    ...+..+...+..   .|+++
T Consensus       354 ~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  432 (514)
T 2gw1_A          354 FDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFI  432 (514)
T ss_dssp             HHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHH
T ss_pred             HHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHH
Confidence            999999999998753 345678899999999999999999999998874311 21    3488899999999   99999


Q ss_pred             hHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          224 DVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       224 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      +|...+++..+.. +.+..++..+...+...|+.  |.+.++++++..
T Consensus       433 ~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  479 (514)
T 2gw1_A          433 EATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESADLA  479 (514)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhc
Confidence            9999999998764 34677888999999999988  999998887754

>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=5.1e-18  Score=142.63  Aligned_cols=257  Identities=12%  Similarity=0.065  Sum_probs=198.3

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|++++|++.|+++...   .|.++.+|..+..++.+.|++++|++.|+++.+.+ +.+..++..+..++...|+++
T Consensus        35 ~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~  110 (537)
T 3fp2_A           35 FFTAKNFNEAIKYYQYAIEL---DPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFT  110 (537)
T ss_dssp             HHHTTCCC-CHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhccHHHHHHHHHHHHhh---CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHH
Confidence            45678888888888888765   67788888888888888888888888888887753 445777777888888888887


Q ss_pred             hHHHHHHHH-----------------------------------------------------------------------
Q 048737           82 HTVQLWDIM-----------------------------------------------------------------------   90 (274)
Q Consensus        82 ~a~~~~~~~-----------------------------------------------------------------------   90 (274)
                      +|...|+.+                                                                       
T Consensus       111 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  190 (537)
T 3fp2_A          111 DAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYD  190 (537)
T ss_dssp             HHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSC
T ss_pred             HHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccc
Confidence            777766422                                                                       


Q ss_pred             --------------------------------------HhcCCccCcc-------HHhHHHHHHHHHhcCChhhHHHHHH
Q 048737           91 --------------------------------------VGIGFNLMPN-------LIMYNAVVGLLCNNNDVDNVFRFFD  125 (274)
Q Consensus        91 --------------------------------------~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~  125 (274)
                                                            .+..   +.+       ..++..+...+...|++++|...|+
T Consensus       191 ~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~---p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~  267 (537)
T 3fp2_A          191 TAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN---TVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQ  267 (537)
T ss_dssp             SSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC---CCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHH
Confidence                                                  2211   111       2245566677778888999999999


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCcc
Q 048737          126 QMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPL  205 (274)
Q Consensus       126 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  205 (274)
                      +..+.  .|+..++..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...+++..+... .+
T Consensus       268 ~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~  343 (537)
T 3fp2_A          268 ESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNP-EN  343 (537)
T ss_dssp             HHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TC
T ss_pred             HHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC-CC
Confidence            88875  4567788888888889999999999999888754 34567888888999999999999999999887653 34


Q ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          206 EASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       206 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      ...+..+...|...|++++|...++++.+.. +.+...+..+...+...|+.  |.+.++++++...
T Consensus       344 ~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~  409 (537)
T 3fp2_A          344 VYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEE  409 (537)
T ss_dssp             SHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCC
Confidence            5778888899999999999999999988764 33566788888899999988  8888888877653

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.82  E-value=2.7e-18  Score=127.69  Aligned_cols=200  Identities=12%  Similarity=-0.050  Sum_probs=161.2

Q ss_pred             CchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHH
Q 048737           26 PEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYN  105 (274)
Q Consensus        26 p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  105 (274)
                      |+++..+..+...+.+.|++++|+..|++..+.. +.+...+..+..++.+.|++++|...+++..+..   |.+...+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~---P~~~~a~~   77 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART---PRYLGGYM   77 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCcHHHHH
Confidence            4477889999999999999999999999998864 5568889999999999999999999999999976   56788899


Q ss_pred             HHHHHHHhc-----------CChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchH
Q 048737          106 AVVGLLCNN-----------NDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNC  174 (274)
Q Consensus       106 ~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  174 (274)
                      .+..++.+.           |++++|+..|++..+..+ -+...|..+...+...|++++|+..|++..+..  .+...+
T Consensus        78 ~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~  154 (217)
T 2pl2_A           78 VLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNP-RYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIR  154 (217)
T ss_dssp             HHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHH
T ss_pred             HHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHH
Confidence            999999999           999999999999988632 257888899999999999999999999998876  677888


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 048737          175 ATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEML  233 (274)
Q Consensus       175 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  233 (274)
                      ..+..++...|++++|...|++..+... .+...+..+...+...|++++|...+++..
T Consensus       155 ~~la~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          155 SALAELYLSMGRLDEALAQYAKALEQAP-KDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            9999999999999999999999988653 456788888999999999999999888764

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.81  E-value=3.4e-17  Score=121.82  Aligned_cols=215  Identities=11%  Similarity=0.075  Sum_probs=181.8

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhH
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMY  104 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  104 (274)
                      .|.++..|..+...+...|++++|++.|+++.+.. +.+...+..+...+...|++++|...++++.+..   +.+..++
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~   79 (225)
T 2vq2_A            4 ANQVSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK---PDSAEIN   79 (225)
T ss_dssp             CCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHH
T ss_pred             CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC---CCChHHH
Confidence            56688899999999999999999999999998753 4568889999999999999999999999999875   5678889


Q ss_pred             HHHHHHHHhc-CChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHH
Q 048737          105 NAVVGLLCNN-NDVDNVFRFFDQMVFHGAFPD-SLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLL  182 (274)
Q Consensus       105 ~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  182 (274)
                      ..+...+... |++++|...++++.+.+..|+ ...+..+...+...|++++|...++++.+.. +.+...+..+...+.
T Consensus        80 ~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~  158 (225)
T 2vq2_A           80 NNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKM  158 (225)
T ss_dssp             HHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHH
Confidence            9999999999 999999999999988333333 6788899999999999999999999998753 334678889999999


Q ss_pred             hcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHH
Q 048737          183 DADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQK  246 (274)
Q Consensus       183 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  246 (274)
                      ..|++++|...+++..+.....+...+..+...+...|+.+++..+++.+.+.  .|+......
T Consensus       159 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~  220 (225)
T 2vq2_A          159 LAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEELQT  220 (225)
T ss_dssp             HHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHH
Confidence            99999999999999988653246677788888889999999999999998765  344444433

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.81  E-value=4.6e-17  Score=136.80  Aligned_cols=253  Identities=12%  Similarity=0.006  Sum_probs=209.8

Q ss_pred             cchHHHHHHHHHHHhccCCCCchHh-------HHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCC
Q 048737            6 GNVVEANKTFGEMVERFEWNPEHVL-------AYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLN   78 (274)
Q Consensus         6 g~~~~a~~~~~~~~~~~~~~p~~~~-------~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   78 (274)
                      |++++|..+|+++.+.   .|++..       +|..+...+...|++++|+..|++..+.  .|+...+..+...+...|
T Consensus       216 ~~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~  290 (537)
T 3fp2_A          216 DLLTKSTDMYHSLLSA---NTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKE  290 (537)
T ss_dssp             HHHHHHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSS
T ss_pred             HHHHHHHHHHHHHHHH---CCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhc
Confidence            5899999999999765   675543       5667778888999999999999999885  466888999999999999


Q ss_pred             ChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHH
Q 048737           79 DSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENF  158 (274)
Q Consensus        79 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  158 (274)
                      +++.|...++++.+..   +.+..++..+..++...|++++|...|++..+... .+...|..+...+...|++++|...
T Consensus       291 ~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~  366 (537)
T 3fp2_A          291 NSQEFFKFFQKAVDLN---PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNP-ENVYPYIQLACLLYKQGKFTESEAF  366 (537)
T ss_dssp             CCHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCSHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CHHHHHHHHHHHhccC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999999875   56788899999999999999999999999988642 3578899999999999999999999


Q ss_pred             HHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCC-----CccHHHHHHHHHHHHhc----------CCcc
Q 048737          159 FHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGI-----LPLEASANVLLVGLRNL----------GRLS  223 (274)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~----------g~~~  223 (274)
                      ++++.+.. +.+...+..+...+...|++++|...++++.+...     ......+......+...          |+++
T Consensus       367 ~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  445 (537)
T 3fp2_A          367 FNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFN  445 (537)
T ss_dssp             HHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHH
T ss_pred             HHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHH
Confidence            99998764 34567889999999999999999999999876431     11122244455667777          9999


Q ss_pred             hHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          224 DVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       224 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      +|...|++..+.. +.+...+..+...+...|+.  |.+.++++++..
T Consensus       446 ~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          446 AAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            9999999998864 34678899999999999988  999998887754

>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=99.80  E-value=4e-17  Score=123.86  Aligned_cols=205  Identities=10%  Similarity=0.080  Sum_probs=175.9

Q ss_pred             CCch-HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHh
Q 048737           25 NPEH-VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIM  103 (274)
Q Consensus        25 ~p~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  103 (274)
                      .|.+ +..|..+...+...|++++|++.|+++.+.. +.+...+..+...+...|++++|.+.++++.+..   +.+...
T Consensus        32 ~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~  107 (252)
T 2ho1_A           32 GRDEARDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD---SRNARV  107 (252)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHH
T ss_pred             chHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---cCcHHH
Confidence            4544 6788999999999999999999999998753 4567888999999999999999999999999875   557888


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHH
Q 048737          104 YNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP-DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLL  182 (274)
Q Consensus       104 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  182 (274)
                      +..+...|...|++++|.+.++++.+.+..| +...+..+...+...|++++|...+++..+.. +.+...+..+...+.
T Consensus       108 ~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~  186 (252)
T 2ho1_A          108 LNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLY  186 (252)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHH
Confidence            9999999999999999999999998733344 46778888999999999999999999988754 335678889999999


Q ss_pred             hcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          183 DADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       183 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      ..|++++|...++++.+... .+...+..+...+...|++++|.+.++++.+.
T Consensus       187 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          187 KEREYVPARQYYDLFAQGGG-QNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HTTCHHHHHHHHHHHHTTSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            99999999999999887543 56677888889999999999999999999876

>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=99.80  E-value=5.3e-18  Score=133.41  Aligned_cols=223  Identities=10%  Similarity=-0.004  Sum_probs=186.1

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHH-----------
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNA-----------   70 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-----------   70 (274)
                      |.+.|++++|.+.|+++.+.   .|.+..++..+...+...|++++|++.++++.+.. +.+...+..+           
T Consensus        65 ~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  140 (327)
T 3cv0_A           65 QAENEKDGLAIIALNHARML---DPKDIAVHAALAVSHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLN  140 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTTTC---------------
T ss_pred             HHHcCCHHHHHHHHHHHHhc---CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHH
Confidence            45789999999999999876   78788999999999999999999999999998753 2223333332           


Q ss_pred             ---HH-HHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048737           71 ---LD-ILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECL  146 (274)
Q Consensus        71 ---~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  146 (274)
                         .. .+...|++++|...++++.+..   +.+..++..+...+.+.|++++|...++++.+.. +.+..++..+...+
T Consensus       141 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  216 (327)
T 3cv0_A          141 VQSEDFFFAAPNEYRECRTLLHAALEMN---PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATL  216 (327)
T ss_dssp             -----CCTTSHHHHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHhHHHHHcccHHHHHHHHHHHHhhC---CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence               22 3677889999999999999875   5678899999999999999999999999998763 33578899999999


Q ss_pred             HhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCc-----------cHHHHHHHHHH
Q 048737          147 IKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILP-----------LEASANVLLVG  215 (274)
Q Consensus       147 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~  215 (274)
                      ...|++++|...++++.+.. +.+...+..+..++...|++++|...+++..+.....           +...|..+..+
T Consensus       217 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  295 (327)
T 3cv0_A          217 ANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRML  295 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHH
Confidence            99999999999999998753 3456788999999999999999999999998754322           57889999999


Q ss_pred             HHhcCCcchHHHHHHHHH
Q 048737          216 LRNLGRLSDVRRFAEEML  233 (274)
Q Consensus       216 ~~~~g~~~~a~~~~~~m~  233 (274)
                      +...|++++|..++++..
T Consensus       296 ~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          296 LNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             HHHTTCHHHHHHHTTCCS
T ss_pred             HHhcCCHHHHHHHHHHHH
Confidence            999999999999887543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.80  E-value=3.1e-17  Score=124.64  Aligned_cols=226  Identities=7%  Similarity=0.035  Sum_probs=103.1

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCcc----HHhH
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPN----LIMY  104 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~  104 (274)
                      ...|..+...+...|++++|+..|++..+..  .+...+..+..++...|++++|...++++.+...+..++    ..++
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            3444455555555555555555555554443  444455555555555555555555555554432000000    3444


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc
Q 048737          105 NAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDA  184 (274)
Q Consensus       105 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  184 (274)
                      ..+..++...|++++|...|++..+.  .|+.       ..+...|++++|...++++.... +.+...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHh
Confidence            55555555555555555555555442  2221       22333344455555555444421 11233444444444555


Q ss_pred             CChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHH
Q 048737          185 DEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRF  262 (274)
Q Consensus       185 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~  262 (274)
                      |++++|...+++..+... .+..++..+...|...|++++|...+++..+.. +.+...+..+..++...|+.  |.+.+
T Consensus       153 ~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  230 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETL  230 (258)
T ss_dssp             TCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            555555555555444321 233444444455555555555555555544432 12344444444455555444  44444


Q ss_pred             HHHHHH
Q 048737          263 DSLERR  268 (274)
Q Consensus       263 ~~~~~~  268 (274)
                      +++++.
T Consensus       231 ~~a~~~  236 (258)
T 3uq3_A          231 DAARTK  236 (258)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            444433

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.79  E-value=6.2e-17  Score=124.21  Aligned_cols=227  Identities=12%  Similarity=0.068  Sum_probs=184.0

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCC--CHHHHHHHHHHHHhCCC
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFP--TLKFFSNALDILVKLND   79 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~   79 (274)
                      |.+.|++++|++.|++..+.   .|.+..+|..+...+...|++++|++.+++..+.+..|  ....|..+...+...|+
T Consensus        13 ~~~~~~~~~A~~~~~~~l~~---~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~   89 (272)
T 3u4t_A           13 LFKNNNYAEAIEVFNKLEAK---KYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQ   89 (272)
T ss_dssp             HHTTTCHHHHHHHHHHHHHT---TCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTC
T ss_pred             HHHhcCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHccc
Confidence            45789999999999999776   78778899999999999999999999999998843222  23458889999999999


Q ss_pred             hhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHH
Q 048737           80 STHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFF  159 (274)
Q Consensus        80 ~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  159 (274)
                      +++|...|+++.+..   +.+..++..+..+|...|++++|...|++..+.. +.+...|..+...+...+++++|...+
T Consensus        90 ~~~A~~~~~~a~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  165 (272)
T 3u4t_A           90 DSLAIQQYQAAVDRD---TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSF  165 (272)
T ss_dssp             HHHHHHHHHHHHHHS---TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC---cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999875   5567889999999999999999999999998762 335677777773444556999999999


Q ss_pred             HHHHhCCCCCCcchHHHHHHHHHhcCC---hHHHHHHHHHHHHCC-CCcc------HHHHHHHHHHHHhcCCcchHHHHH
Q 048737          160 HEMIKNEWQPTPLNCATAITMLLDADE---PEFAIEIWNYILENG-ILPL------EASANVLLVGLRNLGRLSDVRRFA  229 (274)
Q Consensus       160 ~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~------~~~~~~l~~~~~~~g~~~~a~~~~  229 (274)
                      ++..+.. +.+...+..+..++...|+   ++.|...+++..+.. -.|+      ..+|..+...|...|++++|...|
T Consensus       166 ~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  244 (272)
T 3u4t_A          166 VKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAW  244 (272)
T ss_dssp             HHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9998753 2335677778888888888   888999988887632 1233      257788888999999999999999


Q ss_pred             HHHHhCC
Q 048737          230 EEMLNRR  236 (274)
Q Consensus       230 ~~m~~~~  236 (274)
                      ++..+..
T Consensus       245 ~~al~~~  251 (272)
T 3u4t_A          245 KNILALD  251 (272)
T ss_dssp             HHHHHHC
T ss_pred             HHHHhcC
Confidence            9998764

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.79  E-value=1.4e-16  Score=123.66  Aligned_cols=216  Identities=13%  Similarity=0.081  Sum_probs=177.6

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCC-CHHHHHHHHHHHHhCCCh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFP-TLKFFSNALDILVKLNDS   80 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~   80 (274)
                      |...|+++.|+..++.   .   .|++..++..+...+...++.++|++.++++...+..| +...+..+...+...|++
T Consensus        44 yi~~g~~~~al~~~~~---~---~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~  117 (291)
T 3mkr_A           44 YLAQRKYGVVLDEIKP---S---SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNP  117 (291)
T ss_dssp             HHHTTCHHHHHHHSCT---T---SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCH
T ss_pred             HHHCCCHHHHHHHhcc---c---CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCH
Confidence            5667888888876643   1   44488899999999999999999999999998876545 566677777999999999


Q ss_pred             hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhH---HHHHHHHHhcCCHhHHHH
Q 048737           81 THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTY---NMIFECLIKNKKVHEVEN  157 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~li~~~~~~~~~~~a~~  157 (274)
                      ++|.+.+++        +.+...+..+..++.+.|++++|.+.|+++.+..  |+....   ...+..+...|++++|..
T Consensus       118 ~~Al~~l~~--------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~  187 (291)
T 3mkr_A          118 DAALRTLHQ--------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYY  187 (291)
T ss_dssp             HHHHHHHTT--------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHH
T ss_pred             HHHHHHHhC--------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHH
Confidence            999999987        2467789999999999999999999999998863  553222   123344445689999999


Q ss_pred             HHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcch-HHHHHHHHHhC
Q 048737          158 FFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSD-VRRFAEEMLNR  235 (274)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~m~~~  235 (274)
                      +|+++.+.. +.+...++.+..++.+.|++++|...+++..+... -+..++..++..+...|+.++ +.++++++.+.
T Consensus       188 ~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p-~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          188 IFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDS-GHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             HHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            999999863 56778899999999999999999999999998653 567789999999999999976 57899998876

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.79  E-value=8e-17  Score=123.66  Aligned_cols=243  Identities=7%  Similarity=-0.084  Sum_probs=193.2

Q ss_pred             ccccchHHHHHHHHHHHhccCC-CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            3 EKEGNVVEANKTFGEMVERFEW-NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~-~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      ...|++++|++.|+++.+.... .|.+..+|..+...+...|++++|+..|+++.+.. +.+..++..+...+...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            4568999999999999874111 24568889999999999999999999999998863 456889999999999999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHE  161 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (274)
                      +|...|+++.+..   +.+..++..+..+|.+.|++++|...|+++.+.  .|+.......+..+...|++++|...+.+
T Consensus        95 ~A~~~~~~al~~~---~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  169 (275)
T 1xnf_A           95 AAYEAFDSVLELD---PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQ  169 (275)
T ss_dssp             HHHHHHHHHHHHC---TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC---ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            9999999999975   557889999999999999999999999999885  45555555555666778999999999988


Q ss_pred             HHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCc---cHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCc
Q 048737          162 MIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILP---LEASANVLLVGLRNLGRLSDVRRFAEEMLNRRIL  238 (274)
Q Consensus       162 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  238 (274)
                      ..... +++... ..++..+...++.++|...+.+..+.....   +..++..+...|...|++++|...|++..+..  
T Consensus       170 ~~~~~-~~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--  245 (275)
T 1xnf_A          170 HFEKS-DKEQWG-WNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--  245 (275)
T ss_dssp             HHHHS-CCCSTH-HHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--
T ss_pred             HHhcC-CcchHH-HHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--
Confidence            87653 334444 447777888889999999998887643211   25788889999999999999999999998864  


Q ss_pred             cCHHHHHHHHHHHHhcChh
Q 048737          239 IYDVTMQKLKKAFYNESRS  257 (274)
Q Consensus       239 ~~~~~~~~l~~~~~~~g~~  257 (274)
                      |+.  +.....++...|+.
T Consensus       246 p~~--~~~~~~~~~~l~~~  262 (275)
T 1xnf_A          246 VHN--FVEHRYALLELSLL  262 (275)
T ss_dssp             CTT--CHHHHHHHHHHHHH
T ss_pred             chh--HHHHHHHHHHHHHH
Confidence            422  22224455555555

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.79  E-value=1.2e-17  Score=124.25  Aligned_cols=187  Identities=11%  Similarity=-0.032  Sum_probs=154.5

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhC----
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKL----   77 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----   77 (274)
                      +.+.|++++|+..|++..+.   .|+++.+|..+...+.+.|++++|+..|++..+.. +.+...+..+..++...    
T Consensus        15 ~~~~g~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~   90 (217)
T 2pl2_A           15 LYALGRYDAALTLFERALKE---NPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEAYVALYRQA   90 (217)
T ss_dssp             HHHTTCHHHHHHHHHHHHTT---SSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHTC
T ss_pred             HHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhhhhh
Confidence            45789999999999999765   89899999999999999999999999999998864 45678889999999999    


Q ss_pred             -------CChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC
Q 048737           78 -------NDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNK  150 (274)
Q Consensus        78 -------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  150 (274)
                             |++++|...+++..+..   |.+...+..+..++...|++++|+..|++..+..  .+...+..+..+|...|
T Consensus        91 ~~~~~~~g~~~~A~~~~~~al~~~---P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g  165 (217)
T 2pl2_A           91 EDRERGKGYLEQALSVLKDAERVN---PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMG  165 (217)
T ss_dssp             SSHHHHHHHHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHT
T ss_pred             hhhcccccCHHHHHHHHHHHHHhC---cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcC
Confidence                   99999999999999975   5568889999999999999999999999999876  68899999999999999


Q ss_pred             CHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHH
Q 048737          151 KVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYIL  198 (274)
Q Consensus       151 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  198 (274)
                      ++++|...|++..+.. +.+...+..+...+...|++++|...+++..
T Consensus       166 ~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          166 RLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             CHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            9999999999998853 3356788889999999999999999987654

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.78  E-value=3.9e-17  Score=124.08  Aligned_cols=216  Identities=10%  Similarity=0.026  Sum_probs=184.7

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCC--CCCC----HHHHHHHHHHHH
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGEN--CFPT----LKFFSNALDILV   75 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~l~~~~~   75 (274)
                      |.+.|++++|++.|++..+. .  + ++.+|..+...+...|++++|++.+++..+..  ..++    ..++..+...+.
T Consensus        15 ~~~~~~~~~A~~~~~~a~~~-~--~-~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~   90 (258)
T 3uq3_A           15 FYKARQFDEAIEHYNKAWEL-H--K-DITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYH   90 (258)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH-S--C-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh-h--c-cHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHH
Confidence            45689999999999999886 4  3 78899999999999999999999999988742  1122    578889999999


Q ss_pred             hCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHH
Q 048737           76 KLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEV  155 (274)
Q Consensus        76 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  155 (274)
                      ..|++++|...|+++.+..    |+.       ..+.+.|++++|...++++.... +.+...+..+...+...|++++|
T Consensus        91 ~~~~~~~A~~~~~~a~~~~----~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A  158 (258)
T 3uq3_A           91 KLGDLKKTIEYYQKSLTEH----RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWPNA  158 (258)
T ss_dssp             HTTCHHHHHHHHHHHHHHC----CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HcccHHHHHHHHHHHHhcC----chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHHHH
Confidence            9999999999999999854    553       35667788999999999998853 23567888999999999999999


Q ss_pred             HHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          156 ENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      ...+++..+.. +.+...+..+..++...|++++|...+++..+... .+...+..+...+...|++++|...+++..+.
T Consensus       159 ~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          159 VKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP-NFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCH-HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            99999998754 34577899999999999999999999999998653 45788999999999999999999999998765

>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=2.8e-15  Score=115.25  Aligned_cols=221  Identities=5%  Similarity=-0.028  Sum_probs=111.2

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh----CCChhhHHHHHHHHHhcCCccCccHHh
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVK----LNDSTHTVQLWDIMVGIGFNLMPNLIM  103 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  103 (274)
                      ++.++..+...+...|++++|++.|++..+.   .+...+..+...+..    .+++++|...|++..+.+     +...
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~-----~~~a   76 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN-----YSNG   76 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-----CHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC-----CHHH
Confidence            4445555555555555555555555555542   233444455555555    555555555555555443     3444


Q ss_pred             HHHHHHHHHh----cCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCCHhHHHHHHHHHHhCCCCCCcchHH
Q 048737          104 YNAVVGLLCN----NNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK----NKKVHEVENFFHEMIKNEWQPTPLNCA  175 (274)
Q Consensus       104 ~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  175 (274)
                      +..+...|..    .+++++|...|++..+.+   +..++..+...|..    .+++++|...|++..+.+   +...+.
T Consensus        77 ~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~  150 (273)
T 1ouv_A           77 CHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCT  150 (273)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHH
Confidence            5555555555    555555555555555432   44455555555555    555555555555555433   333444


Q ss_pred             HHHHHHHh----cCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHh----cCCcchHHHHHHHHHhCCCccCHHHHHHH
Q 048737          176 TAITMLLD----ADEPEFAIEIWNYILENGILPLEASANVLLVGLRN----LGRLSDVRRFAEEMLNRRILIYDVTMQKL  247 (274)
Q Consensus       176 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  247 (274)
                      .+...|..    .+++++|...+++..+.+   +...+..+...|..    .+++++|...|++..+.+.   ...+..+
T Consensus       151 ~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~---~~a~~~l  224 (273)
T 1ouv_A          151 ILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN---GGGCFNL  224 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC---HHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC---HHHHHHH
Confidence            44455544    555555555555555443   12344444555555    5555555555555554431   3344444


Q ss_pred             HHHHHh----cChh--HHHHHHHHHHH
Q 048737          248 KKAFYN----ESRS--MRDRFDSLERR  268 (274)
Q Consensus       248 ~~~~~~----~g~~--a~~~~~~~~~~  268 (274)
                      ...+..    .++.  |.+.+++..+.
T Consensus       225 ~~~~~~g~~~~~~~~~A~~~~~~a~~~  251 (273)
T 1ouv_A          225 GAMQYNGEGVTRNEKQAIENFKKGCKL  251 (273)
T ss_dssp             HHHHHTTSSSSCCSTTHHHHHHHHHHH
T ss_pred             HHHHHcCCCcccCHHHHHHHHHHHHHc
Confidence            444444    4443  55555554443

>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=99.77  E-value=2.6e-16  Score=126.30  Aligned_cols=222  Identities=11%  Similarity=0.092  Sum_probs=151.4

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCc-HHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQ-VDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      .+.|++++|++.|++....   .|.+..+|+.+..++...|+ +++|+..|++.++.. +-+...|..+..++...|+++
T Consensus       108 ~~~g~~~~Al~~~~~al~l---~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~~~~g~~~  183 (382)
T 2h6f_A          108 QRDERSERAFKLTRDAIEL---NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLRDPS  183 (382)
T ss_dssp             HHTCCCHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCT
T ss_pred             HHCCChHHHHHHHHHHHHh---CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHccCHH
Confidence            3457777777777777665   77777777777777777775 777777777777643 335667777777777777777


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh-cCCHhHH-----
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK-NKKVHEV-----  155 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~~~~~~a-----  155 (274)
                      +|...|+++++..   +.+...|..+..++.+.|++++|+..|+++++... -+...|+.+..++.. .|..++|     
T Consensus       184 eAl~~~~kal~ld---P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~~eA~~~~e  259 (382)
T 2h6f_A          184 QELEFIADILNQD---AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDRAVLERE  259 (382)
T ss_dssp             THHHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSHHHHHHH
T ss_pred             HHHHHHHHHHHhC---ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcchHHHHHHH
Confidence            7877777777765   55677777777777777777777777777777532 256777777777777 4554666     


Q ss_pred             HHHHHHHHhCCCCCCcchHHHHHHHHHhcC--ChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcC---------Ccch
Q 048737          156 ENFFHEMIKNEWQPTPLNCATAITMLLDAD--EPEFAIEIWNYILENGILPLEASANVLLVGLRNLG---------RLSD  224 (274)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---------~~~~  224 (274)
                      +..+++.++.. +-+...|..+...+...|  ++++|.+.+.++ +.. +.+...+..+...|.+.|         ..++
T Consensus       260 l~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~~~~~~~~~  336 (382)
T 2h6f_A          260 VQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCDNKEDILNK  336 (382)
T ss_dssp             HHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCSSHHHHHHH
T ss_pred             HHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcccccchHHHHHH
Confidence            46676666632 223456666676677666  577777777766 322 344566667777776653         2467


Q ss_pred             HHHHHHHH-HhC
Q 048737          225 VRRFAEEM-LNR  235 (274)
Q Consensus       225 a~~~~~~m-~~~  235 (274)
                      |.++|+++ .+.
T Consensus       337 A~~~~~~l~~~~  348 (382)
T 2h6f_A          337 ALELCEILAKEK  348 (382)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            77777777 443

>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=99.77  E-value=2.7e-16  Score=119.30  Aligned_cols=193  Identities=8%  Similarity=0.002  Sum_probs=168.1

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |...|++++|.+.|+++.+.   .|.+..+|..+...+...|++++|++.++++.+.. +.+...+..+...+...|+++
T Consensus        47 ~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~  122 (252)
T 2ho1_A           47 YLQRGNTEQAKVPLRKALEI---DPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLYEQKRYE  122 (252)
T ss_dssp             HHHTTCTGGGHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcCChHHHHHHHHHHHhc---CCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHHhHHH
Confidence            45679999999999999876   67788899999999999999999999999998753 456888999999999999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHE  161 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (274)
                      +|..+++++.+.+ ..+.+...+..+..++...|++++|...|++..+.. +.+...+..+...+...|++++|...+++
T Consensus       123 ~A~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~  200 (252)
T 2ho1_A          123 EAYQRLLEASQDT-LYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYDL  200 (252)
T ss_dssp             HHHHHHHHHTTCT-TCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCc-cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9999999998832 024467889999999999999999999999998864 23588899999999999999999999999


Q ss_pred             HHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 048737          162 MIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENG  201 (274)
Q Consensus       162 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  201 (274)
                      +.+.. +.+...+..+...+...|++++|.+.++++.+..
T Consensus       201 ~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          201 FAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            98753 3456778888999999999999999999998864

>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=1.4e-18  Score=138.95  Aligned_cols=217  Identities=8%  Similarity=0.044  Sum_probs=67.3

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhH
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHT   83 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   83 (274)
                      +.|++++|.+.++++.        ++.+|..|+.++.+.|++++|++.|.+      .+|..+|..++..+...|++++|
T Consensus        15 ~~~~ld~A~~fae~~~--------~~~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeA   80 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN--------EPAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEEL   80 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC--------ChHHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHH
Confidence            4567788888887772        224788888888888888888888854      25677888888888888888888


Q ss_pred             HHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737           84 VQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      .++++..++.    .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|++++|..+|..+ 
T Consensus        81 i~yl~~ark~----~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-  148 (449)
T 1b89_A           81 VKYLQMARKK----ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-  148 (449)
T ss_dssp             --------------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-
T ss_pred             HHHHHHHHHh----CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-
Confidence            8877766653    3446677777788888888777776664       256667777777777777777777777755 


Q ss_pred             hCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHH
Q 048737          164 KNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVT  243 (274)
Q Consensus       164 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  243 (274)
                              ..|..++.++.+.|+++.|.+.+.++      .++.+|..++.+|...|+++.|......     +...+.-
T Consensus       149 --------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~  209 (449)
T 1b89_A          149 --------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADE  209 (449)
T ss_dssp             --------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHH
T ss_pred             --------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhh
Confidence                    36777777777777777777777766      2456777777777777777776443332     2222233


Q ss_pred             HHHHHHHHHhcChh--HHHHHHHH
Q 048737          244 MQKLKKAFYNESRS--MRDRFDSL  265 (274)
Q Consensus       244 ~~~l~~~~~~~g~~--a~~~~~~~  265 (274)
                      ...++..|.+.|..  +..+++..
T Consensus       210 l~~lv~~Yek~G~~eEai~lLe~a  233 (449)
T 1b89_A          210 LEELINYYQDRGYFEELITMLEAA  233 (449)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHH
Confidence            44566666666665  44444443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.77  E-value=6.7e-17  Score=121.79  Aligned_cols=202  Identities=8%  Similarity=0.033  Sum_probs=159.0

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      .+..|..+...+...|++++|+..|+++.+.. +.+...+..+...+...|++++|...++++.+..   +.+..++..+
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~l   97 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD---SSAATAYYGA   97 (243)
T ss_dssp             --------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC---CcchHHHHHH
Confidence            56678889999999999999999999998753 5568888999999999999999999999999875   5678889999


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCh
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEP  187 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  187 (274)
                      ...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++
T Consensus        98 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  175 (243)
T 2q7f_A           98 GNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGML  175 (243)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCH
Confidence            999999999999999999998764 3467889999999999999999999999988753 34567888899999999999


Q ss_pred             HHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC
Q 048737          188 EFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       188 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  236 (274)
                      ++|...+++..+... .+..++..+...|...|++++|...++++.+..
T Consensus       176 ~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          176 DEALSQFAAVTEQDP-GHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            999999999988653 457788999999999999999999999998764

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.77  E-value=1.2e-16  Score=120.37  Aligned_cols=191  Identities=15%  Similarity=0.148  Sum_probs=145.1

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      +.+.|++++|...|+++.+.   .|.+..++..+...+...|++++|++.++++.+.. +.+...+..+...+...|+++
T Consensus        33 ~~~~~~~~~A~~~~~~~l~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  108 (243)
T 2q7f_A           33 GSEFGDYEKAAEAFTKAIEE---NKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYVVKEMYK  108 (243)
T ss_dssp             ---------CCTTHHHHHTT---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHhhCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHhccHH
Confidence            45678888888888888665   67778888888888888888888888888887653 446777888888888888888


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHE  161 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (274)
                      +|...++++.+..   +.+...+..+...+.+.|++++|...++++.+.. +.+...+..+...+...|++++|...+++
T Consensus       109 ~A~~~~~~~~~~~---~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  184 (243)
T 2q7f_A          109 EAKDMFEKALRAG---MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQFAA  184 (243)
T ss_dssp             HHHHHHHHHHHHT---CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC---CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            8888888888765   5567778888888888888888888888887653 23577788888888888888888888888


Q ss_pred             HHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 048737          162 MIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENG  201 (274)
Q Consensus       162 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  201 (274)
                      +.+.. +.+..++..+..++...|++++|...++++.+..
T Consensus       185 ~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          185 VTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            87653 3346677888888888888888888888887754

>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=3.1e-15  Score=114.99  Aligned_cols=213  Identities=10%  Similarity=0.022  Sum_probs=188.0

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhc----cCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh-
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIR----GKQVDEALKFLRVMKGENCFPTLKFFSNALDILVK-   76 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-   76 (274)
                      |.+.|++++|++.|++..+.     .++.++..+...+..    .+++++|++.|++..+.+   +...+..+...+.. 
T Consensus        16 ~~~~~~~~~A~~~~~~a~~~-----~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g   87 (273)
T 1ouv_A           16 SYKEKDFTQAKKYFEKACDL-----KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSG   87 (273)
T ss_dssp             HHHTTCHHHHHHHHHHHHHT-----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHT
T ss_pred             HHhCCCHHHHHHHHHHHHHC-----CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCC
Confidence            45678999999999998763     356788889999999    999999999999999875   78889999999999 


Q ss_pred             ---CCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHh----cCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh-
Q 048737           77 ---LNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCN----NNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK-  148 (274)
Q Consensus        77 ---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-  148 (274)
                         .+++++|...|++..+.+     +...+..+...|..    .+++++|...|++..+.+   +...+..+...|.. 
T Consensus        88 ~~~~~~~~~A~~~~~~a~~~~-----~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~  159 (273)
T 1ouv_A           88 QGVSQNTNKALQYYSKACDLK-----YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAG  159 (273)
T ss_dssp             SSSCCCHHHHHHHHHHHHHTT-----CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHT
T ss_pred             CCcccCHHHHHHHHHHHHHcC-----CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcC
Confidence               999999999999999875     67788999999999    999999999999999865   66778888888888 


Q ss_pred             ---cCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHh---
Q 048737          149 ---NKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLD----ADEPEFAIEIWNYILENGILPLEASANVLLVGLRN---  218 (274)
Q Consensus       149 ---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---  218 (274)
                         .+++++|...|++..+.+   +...+..+...|..    .+++++|...+++..+.+.   ...+..+...|..   
T Consensus       160 ~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~---~~a~~~l~~~~~~g~~  233 (273)
T 1ouv_A          160 RGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN---GGGCFNLGAMQYNGEG  233 (273)
T ss_dssp             SSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHTTSS
T ss_pred             CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC---HHHHHHHHHHHHcCCC
Confidence               999999999999998864   45778889999999    9999999999999998753   5677888888988   


Q ss_pred             -cCCcchHHHHHHHHHhCC
Q 048737          219 -LGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       219 -~g~~~~a~~~~~~m~~~~  236 (274)
                       .+++++|...|++..+.|
T Consensus       234 ~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          234 VTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             SSCCSTTHHHHHHHHHHHT
T ss_pred             cccCHHHHHHHHHHHHHcC
Confidence             999999999999998875

>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=99.76  E-value=7.4e-16  Score=123.70  Aligned_cols=234  Identities=11%  Similarity=0.053  Sum_probs=197.2

Q ss_pred             CCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCC-hhhHHHHHHHHHhcCCccCccH
Q 048737           23 EWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLND-STHTVQLWDIMVGIGFNLMPNL  101 (274)
Q Consensus        23 ~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~  101 (274)
                      .+.|.+..+|..+...+...|++++|++.+++.++.. +-+...|..+..++...|+ +++|...|+++++..   +.+.
T Consensus        91 ~~~p~~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~---P~~~  166 (382)
T 2h6f_A           91 IYSDKFRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ---PKNY  166 (382)
T ss_dssp             CCCHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC---TTCH
T ss_pred             hCChhhHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC---CCCH
Confidence            4567788899999999999999999999999999853 4467889999999999997 999999999999976   6678


Q ss_pred             HhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHH
Q 048737          102 IMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITML  181 (274)
Q Consensus       102 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  181 (274)
                      ..|+.+..++.+.|++++|+..|+++++... -+...|..+..++...|++++|+..++++++.. +-+...|+.+..++
T Consensus       167 ~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP-~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l  244 (382)
T 2h6f_A          167 QVWHHRRVLVEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVI  244 (382)
T ss_dssp             HHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            9999999999999999999999999998643 368899999999999999999999999999864 33567899999999


Q ss_pred             Hh-cCChHHH-----HHHHHHHHHCCCCccHHHHHHHHHHHHhcC--CcchHHHHHHHHHhCCCccCHHHHHHHHHHHHh
Q 048737          182 LD-ADEPEFA-----IEIWNYILENGILPLEASANVLLVGLRNLG--RLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYN  253 (274)
Q Consensus       182 ~~-~~~~~~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~  253 (274)
                      .. .|..++|     +..+++..+... -+...|+.+...+...|  ++++|++.+.++ +. ...+...+..+...+.+
T Consensus       245 ~~l~~~~~eA~~~~el~~~~~Al~l~P-~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~  321 (382)
T 2h6f_A          245 SNTTGYNDRAVLEREVQYTLEMIKLVP-HNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYED  321 (382)
T ss_dssp             HHTTCSCSHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHH
T ss_pred             HHhcCcchHHHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHH
Confidence            99 6665777     488888887653 45678888888888888  689999999988 33 34567788888888888


Q ss_pred             cC--------h-h--HHHHHHHH
Q 048737          254 ES--------R-S--MRDRFDSL  265 (274)
Q Consensus       254 ~g--------~-~--a~~~~~~~  265 (274)
                      .|        + .  |.++++++
T Consensus       322 ~~~~~~~~~~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          322 MLENQCDNKEDILNKALELCEIL  344 (382)
T ss_dssp             HHHTTCSSHHHHHHHHHHHHHHH
T ss_pred             HhcccccchHHHHHHHHHHHHHH
Confidence            64        2 2  77777776

>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=8.9e-16  Score=114.11  Aligned_cols=194  Identities=9%  Similarity=-0.008  Sum_probs=166.6

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhC-CCh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKL-NDS   80 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~   80 (274)
                      |...|++++|.+.|+++.+.   .|.+..+|..+...+...|++++|.+.++++.+.. +.+..++..+...+... |++
T Consensus        18 ~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~   93 (225)
T 2vq2_A           18 YMRGQDYRQATASIEDALKS---DPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRLNRP   93 (225)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCCH
T ss_pred             HHHHhhHHHHHHHHHHHHHh---CccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCcH
Confidence            45689999999999999876   77788899999999999999999999999998753 45688899999999999 999


Q ss_pred             hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHH
Q 048737           81 THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFH  160 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (274)
                      ++|...++++.+.+ ..+.+...+..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|...++
T Consensus        94 ~~A~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~  171 (225)
T 2vq2_A           94 AESMAYFDKALADP-TYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYFK  171 (225)
T ss_dssp             HHHHHHHHHHHTST-TCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCc-CCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999832 124457889999999999999999999999998863 2358889999999999999999999999


Q ss_pred             HHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 048737          161 EMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENG  201 (274)
Q Consensus       161 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  201 (274)
                      +..+.....+...+..+...+...|+.+.|...++.+.+..
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          172 KYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            99875411456677888888899999999999999988654

>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=2.3e-15  Score=115.38  Aligned_cols=237  Identities=6%  Similarity=-0.060  Sum_probs=188.7

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHH
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVV  108 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~  108 (274)
                      +..+......+...|++++|+..|++..+.. +.+...+..+..++...|++++|...++++.+...+.......|..+.
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            3456678889999999999999999998863 345568888999999999999999999999984311111234589999


Q ss_pred             HHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChH
Q 048737          109 GLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPE  188 (274)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  188 (274)
                      .++...|++++|...|++..+... .+..+|..+...|...|++++|...+++..+.. +.+...+..+...+...++++
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999988642 367899999999999999999999999988752 334566677773455566999


Q ss_pred             HHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCC---cchHHHHHHHHHhCC-CccC------HHHHHHHHHHHHhcChh-
Q 048737          189 FAIEIWNYILENGILPLEASANVLLVGLRNLGR---LSDVRRFAEEMLNRR-ILIY------DVTMQKLKKAFYNESRS-  257 (274)
Q Consensus       189 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~m~~~~-~~~~------~~~~~~l~~~~~~~g~~-  257 (274)
                      +|...+++..+... .+...+..+...+...|+   +++|...+++..+.. -.|+      ...|..+...+...|+. 
T Consensus       160 ~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  238 (272)
T 3u4t_A          160 KADSSFVKVLELKP-NIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKV  238 (272)
T ss_dssp             HHHHHHHHHHHHST-TCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHH
Confidence            99999999998653 446777888888888888   888999999987642 1233      25778888899999988 


Q ss_pred             -HHHHHHHHHHHh
Q 048737          258 -MRDRFDSLERRW  269 (274)
Q Consensus       258 -a~~~~~~~~~~~  269 (274)
                       |.+.++++++..
T Consensus       239 ~A~~~~~~al~~~  251 (272)
T 3u4t_A          239 KADAAWKNILALD  251 (272)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhcC
Confidence             999999888654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.74  E-value=4.4e-15  Score=116.27  Aligned_cols=219  Identities=11%  Similarity=0.049  Sum_probs=179.2

Q ss_pred             HHHHHHHHHHHhccCCCCchHhHHHHHHHHHhc-------cCcH-------HHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Q 048737            9 VEANKTFGEMVERFEWNPEHVLAYETFLITLIR-------GKQV-------DEALKFLRVMKGENCFPTLKFFSNALDIL   74 (274)
Q Consensus         9 ~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~-------~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   74 (274)
                      ++|..+|++....   .|.++..|..++..+..       .|++       ++|..+|++..+.-.+-+...|..++..+
T Consensus        33 ~~a~~~~~~al~~---~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~  109 (308)
T 2ond_A           33 KRVMFAYEQCLLV---LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYE  109 (308)
T ss_dssp             HHHHHHHHHHHHH---HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH---cCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            7888999999776   78889999999988864       4775       89999999999741233566899999999


Q ss_pred             HhCCChhhHHHHHHHHHhcCCccCccHH-hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHH-hcCCH
Q 048737           75 VKLNDSTHTVQLWDIMVGIGFNLMPNLI-MYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLI-KNKKV  152 (274)
Q Consensus        75 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-~~~~~  152 (274)
                      .+.|+++.|..+|+++++..   +.+.. +|..+...+.+.|++++|..+|++..+... ++...|........ ..|++
T Consensus       110 ~~~~~~~~A~~~~~~al~~~---p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~  185 (308)
T 2ond_A          110 ESRMKYEKVHSIYNRLLAIE---DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDK  185 (308)
T ss_dssp             HHTTCHHHHHHHHHHHHTSS---SSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCH
T ss_pred             HhcCCHHHHHHHHHHHHhcc---ccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCH
Confidence            99999999999999999854   22344 899999999999999999999999998642 34555554433322 36999


Q ss_pred             hHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCc--cHHHHHHHHHHHHhcCCcchHHHHH
Q 048737          153 HEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENG-ILP--LEASANVLLVGLRNLGRLSDVRRFA  229 (274)
Q Consensus       153 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~a~~~~  229 (274)
                      ++|..+|++.++.. +-+...|..++..+.+.|++++|..+|++..... +.|  ....|..++..+...|+.+.|..++
T Consensus       186 ~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~  264 (308)
T 2ond_A          186 SVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVE  264 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999998752 3356788899999999999999999999999863 445  4678899999999999999999999


Q ss_pred             HHHHhC
Q 048737          230 EEMLNR  235 (274)
Q Consensus       230 ~~m~~~  235 (274)
                      +++.+.
T Consensus       265 ~~a~~~  270 (308)
T 2ond_A          265 KRRFTA  270 (308)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998875

>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=99.73  E-value=8.3e-17  Score=128.84  Aligned_cols=217  Identities=12%  Similarity=0.056  Sum_probs=109.8

Q ss_pred             CcccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCh
Q 048737            1 GWEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDS   80 (274)
Q Consensus         1 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   80 (274)
                      ++.+.|++++|++.|.+.       + |...|..++..+...|++++|+++++..++.  .+++.+.+.++.+|.+.|++
T Consensus        41 A~l~~g~~~eAIdsfika-------~-D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l  110 (449)
T 1b89_A           41 AQLQKGMVKEAIDSYIKA-------D-DPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRL  110 (449)
T ss_dssp             ------------------------------------------------------------------------------CH
T ss_pred             HHHHcCCHHHHHHHHHcC-------C-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCH
Confidence            467889999999999642       2 6779999999999999999999987776663  45678899999999999999


Q ss_pred             hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHH
Q 048737           81 THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFH  160 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (274)
                      +++.++++         .|+..+|+.+...|...|++++|..+|..+         ..|..++.++.+.|++++|.+.+.
T Consensus       111 ~e~e~f~~---------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~  172 (449)
T 1b89_A          111 AELEEFIN---------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGAR  172 (449)
T ss_dssp             HHHTTTTT---------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHc---------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHH
Confidence            99887773         367789999999999999999999999977         489999999999999999999999


Q ss_pred             HHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccC
Q 048737          161 EMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY  240 (274)
Q Consensus       161 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  240 (274)
                      ++      .++.+|..++.+|...|+++.|......     +..++.....++..|.+.|++++|..+++...... .-.
T Consensus       173 KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah  240 (449)
T 1b89_A          173 KA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAH  240 (449)
T ss_dssp             HH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCC
T ss_pred             Hc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHH
Confidence            88      3778999999999999999999665443     22333345578899999999999999999988765 456


Q ss_pred             HHHHHHHHHHHHhcChh
Q 048737          241 DVTMQKLKKAFYNESRS  257 (274)
Q Consensus       241 ~~~~~~l~~~~~~~g~~  257 (274)
                      ...|+-|--++++-.-.
T Consensus       241 ~~~ftel~il~~ky~p~  257 (449)
T 1b89_A          241 MGMFTELAILYSKFKPQ  257 (449)
T ss_dssp             HHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHhcCHH
Confidence            67788887777776543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.71  E-value=2e-16  Score=128.60  Aligned_cols=267  Identities=8%  Similarity=-0.048  Sum_probs=205.5

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchH----hHHHHHHHHHhccCcHHHHHHHHHHHhcC----C-CCCCHHHHHHHHH
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHV----LAYETFLITLIRGKQVDEALKFLRVMKGE----N-CFPTLKFFSNALD   72 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~   72 (274)
                      +...|++++|+..|++..+.   .|.+.    .+|..+...+...|++++|+..+++..+.    + .+.....+..+..
T Consensus        58 ~~~~g~~~~A~~~~~~al~~---~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~  134 (411)
T 4a1s_A           58 LCNAGDCRAGVAFFQAAIQA---GTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGN  134 (411)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh---cccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHH
Confidence            45679999999999999876   56454    47888999999999999999999987653    1 1223467788889


Q ss_pred             HHHhCCChhhHHHHHHHHHhcCCc---cCccHHhHHHHHHHHHhcCC-----------------hhhHHHHHHHHHhc--
Q 048737           73 ILVKLNDSTHTVQLWDIMVGIGFN---LMPNLIMYNAVVGLLCNNND-----------------VDNVFRFFDQMVFH--  130 (274)
Q Consensus        73 ~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~~~~~--  130 (274)
                      .+...|++++|...++++.+....   .+....++..+...|...|+                 +++|...+++..+.  
T Consensus       135 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~  214 (411)
T 4a1s_A          135 TLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMR  214 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            999999999999999998764100   12235678889999999999                 99999999886542  


Q ss_pred             --CCCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCC-CCC----cchHHHHHHHHHhcCChHHHHHHHHHHHHCC-
Q 048737          131 --GAFP-DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEW-QPT----PLNCATAITMLLDADEPEFAIEIWNYILENG-  201 (274)
Q Consensus       131 --~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-  201 (274)
                        +..+ ...++..+...|...|++++|...+++..+... .++    ...+..+...|...|++++|...+++..+.. 
T Consensus       215 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  294 (411)
T 4a1s_A          215 DLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAV  294 (411)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence              1111 245788889999999999999999998875311 011    2377888999999999999999999887532 


Q ss_pred             ---C-CccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC-----CccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          202 ---I-LPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRR-----ILIYDVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       202 ---~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~-----~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                         . .....++..+...|...|++++|...+++..+..     ......++..+...+...|+.  |.+.++++++..+
T Consensus       295 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  374 (411)
T 4a1s_A          295 ELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAX  374 (411)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHh
Confidence               1 1124678888999999999999999999986531     112245788888999999988  9999998887654


Q ss_pred             h
Q 048737          271 T  271 (274)
Q Consensus       271 ~  271 (274)
                      .
T Consensus       375 ~  375 (411)
T 4a1s_A          375 X  375 (411)
T ss_dssp             H
T ss_pred             h
Confidence            3

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.70  E-value=4.1e-15  Score=114.08  Aligned_cols=223  Identities=9%  Similarity=-0.052  Sum_probs=182.3

Q ss_pred             HHhccCcHHHHHHHHHHHhcCCCC---CCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhc
Q 048737           38 TLIRGKQVDEALKFLRVMKGENCF---PTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNN  114 (274)
Q Consensus        38 ~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  114 (274)
                      .+...|++++|++.|+++.+....   .+..++..+...+...|++++|...|+++.+..   +.+..+|..+..+|...
T Consensus        14 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~~~la~~~~~~   90 (275)
T 1xnf_A           14 PLQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR---PDMPEVFNYLGIYLTQA   90 (275)
T ss_dssp             CCCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHT
T ss_pred             ccCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC---CCcHHHHHHHHHHHHHc
Confidence            445678999999999999986321   246678889999999999999999999999976   56788999999999999


Q ss_pred             CChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHH
Q 048737          115 NDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIW  194 (274)
Q Consensus       115 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  194 (274)
                      |++++|...|++..+.. +.+..++..+...|...|++++|...++++.+.  .|+.......+..+...|++++|...+
T Consensus        91 ~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~  167 (275)
T 1xnf_A           91 GNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVL  167 (275)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHH
Confidence            99999999999998863 236889999999999999999999999999884  466666666666667789999999999


Q ss_pred             HHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCcc---CHHHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          195 NYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILI---YDVTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       195 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~---~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                      .+...... ++...+ .++..+...++.++|...+++..+.....   +...+..+...+...|+.  |.+.++++++.
T Consensus       168 ~~~~~~~~-~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          168 KQHFEKSD-KEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHHHHHSC-CCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHhcCC-cchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            88877542 344444 46777888888999999999987653221   257788899999999988  88888887754

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.70  E-value=1.2e-15  Score=126.37  Aligned_cols=212  Identities=12%  Similarity=-0.007  Sum_probs=150.9

Q ss_pred             hHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcH-HHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHH
Q 048737            8 VVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQV-DEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQL   86 (274)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   86 (274)
                      +++++..+++....   .|.+...|..+...+...|++ ++|++.|++..+.. +-+...|..+..+|...|++++|...
T Consensus        84 ~~~al~~l~~~~~~---~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~  159 (474)
T 4abn_A           84 MEKTLQQMEEVLGS---AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTC  159 (474)
T ss_dssp             HHHHHHHHHHHHTT---CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHhcc---CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            55566666655443   566677777788888888888 88888888777643 33467777777888888888888888


Q ss_pred             HHHHHhcCCccCccHHhHHHHHHHHHhc---------CChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc--------
Q 048737           87 WDIMVGIGFNLMPNLIMYNAVVGLLCNN---------NDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKN--------  149 (274)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--------  149 (274)
                      |+++.+..    |+...+..+..++...         |++++|+..|++..+.. +.+...|..+..+|...        
T Consensus       160 ~~~al~~~----p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~  234 (474)
T 4abn_A          160 FSGALTHC----KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNP  234 (474)
T ss_dssp             HHHHHTTC----CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCH
T ss_pred             HHHHHhhC----CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhcccc
Confidence            88887754    5567777777777777         78888888888777653 22467777777777777        


Q ss_pred             CCHhHHHHHHHHHHhCCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHH
Q 048737          150 KKVHEVENFFHEMIKNEWQ---PTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVR  226 (274)
Q Consensus       150 ~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  226 (274)
                      |++++|+..|++..+.. +   .+...|..+..+|...|++++|...|++..+... .+...+..+...+...|++++|.
T Consensus       235 g~~~~A~~~~~~al~~~-p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~a~~~l~~~~~~lg~~~eAi  312 (474)
T 4abn_A          235 KISQQALSAYAQAEKVD-RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDP-AWPEPQQREQQLLEFLSRLTSLL  312 (474)
T ss_dssp             HHHHHHHHHHHHHHHHC-GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhC-CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHH
Confidence            77888888888777642 1   2556777777778888888888888887776542 34556677777777777777777


Q ss_pred             HHHH
Q 048737          227 RFAE  230 (274)
Q Consensus       227 ~~~~  230 (274)
                      ..+.
T Consensus       313 ~~~~  316 (474)
T 4abn_A          313 ESKG  316 (474)
T ss_dssp             HHTT
T ss_pred             HHhc
Confidence            6543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.69  E-value=1.3e-15  Score=123.26  Aligned_cols=266  Identities=10%  Similarity=-0.052  Sum_probs=203.0

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCch----HhHHHHHHHHHhccCcHHHHHHHHHHHhcC----CCCC-CHHHHHHHHH
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEH----VLAYETFLITLIRGKQVDEALKFLRVMKGE----NCFP-TLKFFSNALD   72 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~   72 (274)
                      +.+.|++++|...|++..+.   .|.+    ..+|..+...+...|++++|+..+++....    +-.| ...++..+..
T Consensus        19 ~~~~g~~~~A~~~~~~al~~---~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~   95 (406)
T 3sf4_A           19 LCKSGDCRAGVSFFEAAVQV---GTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGN   95 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHhc---CcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            45679999999999999875   5544    357888999999999999999999987542    2112 2457788889


Q ss_pred             HHHhCCChhhHHHHHHHHHhcCCc---cCccHHhHHHHHHHHHhcCC--------------------hhhHHHHHHHHHh
Q 048737           73 ILVKLNDSTHTVQLWDIMVGIGFN---LMPNLIMYNAVVGLLCNNND--------------------VDNVFRFFDQMVF  129 (274)
Q Consensus        73 ~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~  129 (274)
                      .+...|+++.|...+++..+....   ......++..+...|...|+                    +++|...+++...
T Consensus        96 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~  175 (406)
T 3sf4_A           96 TLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLS  175 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            999999999999999988764200   01124578889999999999                    9999999987654


Q ss_pred             c----CCCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCC-CCC----cchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048737          130 H----GAFP-DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEW-QPT----PLNCATAITMLLDADEPEFAIEIWNYILE  199 (274)
Q Consensus       130 ~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  199 (274)
                      .    +..| ...++..+...|...|++++|...+++..+... .++    ..++..+...+...|++++|...+++..+
T Consensus       176 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  255 (406)
T 3sf4_A          176 LVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLL  255 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            2    1111 245788889999999999999999998875311 112    23788889999999999999999998875


Q ss_pred             C----CCCc-cHHHHHHHHHHHHhcCCcchHHHHHHHHHhC----CCc-cCHHHHHHHHHHHHhcChh--HHHHHHHHHH
Q 048737          200 N----GILP-LEASANVLLVGLRNLGRLSDVRRFAEEMLNR----RIL-IYDVTMQKLKKAFYNESRS--MRDRFDSLER  267 (274)
Q Consensus       200 ~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~----~~~-~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~  267 (274)
                      .    +..+ ...++..+...|...|++++|...+++..+.    +.. ....++..+...+...|+.  |.+.++++++
T Consensus       256 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          256 LARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3    2111 1567888899999999999999999998653    111 1256778888899999988  9999988877


Q ss_pred             Hhh
Q 048737          268 RWK  270 (274)
Q Consensus       268 ~~~  270 (274)
                      ..+
T Consensus       336 ~~~  338 (406)
T 3sf4_A          336 ISR  338 (406)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>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=1.8e-13  Score=107.13  Aligned_cols=235  Identities=9%  Similarity=0.042  Sum_probs=185.1

Q ss_pred             hHhHHHHHHHHHhcc----CcH----HHHHHHHHHHhcCCCCCCHHHHHHHHHHHH-------hCCCh-------hhHHH
Q 048737           28 HVLAYETFLITLIRG----KQV----DEALKFLRVMKGENCFPTLKFFSNALDILV-------KLNDS-------THTVQ   85 (274)
Q Consensus        28 ~~~~~~~li~~~~~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~a~~   85 (274)
                      +...|...+....+.    ++.    ++|...|++.... .+-++..|..+...+.       +.|++       ++|..
T Consensus         7 ~~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~-~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~   85 (308)
T 2ond_A            7 QVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAAN   85 (308)
T ss_dssp             HHHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHH
Confidence            455666666655443    233    7889999999875 3556788888887775       45886       89999


Q ss_pred             HHHHHHhc-CCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-hh-hHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737           86 LWDIMVGI-GFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD-SL-TYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus        86 ~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      +|++.++. .   +.+...|..++..+.+.|++++|..+|++..+.  .|+ .. .|..+...+.+.|++++|..+|++.
T Consensus        86 ~~~rAl~~~~---p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  160 (308)
T 2ond_A           86 IYERAISTLL---KKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKA  160 (308)
T ss_dssp             HHHHHHTTTT---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHhC---cccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            99999984 4   446778999999999999999999999999984  454 33 8999999999999999999999999


Q ss_pred             HhCCCCCCcchHHHHHHHHH-hcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC-Ccc-
Q 048737          163 IKNEWQPTPLNCATAITMLL-DADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRR-ILI-  239 (274)
Q Consensus       163 ~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~-~~~-  239 (274)
                      .+.. +++...|........ ..|+++.|..+|++..+... -+...|..++..+.+.|++++|..+|++..+.. +.| 
T Consensus       161 ~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~  238 (308)
T 2ond_A          161 REDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             HTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             HhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHH
Confidence            9854 334445544433322 36999999999999988542 467889999999999999999999999999873 455 


Q ss_pred             -CHHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          240 -YDVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       240 -~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                       ....|..++....+.|+.  |..+++++++...
T Consensus       239 ~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~~p  272 (308)
T 2ond_A          239 KSGEIWARFLAFESNIGDLASILKVEKRRFTAFR  272 (308)
T ss_dssp             GCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcc
Confidence             466788888888889987  8888888877654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.68  E-value=6.5e-16  Score=121.62  Aligned_cols=267  Identities=10%  Similarity=-0.039  Sum_probs=201.2

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCch----HhHHHHHHHHHhccCcHHHHHHHHHHHhcC----CCCC-CHHHHHHHHH
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEH----VLAYETFLITLIRGKQVDEALKFLRVMKGE----NCFP-TLKFFSNALD   72 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~   72 (274)
                      +...|++++|...|++..+.   .|.+    ...+..+...+...|++++|++.+++..+.    +-.| ...++..+..
T Consensus        15 ~~~~g~~~~A~~~~~~al~~---~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~   91 (338)
T 3ro2_A           15 LCKSGDCRAGVSFFEAAVQV---GTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGN   91 (338)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHhh---CcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHH
Confidence            45689999999999999875   5545    467888999999999999999999987642    1111 2457788889


Q ss_pred             HHHhCCChhhHHHHHHHHHhcCCcc---CccHHhHHHHHHHHHhcCC--------------------hhhHHHHHHHHHh
Q 048737           73 ILVKLNDSTHTVQLWDIMVGIGFNL---MPNLIMYNAVVGLLCNNND--------------------VDNVFRFFDQMVF  129 (274)
Q Consensus        73 ~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~  129 (274)
                      .+...|++++|...+++..+.....   .....++..+...|...|+                    +++|...+++...
T Consensus        92 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~  171 (338)
T 3ro2_A           92 TLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLS  171 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            9999999999999999987642000   1124478889999999999                    9999999987654


Q ss_pred             c----CCCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCC-CCC----cchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048737          130 H----GAFP-DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEW-QPT----PLNCATAITMLLDADEPEFAIEIWNYILE  199 (274)
Q Consensus       130 ~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  199 (274)
                      .    +..| ...++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...+++..+
T Consensus       172 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  251 (338)
T 3ro2_A          172 LVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLL  251 (338)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2    1111 245788888999999999999999998865310 111    23778888999999999999999998775


Q ss_pred             C----CCCc-cHHHHHHHHHHHHhcCCcchHHHHHHHHHhC----C-CccCHHHHHHHHHHHHhcChh--HHHHHHHHHH
Q 048737          200 N----GILP-LEASANVLLVGLRNLGRLSDVRRFAEEMLNR----R-ILIYDVTMQKLKKAFYNESRS--MRDRFDSLER  267 (274)
Q Consensus       200 ~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~----~-~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~  267 (274)
                      .    +..+ ...++..+...|...|++++|...+++..+.    + ......++..+...+...|+.  |.+.++++++
T Consensus       252 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          252 LARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            3    1111 1467788889999999999999999988653    1 112245777888999999988  9999998887


Q ss_pred             Hhhh
Q 048737          268 RWKT  271 (274)
Q Consensus       268 ~~~~  271 (274)
                      ..+.
T Consensus       332 ~~~~  335 (338)
T 3ro2_A          332 ISRE  335 (338)
T ss_dssp             C---
T ss_pred             HHHh
Confidence            6543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.67  E-value=2.9e-14  Score=102.84  Aligned_cols=167  Identities=6%  Similarity=-0.040  Sum_probs=115.6

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      ++..|..+...+...|++++|++.|++..+.. +-+..++..+..++.+.|+++.|...+.......   +.+...+..+
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~   79 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD---TTSAEAYYIL   79 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---CCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC---chhHHHHHHH
Confidence            45667777777777777777777777777643 3356677777777777777777777777777654   4456666666


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCh
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEP  187 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  187 (274)
                      ...+...++++.|...+.+..... +.+...+..+...|...|++++|++.|++..+.. +.+...+..+..+|.+.|++
T Consensus        80 ~~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~  157 (184)
T 3vtx_A           80 GSANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLR  157 (184)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCH
Confidence            777777777777777777766642 2246667777777777777777777777776643 23455667777777777777


Q ss_pred             HHHHHHHHHHHHC
Q 048737          188 EFAIEIWNYILEN  200 (274)
Q Consensus       188 ~~a~~~~~~~~~~  200 (274)
                      ++|...|++..+.
T Consensus       158 ~~A~~~~~~al~~  170 (184)
T 3vtx_A          158 DEAVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC
Confidence            7777777776664

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.67  E-value=6.7e-15  Score=114.81  Aligned_cols=245  Identities=9%  Similarity=0.049  Sum_probs=175.4

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcC-------CCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcC---
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGE-------NCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIG---   94 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---   94 (274)
                      .|.+..++..+...+...|++++|+.+++++.+.       ..+.....+..+...+...|++++|...++++....   
T Consensus        23 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  102 (311)
T 3nf1_A           23 IPARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKT  102 (311)
T ss_dssp             SCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence            4667888999999999999999999999998863       223345678888999999999999999999988641   


Q ss_pred             --CccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc------CCCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC
Q 048737           95 --FNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH------GAFP-DSLTYNMIFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus        95 --~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                        .+.+....++..+...|...|++++|...+++..+.      +..| ...++..+...+...|++++|..+++++.+.
T Consensus       103 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~  182 (311)
T 3nf1_A          103 LGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEI  182 (311)
T ss_dssp             HCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             hCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence              001345678889999999999999999999988764      2222 3567888899999999999999999998764


Q ss_pred             ------CCCCC-cchHHHHHHHHHhcCChHHHHHHHHHHHHCC-------CCcc-------HHHHHHHHHHHHhcCCcch
Q 048737          166 ------EWQPT-PLNCATAITMLLDADEPEFAIEIWNYILENG-------ILPL-------EASANVLLVGLRNLGRLSD  224 (274)
Q Consensus       166 ------~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~-------~~~~~~l~~~~~~~g~~~~  224 (274)
                            +..|+ ..++..+..++...|++++|...++++.+..       ..+.       ...+..+...+...+.+.+
T Consensus       183 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  262 (311)
T 3nf1_A          183 YQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGE  262 (311)
T ss_dssp             HHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCC
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHH
Confidence                  11222 3467888999999999999999999887631       1111       2233333444556677777


Q ss_pred             HHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          225 VRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       225 a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      +...++...... +.+..++..+..+|...|+.  |.+.++++++..+
T Consensus       263 a~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~  309 (311)
T 3nf1_A          263 YGGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRK  309 (311)
T ss_dssp             CC---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC
T ss_pred             HHHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhh
Confidence            777777776542 34567788899999999988  8899888877643

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.66  E-value=4.8e-14  Score=101.71  Aligned_cols=168  Identities=8%  Similarity=0.024  Sum_probs=147.9

Q ss_pred             CCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHH
Q 048737           62 PTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNM  141 (274)
Q Consensus        62 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  141 (274)
                      -++..|..+...+...|++++|...|++.++..   |-+..++..+..+|.+.|++++|...+........ .+...+..
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~   78 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD---PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAEAYYI   78 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHHHHHH
Confidence            367889999999999999999999999999976   56788999999999999999999999999887632 35778888


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCC
Q 048737          142 IFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGR  221 (274)
Q Consensus       142 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  221 (274)
                      +...+...++++.+...+.+..+.. +.+...+..+..++.+.|++++|...|++..+... .+..+|..+..+|.+.|+
T Consensus        79 ~~~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~lg~~~~~~g~  156 (184)
T 3vtx_A           79 LGSANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKP-GFIRAYQSIGLAYEGKGL  156 (184)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcc-hhhhHHHHHHHHHHHCCC
Confidence            8889999999999999999988753 34567888999999999999999999999998753 567889999999999999


Q ss_pred             cchHHHHHHHHHhC
Q 048737          222 LSDVRRFAEEMLNR  235 (274)
Q Consensus       222 ~~~a~~~~~~m~~~  235 (274)
                      +++|...|++.++.
T Consensus       157 ~~~A~~~~~~al~~  170 (184)
T 3vtx_A          157 RDEAVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999999876

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.63  E-value=6.3e-12  Score=104.64  Aligned_cols=240  Identities=13%  Similarity=0.086  Sum_probs=145.8

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhc----cCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh----
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIR----GKQVDEALKFLRVMKGENCFPTLKFFSNALDILVK----   76 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----   76 (274)
                      .+++++|.+.|++..+. |    ++.++..+...|..    .+++++|+++|++..+.|   ++..+..+...+..    
T Consensus       164 ~~d~~~A~~~~~~a~~~-~----~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~  235 (490)
T 2xm6_A          164 TRDYVMAREWYSKAAEQ-G----NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGV  235 (490)
T ss_dssp             CCCHHHHHHHHHHHHHT-T----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSS
T ss_pred             CCCHHHHHHHHHHHHHC-C----CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCC
Confidence            34555555555555442 1    34455555555554    555666666665555443   34445555555554    


Q ss_pred             CCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHh----cCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc---
Q 048737           77 LNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCN----NNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKN---  149 (274)
Q Consensus        77 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---  149 (274)
                      .+++++|..+|++..+.+     +...+..+...|..    .+++++|...|++..+.|   +...+..+...|...   
T Consensus       236 ~~~~~~A~~~~~~a~~~~-----~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g  307 (490)
T 2xm6_A          236 TQDYTQSRVLFSQSAEQG-----NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEG  307 (490)
T ss_dssp             CCCHHHHHHHHHHHHTTT-----CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTT
T ss_pred             CCCHHHHHHHHHHHHHCC-----CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCC
Confidence            556666666666665544     23344555555555    566666777666666543   344555566666655   


Q ss_pred             --CCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcC---ChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHh----cC
Q 048737          150 --KKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDAD---EPEFAIEIWNYILENGILPLEASANVLLVGLRN----LG  220 (274)
Q Consensus       150 --~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g  220 (274)
                        +++++|...|++..+.+   +...+..+...|...|   ++++|...|++..+.+   +...+..+...|..    .+
T Consensus       308 ~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~  381 (490)
T 2xm6_A          308 VAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKK  381 (490)
T ss_dssp             BCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC
T ss_pred             CcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCC
Confidence              67777777777766654   3345556666666545   6677777777777653   34566677777777    67


Q ss_pred             CcchHHHHHHHHHhCCCccCHHHHHHHHHHHHh----cChh--HHHHHHHHHHHh
Q 048737          221 RLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYN----ESRS--MRDRFDSLERRW  269 (274)
Q Consensus       221 ~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~----~g~~--a~~~~~~~~~~~  269 (274)
                      ++++|...|++..+.+   +...+..|...|..    .++.  |.+.++++.+..
T Consensus       382 ~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          382 DEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            8888888888887765   45566667777766    5555  777777777655

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.62  E-value=2.3e-13  Score=112.55  Aligned_cols=257  Identities=9%  Similarity=-0.044  Sum_probs=178.8

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHh---ccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh----C
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLI---RGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVK----L   77 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~   77 (274)
                      .+++++|++.|++..+.   .|+++..+..+..++.   ..++.++|++.+++..+.. +.+..++..+...+..    .
T Consensus       151 ~~~y~~A~~~~~kal~~---~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~  226 (472)
T 4g1t_A          151 GNQNERAKVCFEKALEK---KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEG  226 (472)
T ss_dssp             TTHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC---
T ss_pred             cccHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhh
Confidence            35789999999999775   8888888877776643   4567788999998888753 3456666666555544    4


Q ss_pred             CChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc--------
Q 048737           78 NDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKN--------  149 (274)
Q Consensus        78 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--------  149 (274)
                      ++++.|.+.+++.....   +.+..++..+...|...|++++|...+++..+..+ -+..++..+...|...        
T Consensus       227 ~~~~~a~~~~~~al~~~---~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~y~~~~~~~~~~~  302 (472)
T 4g1t_A          227 EEEGEGEKLVEEALEKA---PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIP-NNAYLHCQIGCCYRAKVFQVMNLR  302 (472)
T ss_dssp             ---CHHHHHHHHHHHHC---SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             hHHHHHHHHHHHHHHhC---ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCC-ChHHHHHHHHHHHHHHHHHhhhHH
Confidence            67889999999998875   66788899999999999999999999999988632 2466676666655432        


Q ss_pred             -----------CCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHH--HHHHHHH-H
Q 048737          150 -----------KKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEA--SANVLLV-G  215 (274)
Q Consensus       150 -----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~-~  215 (274)
                                 +.++.|...+++..+.. +.+...+..+...+...|++++|...|++..+....|...  .+..+.. .
T Consensus       303 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~  381 (472)
T 4g1t_A          303 ENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQ  381 (472)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHH
Confidence                       23567778888777653 4456788999999999999999999999999876544321  2233332 2


Q ss_pred             HHhcCCcchHHHHHHHHHhCC-----------------------CccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          216 LRNLGRLSDVRRFAEEMLNRR-----------------------ILIYDVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       216 ~~~~g~~~~a~~~~~~m~~~~-----------------------~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      +...|++++|+..|++..+..                       -+.+..+|..+...+...|+.  |.+.++++++...
T Consensus       382 ~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~  461 (472)
T 4g1t_A          382 LYQMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGS  461 (472)
T ss_dssp             HHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC--------------
T ss_pred             HHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            457799999999988876542                       133456788888899999988  9999999887654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.62  E-value=3.8e-14  Score=117.48  Aligned_cols=206  Identities=9%  Similarity=-0.027  Sum_probs=175.3

Q ss_pred             cHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCh-hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHH
Q 048737           44 QVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDS-THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFR  122 (274)
Q Consensus        44 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  122 (274)
                      .+++++..+++.... .+.+...+..+...+...|++ ++|...|+++.+..   +.+...|..+..+|.+.|++++|..
T Consensus        83 ~~~~al~~l~~~~~~-~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~---p~~~~a~~~lg~~~~~~g~~~~A~~  158 (474)
T 4abn_A           83 EMEKTLQQMEEVLGS-AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE---PELVEAWNQLGEVYWKKGDVTSAHT  158 (474)
T ss_dssp             HHHHHHHHHHHHHTT-CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhcc-CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC---CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            366777788776654 245788899999999999999 99999999999976   5568899999999999999999999


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHhc---------CCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc--------C
Q 048737          123 FFDQMVFHGAFPDSLTYNMIFECLIKN---------KKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDA--------D  185 (274)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~li~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~  185 (274)
                      .|++..+.  .|+...+..+...|...         |++++|+..+++..+.. +.+...|..+..+|...        |
T Consensus       159 ~~~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g  235 (474)
T 4abn_A          159 CFSGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPK  235 (474)
T ss_dssp             HHHHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHH
T ss_pred             HHHHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccc
Confidence            99999985  47788899999999999         99999999999998854 33567889999999988        9


Q ss_pred             ChHHHHHHHHHHHHCCCC--ccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh
Q 048737          186 EPEFAIEIWNYILENGIL--PLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS  257 (274)
Q Consensus       186 ~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~  257 (274)
                      ++++|...|++..+....  -+...|..+..+|...|++++|...|++..+.. +-+...+..+...+...|+.
T Consensus       236 ~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~  308 (474)
T 4abn_A          236 ISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRL  308 (474)
T ss_dssp             HHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHH
Confidence            999999999999986421  367889999999999999999999999998764 23556777787888877766

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.62  E-value=8.5e-12  Score=103.86  Aligned_cols=209  Identities=9%  Similarity=0.028  Sum_probs=120.9

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhc----cCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh----
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIR----GKQVDEALKFLRVMKGENCFPTLKFFSNALDILVK----   76 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----   76 (274)
                      .+++++|...|++..+. |    ++.++..|...|..    .+++++|+++|++..+.|   ++..+..|...|..    
T Consensus        56 ~~~~~~A~~~~~~a~~~-~----~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~  127 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQ-G----YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGV  127 (490)
T ss_dssp             CCCHHHHHHHHHHHHHT-T----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSS
T ss_pred             CcCHHHHHHHHHHHHHC-C----CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCC
Confidence            46677777777766553 2    44566666666666    667777777777766544   45555556666665    


Q ss_pred             CCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHh----cCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh----
Q 048737           77 LNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCN----NNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK----  148 (274)
Q Consensus        77 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----  148 (274)
                      .+++++|...|++..+.|     +...+..|...|..    .+++++|.+.|++..+.|   +...+..+...|..    
T Consensus       128 ~~~~~~A~~~~~~a~~~~-----~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~  199 (490)
T 2xm6_A          128 KVDKAESVKWFRLAAEQG-----RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGV  199 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT-----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSS
T ss_pred             CCCHHHHHHHHHHHHHCC-----CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCC
Confidence            566777777777766655     34455555566655    556666666666666542   45555566666655    


Q ss_pred             cCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHh----cC
Q 048737          149 NKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLD----ADEPEFAIEIWNYILENGILPLEASANVLLVGLRN----LG  220 (274)
Q Consensus       149 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g  220 (274)
                      .+++++|...|++..+.+   +...+..+...|..    .+++++|...|++..+.+.   ...+..+...|..    .+
T Consensus       200 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~---~~a~~~lg~~y~~g~~~~~  273 (490)
T 2xm6_A          200 ERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGN---SIAQFRLGYILEQGLAGAK  273 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTC---HHHHHHHHHHHHHTTTSSC
T ss_pred             CcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHCCCCCCC
Confidence            566666666666665543   33444455555544    4555555555555554432   2333344444444    45


Q ss_pred             CcchHHHHHHHHHhC
Q 048737          221 RLSDVRRFAEEMLNR  235 (274)
Q Consensus       221 ~~~~a~~~~~~m~~~  235 (274)
                      ++++|...|++..+.
T Consensus       274 d~~~A~~~~~~a~~~  288 (490)
T 2xm6_A          274 EPLKALEWYRKSAEQ  288 (490)
T ss_dssp             CHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHc
Confidence            555555555555444

>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=99.61  E-value=6.4e-14  Score=120.95  Aligned_cols=170  Identities=11%  Similarity=0.040  Sum_probs=149.1

Q ss_pred             CCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHH
Q 048737           23 EWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLI  102 (274)
Q Consensus        23 ~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  102 (274)
                      |-.|+++.+|+.|...+.+.|++++|++.|++..+.. +-+..++..+..++.+.|++++|...|+++++..   +-+..
T Consensus         3 gs~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~---P~~~~   78 (723)
T 4gyw_A            3 GSCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS---PTFAD   78 (723)
T ss_dssp             ---CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHH
T ss_pred             CCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHH
Confidence            4578889999999999999999999999999998853 3457899999999999999999999999999975   55688


Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCC-cchHHHHHHHH
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT-PLNCATAITML  181 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  181 (274)
                      .|..+..+|.+.|++++|++.|++..+... -+...|+.+...|...|++++|+..|++.++.  .|+ ...+..+..++
T Consensus        79 a~~nLg~~l~~~g~~~~A~~~~~kAl~l~P-~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l  155 (723)
T 4gyw_A           79 AYSNMGNTLKEMQDVQGALQCYTRAIQINP-AFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCL  155 (723)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHH
Confidence            999999999999999999999999988632 25789999999999999999999999999885  354 67889999999


Q ss_pred             HhcCChHHHHHHHHHHHH
Q 048737          182 LDADEPEFAIEIWNYILE  199 (274)
Q Consensus       182 ~~~~~~~~a~~~~~~~~~  199 (274)
                      ...|++++|.+.+++..+
T Consensus       156 ~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          156 QIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HHTTCCTTHHHHHHHHHH
T ss_pred             HhcccHHHHHHHHHHHHH
Confidence            999999999998888764

>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=99.61  E-value=2.5e-13  Score=97.52  Aligned_cols=167  Identities=9%  Similarity=-0.066  Sum_probs=127.9

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      ....|..+...+...|++++|+..++++.+.. +.+...+..+...+...|+++.|...++++.+..   +.+..++..+
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~   82 (186)
T 3as5_A            7 RQVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA---PDNVKVATVL   82 (186)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC---CCCHHHHHHH
Confidence            35567778888888888999988888887653 4467778888888888888888888888888764   5567778888


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCh
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEP  187 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  187 (274)
                      ...+...|++++|...++++.... +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++
T Consensus        83 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  160 (186)
T 3as5_A           83 GLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRH  160 (186)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCH
Confidence            888888888888888888877653 3356777777788888888888888888877653 33456677777777778888


Q ss_pred             HHHHHHHHHHHHC
Q 048737          188 EFAIEIWNYILEN  200 (274)
Q Consensus       188 ~~a~~~~~~~~~~  200 (274)
                      ++|...+++..+.
T Consensus       161 ~~A~~~~~~~~~~  173 (186)
T 3as5_A          161 EEALPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc
Confidence            8888877777653

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.60  E-value=1.7e-13  Score=110.49  Aligned_cols=234  Identities=10%  Similarity=0.030  Sum_probs=177.5

Q ss_pred             HHHHHhccCcHHHHHHHHHHHhcCC-CCCC----HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCcc----CccHHhHH
Q 048737           35 FLITLIRGKQVDEALKFLRVMKGEN-CFPT----LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNL----MPNLIMYN  105 (274)
Q Consensus        35 li~~~~~~~~~~~a~~~~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~~  105 (274)
                      ....+...|++++|+..|++..+.- ..++    ..++..+...+...|+++.|...+++..+.....    +....+++
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            6677889999999999999997631 1122    4578888999999999999999999988642101    11245788


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCC-CC----hhhHHHHHHHHHhcCCHhHHHHHHHHHHhC----CC-CCCcchHH
Q 048737          106 AVVGLLCNNNDVDNVFRFFDQMVFHGAF-PD----SLTYNMIFECLIKNKKVHEVENFFHEMIKN----EW-QPTPLNCA  175 (274)
Q Consensus       106 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~  175 (274)
                      .+..+|...|++++|...|++..+.... ++    ..++..+...|...|++++|...+++..+.    +. +....++.
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            8999999999999999999987653111 11    247888999999999999999999998762    22 23356788


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHC----CCCccHHHHHHHHHHHHhcCC---cchHHHHHHHHHhCCCcc-CHHHHHHH
Q 048737          176 TAITMLLDADEPEFAIEIWNYILEN----GILPLEASANVLLVGLRNLGR---LSDVRRFAEEMLNRRILI-YDVTMQKL  247 (274)
Q Consensus       176 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~m~~~~~~~-~~~~~~~l  247 (274)
                      .+...+.+.|++++|...+++..+.    +-+.....+..+...|...|+   +++|+.++++.   +..| ....+..+
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            9999999999999999999988753    222223345667788888898   77777777765   3333 34567778


Q ss_pred             HHHHHhcChh--HHHHHHHHHHHhhh
Q 048737          248 KKAFYNESRS--MRDRFDSLERRWKT  271 (274)
Q Consensus       248 ~~~~~~~g~~--a~~~~~~~~~~~~~  271 (274)
                      ...|...|+.  |.+.++++++..+.
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~~~~~  371 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQVRQL  371 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence            8999999988  99999988876553

>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=99.59  E-value=7.7e-14  Score=107.11  Aligned_cols=232  Identities=12%  Similarity=0.027  Sum_probs=160.9

Q ss_pred             ccccchHHHHHHHHHHHhc----cC-CCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcC------CC-CCCHHHHHHH
Q 048737            3 EKEGNVVEANKTFGEMVER----FE-WNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGE------NC-FPTLKFFSNA   70 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~----~~-~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l   70 (274)
                      ...|++++|+..|++..+.    .+ -.|....++..+...+...|++++|+..+++..+.      +- +....++..+
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            3457777777777766542    11 23657888999999999999999999999988753      21 2235678889


Q ss_pred             HHHHHhCCChhhHHHHHHHHHhcC-----CccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc------CCCC-Chhh
Q 048737           71 LDILVKLNDSTHTVQLWDIMVGIG-----FNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH------GAFP-DSLT  138 (274)
Q Consensus        71 ~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~  138 (274)
                      ...+...|++++|...++++.+..     .+.+....++..+...|...|++++|...+++..+.      +..| ...+
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            999999999999999999988651     001345778889999999999999999999988764      1123 3567


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhC-------CCCCCc-chHHHHHHHHHhcCChHHHHHHHHHHHH----C--CCCc
Q 048737          139 YNMIFECLIKNKKVHEVENFFHEMIKN-------EWQPTP-LNCATAITMLLDADEPEFAIEIWNYILE----N--GILP  204 (274)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~--~~~~  204 (274)
                      +..+...|...|++++|..++++..+.       ...+.. ..+..+...+...+....+.. +.....    .  ..+.
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  250 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAP-YGEYGSWYKACKVDSPT  250 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC-------------CCCCCCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHH-HHHHHHHHHhcCCCCHH
Confidence            888999999999999999999988753       123333 334444444433333322222 211111    1  1123


Q ss_pred             cHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          205 LEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       205 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      ...++..+...|...|++++|..++++..+.
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            3466788888999999999999999887653

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.59  E-value=1.5e-12  Score=109.51  Aligned_cols=219  Identities=11%  Similarity=0.044  Sum_probs=174.3

Q ss_pred             HHHHHHHHHHHhccCCCCchHhHHHHHHHHHhc-------cCcHH-------HHHHHHHHHhcCCCCCCHHHHHHHHHHH
Q 048737            9 VEANKTFGEMVERFEWNPEHVLAYETFLITLIR-------GKQVD-------EALKFLRVMKGENCFPTLKFFSNALDIL   74 (274)
Q Consensus         9 ~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~   74 (274)
                      .+|..+|++....   .|.++..|..++..+.+       .|+++       +|..+|++..+.-.+-+...|..++..+
T Consensus       255 ~~a~~~y~~al~~---~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~  331 (530)
T 2ooe_A          255 KRVMFAYEQCLLV---LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYE  331 (530)
T ss_dssp             HHHHHHHHHHHHH---HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            3677888888776   78788999999998876       68887       8999999998632344688899999999


Q ss_pred             HhCCChhhHHHHHHHHHhcCCccCcc-HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH-HHhcCCH
Q 048737           75 VKLNDSTHTVQLWDIMVGIGFNLMPN-LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC-LIKNKKV  152 (274)
Q Consensus        75 ~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~~~~  152 (274)
                      .+.|+++.|..+|+++.+..   +.+ ...|..++..+.+.|++++|.++|++..+.. +.+...|...... +...|++
T Consensus       332 ~~~g~~~~A~~~~~~al~~~---p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~  407 (530)
T 2ooe_A          332 ESRMKYEKVHSIYNRLLAIE---DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDK  407 (530)
T ss_dssp             HHTTCHHHHHHHHHHHHHSS---SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCH
T ss_pred             HhcCCHHHHHHHHHHHhCcc---ccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCCh
Confidence            99999999999999999854   223 3589999999999999999999999998752 2233333332222 3468999


Q ss_pred             hHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCC-Ccc--HHHHHHHHHHHHhcCCcchHHHHH
Q 048737          153 HEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGI-LPL--EASANVLLVGLRNLGRLSDVRRFA  229 (274)
Q Consensus       153 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~--~~~~~~l~~~~~~~g~~~~a~~~~  229 (274)
                      ++|..+|+..++.. +.+...|..++..+.+.|+.++|..+|++....+. .|+  ...|...+......|+.+.+..++
T Consensus       408 ~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~  486 (530)
T 2ooe_A          408 SVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVE  486 (530)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999988753 23567888999999999999999999999998642 232  457888888888999999999999


Q ss_pred             HHHHhC
Q 048737          230 EEMLNR  235 (274)
Q Consensus       230 ~~m~~~  235 (274)
                      .++.+.
T Consensus       487 ~r~~~~  492 (530)
T 2ooe_A          487 KRRFTA  492 (530)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988765

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.58  E-value=1.6e-13  Score=110.56  Aligned_cols=230  Identities=8%  Similarity=-0.030  Sum_probs=173.5

Q ss_pred             cccccchHHHHHHHHHHHhccCC---CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCC-CCC-----CHHHHHHHHH
Q 048737            2 WEKEGNVVEANKTFGEMVERFEW---NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGEN-CFP-----TLKFFSNALD   72 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~---~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~-----~~~~~~~l~~   72 (274)
                      +...|++++|.+.|++......-   .|....+|..+...+...|++++|+..+.+..+.- -.+     ...+++.+..
T Consensus       113 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~  192 (383)
T 3ulq_A          113 ELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFAT  192 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHH
Confidence            34679999999999998653111   22245789999999999999999999999887521 111     1357888889


Q ss_pred             HHHhCCChhhHHHHHHHHHhcCCc---cCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc----CC-CCChhhHHHHHH
Q 048737           73 ILVKLNDSTHTVQLWDIMVGIGFN---LMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH----GA-FPDSLTYNMIFE  144 (274)
Q Consensus        73 ~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~li~  144 (274)
                      .|...|++++|...+++..+....   .+....++..+..+|...|++++|...+++..+.    +. +....++..+..
T Consensus       193 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~  272 (383)
T 3ulq_A          193 NFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQ  272 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHH
Confidence            999999999999999998864200   0112357889999999999999999999998762    22 334678899999


Q ss_pred             HHHhcCCHhHHHHHHHHHHhC----CCCCCcchHHHHHHHHHhcCC---hHHHHHHHHHHHHCCCCcc-HHHHHHHHHHH
Q 048737          145 CLIKNKKVHEVENFFHEMIKN----EWQPTPLNCATAITMLLDADE---PEFAIEIWNYILENGILPL-EASANVLLVGL  216 (274)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  216 (274)
                      .|...|++++|...+++..+.    +-+.....+..+...+...|+   +++|..++++.   +..|+ ...+..+...|
T Consensus       273 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y  349 (383)
T 3ulq_A          273 IHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYY  349 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHH
Confidence            999999999999999988753    111112335677788888898   66666666654   33333 45677888999


Q ss_pred             HhcCCcchHHHHHHHHHh
Q 048737          217 RNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       217 ~~~g~~~~a~~~~~~m~~  234 (274)
                      ...|++++|...+++..+
T Consensus       350 ~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          350 HERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            999999999999998865

>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=1.1e-11  Score=104.29  Aligned_cols=77  Identities=13%  Similarity=0.184  Sum_probs=59.8

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHH-HhCCChhh
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDIL-VKLNDSTH   82 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~   82 (274)
                      +.|++++|..+|+++.+.   .|.+...|..++..+.+.|++++|..+|+++...  .|+...|...+... ...|+.+.
T Consensus        24 ~~~~~~~a~~~~e~al~~---~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~p~~~lw~~~~~~~~~~~~~~~~   98 (530)
T 2ooe_A           24 QNQPIDKARKTYERLVAQ---FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--VLHIDLWKCYLSYVRETKGKLPS   98 (530)
T ss_dssp             HSSCHHHHHHHHHHHHTT---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--CCCHHHHHHHHHHHHHHTTTSTT
T ss_pred             HhCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCChHHHHHHHHHHHHHccchhh
Confidence            468999999999999776   8888999999999999999999999999999875  36766666555322 23445544


Q ss_pred             HHH
Q 048737           83 TVQ   85 (274)
Q Consensus        83 a~~   85 (274)
                      |.+
T Consensus        99 a~~  101 (530)
T 2ooe_A           99 YKE  101 (530)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.57  E-value=1.5e-13  Score=107.09  Aligned_cols=171  Identities=14%  Similarity=0.077  Sum_probs=139.5

Q ss_pred             CHHHHHHHHHHHHhCCChhhHHHHHHHHHhc-------CCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc-----
Q 048737           63 TLKFFSNALDILVKLNDSTHTVQLWDIMVGI-------GFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH-----  130 (274)
Q Consensus        63 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----  130 (274)
                      +..++..+...+...|++++|..+++++.+.       .  .+....++..+...|...|++++|...+++....     
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  103 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHD--HPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTL  103 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSS--SHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCC--CHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence            3567888899999999999999999999873       2  2445778899999999999999999999988764     


Q ss_pred             -CC-CCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC------CCCC-CcchHHHHHHHHHhcCChHHHHHHHHHHHHC-
Q 048737          131 -GA-FPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN------EWQP-TPLNCATAITMLLDADEPEFAIEIWNYILEN-  200 (274)
Q Consensus       131 -~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  200 (274)
                       +- +....++..+...|...|++++|...+++..+.      +..| ....+..+...+...|++++|...+++..+. 
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             21 223677889999999999999999999998764      2122 3456788899999999999999999998764 


Q ss_pred             -----CCCc-cHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          201 -----GILP-LEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       201 -----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                           +..| ...++..+...|...|++++|...++++.+.
T Consensus       184 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  224 (311)
T 3nf1_A          184 QTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTR  224 (311)
T ss_dssp             HHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                 2123 3467888999999999999999999998763

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.56  E-value=6.6e-13  Score=95.28  Aligned_cols=166  Identities=7%  Similarity=-0.031  Sum_probs=138.9

Q ss_pred             HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 048737           64 LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIF  143 (274)
Q Consensus        64 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  143 (274)
                      ...+..+...+...|++++|...++++.+..   +.+..++..+...+...|++++|...++++.+.. +.+...+..+.
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a   83 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD---AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLG   83 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT---SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC---ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHH
Confidence            3456777888889999999999999988765   5577888899999999999999999999988763 34678888888


Q ss_pred             HHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcc
Q 048737          144 ECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLS  223 (274)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  223 (274)
                      ..+...|++++|...++++.+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|+++
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  161 (186)
T 3as5_A           84 LTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHE  161 (186)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHH
Confidence            99999999999999999988753 3456778888889999999999999999988765 345678888899999999999


Q ss_pred             hHHHHHHHHHhC
Q 048737          224 DVRRFAEEMLNR  235 (274)
Q Consensus       224 ~a~~~~~~m~~~  235 (274)
                      +|...+++..+.
T Consensus       162 ~A~~~~~~~~~~  173 (186)
T 3as5_A          162 EALPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc
Confidence            999999988764

>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=99.56  E-value=1.3e-12  Score=97.49  Aligned_cols=197  Identities=5%  Similarity=-0.072  Sum_probs=154.5

Q ss_pred             CchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHH
Q 048737           26 PEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYN  105 (274)
Q Consensus        26 p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  105 (274)
                      |.++..|......+...|++++|+..|++..+..-+++...+..+..++...|++++|...+++..+..   +.+..+|.
T Consensus         4 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~   80 (228)
T 4i17_A            4 TTDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN---YNLANAYI   80 (228)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CSHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC---cchHHHHH
Confidence            446788999999999999999999999999986533788888889999999999999999999999876   55788899


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCCCh-------hhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCC---cchHH
Q 048737          106 AVVGLLCNNNDVDNVFRFFDQMVFHGAFPDS-------LTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT---PLNCA  175 (274)
Q Consensus       106 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~  175 (274)
                      .+..+|...|++++|...|++..+... .+.       ..|..+...+...|++++|+..|++.++.  .|+   ...+.
T Consensus        81 ~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~  157 (228)
T 4i17_A           81 GKSAAYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALY  157 (228)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHH
Confidence            999999999999999999999988532 234       45888888899999999999999999875  454   45666


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC
Q 048737          176 TAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       176 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  236 (274)
                      .+..+|...|     ..+++++...+. .+...|....  ....+.+++|...+++..+..
T Consensus       158 ~l~~~~~~~~-----~~~~~~a~~~~~-~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          158 SLGVLFYNNG-----ADVLRKATPLAS-SNKEKYASEK--AKADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHHHHHH-----HHHHHHHGGGTT-TCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHH-----HHHHHHHHhccc-CCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcC
Confidence            7777775543     444555555432 3334444433  334567899999999998763

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.55  E-value=3.2e-13  Score=109.66  Aligned_cols=242  Identities=10%  Similarity=0.004  Sum_probs=185.6

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCH----HHHHHHHHHHHhCCChhhHHHHHHHHHhcCC---ccCcc
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTL----KFFSNALDILVKLNDSTHTVQLWDIMVGIGF---NLMPN  100 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~  100 (274)
                      ....+..+...+...|++++|+..|+++.+.+ +.+.    ..+..+...+...|++++|...+++..+...   +.+..
T Consensus        47 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  125 (411)
T 4a1s_A           47 MCLELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGE  125 (411)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHH
Confidence            44556677888999999999999999998853 2233    4788888999999999999999999876410   01334


Q ss_pred             HHhHHHHHHHHHhcCChhhHHHHHHHHHhcC----CC-CChhhHHHHHHHHHhcCC-----------------HhHHHHH
Q 048737          101 LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHG----AF-PDSLTYNMIFECLIKNKK-----------------VHEVENF  158 (274)
Q Consensus       101 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~-~~~~~~~~li~~~~~~~~-----------------~~~a~~~  158 (274)
                      ..++..+...|...|++++|...+++..+..    -. ....++..+...|...|+                 +++|...
T Consensus       126 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~  205 (411)
T 4a1s_A          126 AKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEF  205 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHH
Confidence            6778899999999999999999999876531    11 235578889999999999                 9999999


Q ss_pred             HHHHHhC----CCCC-CcchHHHHHHHHHhcCChHHHHHHHHHHHHCCC-----CccHHHHHHHHHHHHhcCCcchHHHH
Q 048737          159 FHEMIKN----EWQP-TPLNCATAITMLLDADEPEFAIEIWNYILENGI-----LPLEASANVLLVGLRNLGRLSDVRRF  228 (274)
Q Consensus       159 ~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~a~~~  228 (274)
                      +.+..+.    +..+ ...++..+...+...|++++|...+++..+...     .....++..+...|...|++++|...
T Consensus       206 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  285 (411)
T 4a1s_A          206 YQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEH  285 (411)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHH
Confidence            9887542    1111 234778888999999999999999998876321     11123788889999999999999999


Q ss_pred             HHHHHhCCC-----ccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          229 AEEMLNRRI-----LIYDVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       229 ~~~m~~~~~-----~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      +++..+...     .....++..+...+...|+.  |.+.++++++...
T Consensus       286 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  334 (411)
T 4a1s_A          286 YKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQ  334 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            998865311     11256788888999999988  8888888877644

>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=99.54  E-value=1.1e-12  Score=113.32  Aligned_cols=166  Identities=10%  Similarity=0.064  Sum_probs=147.2

Q ss_pred             CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHH
Q 048737           63 TLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMI  142 (274)
Q Consensus        63 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  142 (274)
                      +...|+.|...+.+.|++++|.+.|++.++..   +-+..+|+.+..+|.+.|++++|++.|++..+... -+...|..+
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~---P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P-~~~~a~~nL   83 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF---PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP-TFADAYSNM   83 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHH
Confidence            46789999999999999999999999999975   55688999999999999999999999999988632 257899999


Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCc
Q 048737          143 FECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRL  222 (274)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  222 (274)
                      ..+|...|++++|++.|++.++.. +-+...|..+..+|.+.|++++|+..|++..+... -+...+..+..+|...|++
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-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKP-DFPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHhhhhhHHHhcccH
Confidence            999999999999999999998853 23467899999999999999999999999998653 4567899999999999999


Q ss_pred             chHHHHHHHHHh
Q 048737          223 SDVRRFAEEMLN  234 (274)
Q Consensus       223 ~~a~~~~~~m~~  234 (274)
                      ++|.+.+++..+
T Consensus       162 ~~A~~~~~kal~  173 (723)
T 4gyw_A          162 TDYDERMKKLVS  173 (723)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999888764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.54  E-value=1.3e-13  Score=111.59  Aligned_cols=256  Identities=11%  Similarity=-0.029  Sum_probs=189.5

Q ss_pred             cccccchHHHHHHHHHHHhc---cCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCC-CCC----HHHHHHHHHH
Q 048737            2 WEKEGNVVEANKTFGEMVER---FEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC-FPT----LKFFSNALDI   73 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~---~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~   73 (274)
                      |...|++++|...|++....   .+-.|....++..+...+...|++++|+..+++..+... .++    ..++..+...
T Consensus        57 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~  136 (406)
T 3sf4_A           57 YFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNV  136 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHH
Confidence            45679999999999876432   233444577889999999999999999999998875310 112    4477888889


Q ss_pred             HHhCCC--------------------hhhHHHHHHHHHhcCC---ccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737           74 LVKLND--------------------STHTVQLWDIMVGIGF---NLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus        74 ~~~~~~--------------------~~~a~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      +...|+                    ++.|...+++......   +.+....++..+...|...|++++|...+++..+.
T Consensus       137 ~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  216 (406)
T 3sf4_A          137 YHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLI  216 (406)
T ss_dssp             HHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHH
T ss_pred             HHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            999999                    9999999988765310   01223457888999999999999999999987653


Q ss_pred             CC-CCC----hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCC-CCC----cchHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 048737          131 GA-FPD----SLTYNMIFECLIKNKKVHEVENFFHEMIKNEW-QPT----PLNCATAITMLLDADEPEFAIEIWNYILEN  200 (274)
Q Consensus       131 ~~-~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  200 (274)
                      .. .++    ..++..+...|...|++++|...+++..+... .++    ..++..+...+...|++++|...+++..+.
T Consensus       217 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  296 (406)
T 3sf4_A          217 AKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  296 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            11 112    34788899999999999999999998865310 111    457788899999999999999999988753


Q ss_pred             ----CCCc-cHHHHHHHHHHHHhcCCcchHHHHHHHHHhC----CC-ccCHHHHHHHHHHHHhcChh
Q 048737          201 ----GILP-LEASANVLLVGLRNLGRLSDVRRFAEEMLNR----RI-LIYDVTMQKLKKAFYNESRS  257 (274)
Q Consensus       201 ----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~----~~-~~~~~~~~~l~~~~~~~g~~  257 (274)
                          +..+ ...++..+...|...|++++|...+++..+.    +. .....++..+...+...|+.
T Consensus       297 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          297 AQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence                1111 1457788889999999999999999987653    22 22345666677777776654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.53  E-value=8.5e-12  Score=100.06  Aligned_cols=266  Identities=11%  Similarity=0.044  Sum_probs=188.8

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchH----hHHHHHHHHHhccCcHHHHHHHHHHHhcCC-CCCCH----HHHHHHHHH
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHV----LAYETFLITLIRGKQVDEALKFLRVMKGEN-CFPTL----KFFSNALDI   73 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~----~~~~~l~~~   73 (274)
                      ...|++++|...+++.....  .+.+.    .+++.+...+...|++++|...+++..+.. -.++.    .++..+...
T Consensus        25 ~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  102 (373)
T 1hz4_A           25 INDGNPDEAERLAKLALEEL--PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  102 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHHTC--CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHcC--CCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            45799999999999987642  12122    256677788899999999999999876521 01222    335667788


Q ss_pred             HHhCCChhhHHHHHHHHHhcCCc--cC--c-cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCC--C--ChhhHHHHHH
Q 048737           74 LVKLNDSTHTVQLWDIMVGIGFN--LM--P-NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAF--P--DSLTYNMIFE  144 (274)
Q Consensus        74 ~~~~~~~~~a~~~~~~~~~~~~~--~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~--~~~~~~~li~  144 (274)
                      +...|+++.|...+++..+....  .+  | ....+..+...+...|++++|...+++.......  +  ...++..+..
T Consensus       103 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  182 (373)
T 1hz4_A          103 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQ  182 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHH
Confidence            89999999999999988764200  11  2 3456677888999999999999999988764221  1  2356778888


Q ss_pred             HHHhcCCHhHHHHHHHHHHhCCCCCCc-chHH-----HHHHHHHhcCChHHHHHHHHHHHHCCCCc---cHHHHHHHHHH
Q 048737          145 CLIKNKKVHEVENFFHEMIKNEWQPTP-LNCA-----TAITMLLDADEPEFAIEIWNYILENGILP---LEASANVLLVG  215 (274)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~  215 (274)
                      .+...|++++|...+++.......++. ..+.     ..+..+...|+++.|...+++.......+   ....+..+...
T Consensus       183 ~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~  262 (373)
T 1hz4_A          183 CSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARA  262 (373)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHH
Confidence            899999999999999998754212221 1222     23344778999999999998877643211   12356677888


Q ss_pred             HHhcCCcchHHHHHHHHHhC----CCccCH-HHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          216 LRNLGRLSDVRRFAEEMLNR----RILIYD-VTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       216 ~~~~g~~~~a~~~~~~m~~~----~~~~~~-~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      +...|++++|...+++....    |..++. ..+..+..++...|+.  |...++..++...
T Consensus       263 ~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~  324 (373)
T 1hz4_A          263 QILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLAN  324 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhc
Confidence            99999999999999987543    322233 3666677788888887  8888888776543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.52  E-value=2.2e-12  Score=103.81  Aligned_cols=238  Identities=9%  Similarity=0.003  Sum_probs=138.0

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCC-CCCC----HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCc---cCc
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGEN-CFPT----LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFN---LMP   99 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~   99 (274)
                      ....|......+...|++++|+..|++..+.. ..++    ..++..+...+...|+++.|...+++..+....   ..+
T Consensus       100 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~  179 (378)
T 3q15_A          100 KYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSI  179 (378)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHH
T ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchh
Confidence            44455566667777777777777777765531 1122    345666667777777777777777666543100   011


Q ss_pred             -cHHhHHHHHHHHHhcCChhhHHHHHHHHHhc----CCCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHHHh-----CCCC
Q 048737          100 -NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH----GAFP-DSLTYNMIFECLIKNKKVHEVENFFHEMIK-----NEWQ  168 (274)
Q Consensus       100 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~  168 (274)
                       ...+++.+..+|...|++++|.+.|++..+.    +..+ ...++..+...|...|++++|...+++..+     .. +
T Consensus       180 ~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~  258 (378)
T 3q15_A          180 RTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-D  258 (378)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-G
T ss_pred             hHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-h
Confidence             2445666777777777777777777665432    2111 234566677777777777777777776655     22 2


Q ss_pred             CCcchHHHHHHHHHhcCChHHHHHHHHHHHHCC----CCccHHHHHHHHHHHHhcCC---cchHHHHHHHHHhCCCcc-C
Q 048737          169 PTPLNCATAITMLLDADEPEFAIEIWNYILENG----ILPLEASANVLLVGLRNLGR---LSDVRRFAEEMLNRRILI-Y  240 (274)
Q Consensus       169 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~m~~~~~~~-~  240 (274)
                      ....++..+...+.+.|++++|...+++..+..    -+.....+..+...|...++   +++|+..+++   .+..| .
T Consensus       259 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~  335 (378)
T 3q15_A          259 LLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYI  335 (378)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHH
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHH
Confidence            224556666777777777777777777666531    11223344445555555666   5555555554   22222 2


Q ss_pred             HHHHHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          241 DVTMQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       241 ~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      ...+..+...|...|+.  |.+.++++++..
T Consensus       336 ~~~~~~la~~y~~~g~~~~A~~~~~~al~~~  366 (378)
T 3q15_A          336 EACARSAAAVFESSCHFEQAAAFYRKVLKAQ  366 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            23455566667777766  666666665543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.51  E-value=1e-11  Score=102.59  Aligned_cols=261  Identities=11%  Similarity=0.028  Sum_probs=156.4

Q ss_pred             ccccchHHHHHHHHHHHhc------cCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcC-----C-CC-CCHHHHHH
Q 048737            3 EKEGNVVEANKTFGEMVER------FEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGE-----N-CF-PTLKFFSN   69 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~------~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~-~~-~~~~~~~~   69 (274)
                      ...|++++|++.|++..+-      ....|....+|+.+..+|...|++++|...+++..+.     + .. ....++..
T Consensus        62 ~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~  141 (472)
T 4g1t_A           62 HLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCE  141 (472)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHH
Confidence            4578999999999875431      1124556778999999999999999999999877541     1 11 23456666


Q ss_pred             HHHHHHh--CCChhhHHHHHHHHHhcCCccCccHHhHHHHHHH---HHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 048737           70 ALDILVK--LNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGL---LCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFE  144 (274)
Q Consensus        70 l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  144 (274)
                      +..++..  .+++++|...|++..+..   |.+...+..+..+   +...++.++|++.+++..+... .+..++..+..
T Consensus       142 ~g~~~~~~~~~~y~~A~~~~~kal~~~---p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p-~~~~~~~~l~~  217 (472)
T 4g1t_A          142 EGWTRLKCGGNQNERAKVCFEKALEKK---PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNP-DNQYLKVLLAL  217 (472)
T ss_dssp             HHHHHHHHCTTHHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCS-SCHHHHHHHHH
T ss_pred             HHHHHHHHccccHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCC-cchHHHHHHHH
Confidence            5555544  356889999999988865   3344555544444   3344666777777776665421 23444444444


Q ss_pred             HHHh----cCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCC------------------
Q 048737          145 CLIK----NKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGI------------------  202 (274)
Q Consensus       145 ~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------------------  202 (274)
                      .+..    .+++++|.+.+++..... +.+...+..+...|...|++++|...+.+..+...                  
T Consensus       218 ~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~  296 (472)
T 4g1t_A          218 KLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVF  296 (472)
T ss_dssp             HHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHH
Confidence            3333    345566666666665532 23344566666666666666666666666554321                  


Q ss_pred             ----------------------------------CccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHH--HHHH
Q 048737          203 ----------------------------------LPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDV--TMQK  246 (274)
Q Consensus       203 ----------------------------------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--~~~~  246 (274)
                                                        +.+..++..+...|...|++++|...|++..+....|...  .+..
T Consensus       297 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~  376 (472)
T 4g1t_A          297 QVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLR  376 (472)
T ss_dssp             HHHHC------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHH
T ss_pred             HhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHH
Confidence                                              1222345556667777888888888888887764433221  1222


Q ss_pred             HHH-HHHhcChh--HHHHHHHHHHH
Q 048737          247 LKK-AFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       247 l~~-~~~~~g~~--a~~~~~~~~~~  268 (274)
                      +.. .....|+.  |...+.++++.
T Consensus       377 ~~~~~~~~~~~~~~Ai~~y~kal~i  401 (472)
T 4g1t_A          377 YGNFQLYQMKCEDKAIHHFIEGVKI  401 (472)
T ss_dssp             HHHHHHHTSSCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            222 22345555  77777776654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.50  E-value=2e-12  Score=101.58  Aligned_cols=242  Identities=8%  Similarity=-0.045  Sum_probs=182.9

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC----HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCC---ccCcc
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT----LKFFSNALDILVKLNDSTHTVQLWDIMVGIGF---NLMPN  100 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~  100 (274)
                      +...+......+...|++++|+..|+++.+.. +.+    ...+..+...+...|+++.|...+++......   +.+..
T Consensus         4 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~   82 (338)
T 3ro2_A            4 SCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGE   82 (338)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHH
Confidence            34456677888999999999999999998853 223    36778889999999999999999998765310   01223


Q ss_pred             HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCC-CCC----hhhHHHHHHHHHhcCC--------------------HhHH
Q 048737          101 LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGA-FPD----SLTYNMIFECLIKNKK--------------------VHEV  155 (274)
Q Consensus       101 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~~~--------------------~~~a  155 (274)
                      ..++..+...|...|++++|...+++..+... .++    ..++..+...+...|+                    +++|
T Consensus        83 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A  162 (338)
T 3ro2_A           83 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAA  162 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHH
Confidence            66788899999999999999999998765311 112    3478888899999999                    9999


Q ss_pred             HHHHHHHHhC----CCCC-CcchHHHHHHHHHhcCChHHHHHHHHHHHHC----CC-CccHHHHHHHHHHHHhcCCcchH
Q 048737          156 ENFFHEMIKN----EWQP-TPLNCATAITMLLDADEPEFAIEIWNYILEN----GI-LPLEASANVLLVGLRNLGRLSDV  225 (274)
Q Consensus       156 ~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~a  225 (274)
                      ...+++..+.    +..+ ....+..+...+...|++++|...+++..+.    +. .....++..+...+...|++++|
T Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  242 (338)
T 3ro2_A          163 VDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  242 (338)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHH
Confidence            9999887542    1111 1346778889999999999999999988753    11 11234788888999999999999


Q ss_pred             HHHHHHHHhC----CCcc-CHHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          226 RRFAEEMLNR----RILI-YDVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       226 ~~~~~~m~~~----~~~~-~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      ...+++..+.    +..+ ...++..+...+...|+.  |.+.++++++...
T Consensus       243 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  294 (338)
T 3ro2_A          243 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQ  294 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence            9999987653    1111 156777888899999988  8888888876644

>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=99.50  E-value=7.9e-12  Score=93.20  Aligned_cols=193  Identities=11%  Similarity=-0.045  Sum_probs=145.5

Q ss_pred             CCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHH
Q 048737           61 FPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYN  140 (274)
Q Consensus        61 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  140 (274)
                      +.|+..+......+...|++++|...|++..+..  .+++...+..+..++.+.|++++|+..|++..+... .+...|.
T Consensus         4 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~   80 (228)
T 4i17_A            4 TTDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLT--NNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNY-NLANAYI   80 (228)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-SHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHccCHHHHHHHHHHHHhcc--CCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCc-chHHHHH
Confidence            3567888899999999999999999999999976  227788888899999999999999999999988632 2577899


Q ss_pred             HHHHHHHhcCCHhHHHHHHHHHHhCCCCCC-c-------chHHHHHHHHHhcCChHHHHHHHHHHHHCCCCcc---HHHH
Q 048737          141 MIFECLIKNKKVHEVENFFHEMIKNEWQPT-P-------LNCATAITMLLDADEPEFAIEIWNYILENGILPL---EASA  209 (274)
Q Consensus       141 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~  209 (274)
                      .+...|...|++++|...+++..+..  |+ .       ..|..+...+...|++++|...|++..+..  |+   ...+
T Consensus        81 ~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~  156 (228)
T 4i17_A           81 GKSAAYRDMKNNQEYIATLTEGIKAV--PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT--SKKWKTDAL  156 (228)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS--CHHHHHHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC--CCcccHHHH
Confidence            99999999999999999999998753  44 3       357778888999999999999999998864  44   5677


Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          210 NVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       210 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                      ..+..+|...|+     .+++++...+ ..+...|.......  .+..  |...++++++.
T Consensus       157 ~~l~~~~~~~~~-----~~~~~a~~~~-~~~~~~~~~~~~~~--~~~~~~A~~~~~~a~~l  209 (228)
T 4i17_A          157 YSLGVLFYNNGA-----DVLRKATPLA-SSNKEKYASEKAKA--DAAFKKAVDYLGEAVTL  209 (228)
T ss_dssp             HHHHHHHHHHHH-----HHHHHHGGGT-TTCHHHHHHHHHHH--HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-----HHHHHHHhcc-cCCHHHHHHHHHHH--HHHHHHHHHHHHHHhhc
Confidence            777777765543     3445554443 22344444433222  2222  66666666543

>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=99.48  E-value=3.9e-11  Score=107.54  Aligned_cols=201  Identities=9%  Similarity=0.052  Sum_probs=147.3

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      ++.+|..+..++...|++++|++.|.+.      -|...|..++.++.+.|++++|.+++....+..    ++....+.+
T Consensus      1104 ~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~----~e~~Idt~L 1173 (1630)
T 1xi4_A         1104 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA----RESYVETEL 1173 (1630)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc----ccccccHHH
Confidence            5668888999999999999999998653      467788889999999999999999998877753    343344458


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCh
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEP  187 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  187 (274)
                      +.+|++.+++++...+.    .   .|+...|..+...|...|++++|..+|...         ..|..+..++.+.|++
T Consensus      1174 afaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~ 1237 (1630)
T 1xi4_A         1174 IFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEY 1237 (1630)
T ss_pred             HHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCH
Confidence            88888888877533332    2   356667777888888888888888888874         3788888888888888


Q ss_pred             HHHHHHHHHHHHC------------------------CCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHH
Q 048737          188 EFAIEIWNYILEN------------------------GILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVT  243 (274)
Q Consensus       188 ~~a~~~~~~~~~~------------------------~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  243 (274)
                      +.|.+.+++....                        ++..+...+..++..|.+.|.+++|+.+++...... .-....
T Consensus      1238 q~AIEaarKA~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gm 1316 (1630)
T 1xi4_A         1238 QAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGM 1316 (1630)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHH
Confidence            8888877654321                        112244566778888889999999999998776554 334455


Q ss_pred             HHHHHHHHHhcC
Q 048737          244 MQKLKKAFYNES  255 (274)
Q Consensus       244 ~~~l~~~~~~~g  255 (274)
                      |+-+...+++..
T Consensus      1317 ftELaiLyaKy~ 1328 (1630)
T 1xi4_A         1317 FTELAILYSKFK 1328 (1630)
T ss_pred             HHHHHHHHHhCC
Confidence            666666666654

>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=99.47  E-value=1.3e-12  Score=100.19  Aligned_cols=229  Identities=10%  Similarity=-0.007  Sum_probs=157.6

Q ss_pred             hccCcHHHHHHHHHHHhc-------CCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcC-----CccCccHHhHHHH
Q 048737           40 IRGKQVDEALKFLRVMKG-------ENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIG-----FNLMPNLIMYNAV  107 (274)
Q Consensus        40 ~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~~~l  107 (274)
                      ...|++++|+.++++..+       ...+....++..+...+...|++++|...++++.+..     .+.+....++..+
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            445666666666665544       2223346678889999999999999999999998651     0013456789999


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhc------CC-CCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC------CCCC-Ccch
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFH------GA-FPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN------EWQP-TPLN  173 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~  173 (274)
                      ..+|...|++++|...|++....      .. +....++..+...|...|++++|...+++..+.      +..| ...+
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            99999999999999999988764      11 223678889999999999999999999998764      1122 2457


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHC-------CCCcc-HHHHHHHHHHHHhcCCcchHHHHHHHHHh------CCCcc
Q 048737          174 CATAITMLLDADEPEFAIEIWNYILEN-------GILPL-EASANVLLVGLRNLGRLSDVRRFAEEMLN------RRILI  239 (274)
Q Consensus       174 ~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~------~~~~~  239 (274)
                      +..+...+...|++++|...+++..+.       ...+. ...+..+...+...+....+..+ .....      ...+.
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  250 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPY-GEYGSWYKACKVDSPT  250 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC-------------CCCCCCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHH-HHHHHHHHhcCCCCHH
Confidence            888999999999999999999988763       11222 23344444444444444333332 22211      11233


Q ss_pred             CHHHHHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          240 YDVTMQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       240 ~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      ...++..+...+...|+.  |.+.++++++..
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  282 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASRNR  282 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            446788899999999988  999998887653

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.44  E-value=3.1e-11  Score=97.07  Aligned_cols=228  Identities=9%  Similarity=-0.024  Sum_probs=171.7

Q ss_pred             ccccchHHHHHHHHHHHhcc---CCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCC-CCC-----CHHHHHHHHHH
Q 048737            3 EKEGNVVEANKTFGEMVERF---EWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGEN-CFP-----TLKFFSNALDI   73 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~---~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~-----~~~~~~~l~~~   73 (274)
                      ...|++++|+..|++.....   +-.|....++..+...|...|++++|+..+++..+.. -.+     ...+++.+..+
T Consensus       112 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~  191 (378)
T 3q15_A          112 FDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGN  191 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHH
Confidence            46799999999999986531   1123346688899999999999999999999887521 111     14577888999


Q ss_pred             HHhCCChhhHHHHHHHHHhcCCc---cCccHHhHHHHHHHHHhcCChhhHHHHHHHHHh-----cCCCCChhhHHHHHHH
Q 048737           74 LVKLNDSTHTVQLWDIMVGIGFN---LMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVF-----HGAFPDSLTYNMIFEC  145 (274)
Q Consensus        74 ~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~li~~  145 (274)
                      |...|+++.|...|++..+....   ......+++.+..+|...|++++|...|++..+     .. +....++..+...
T Consensus       192 y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la~~  270 (378)
T 3q15_A          192 YDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGLSWT  270 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHHHHH
Confidence            99999999999999999874200   112345788899999999999999999999876     32 2237788899999


Q ss_pred             HHhcCCHhHHHHHHHHHHhCCCC-CC---cchHHHHHHHHHhcCC---hHHHHHHHHHHHHCCCCcc-HHHHHHHHHHHH
Q 048737          146 LIKNKKVHEVENFFHEMIKNEWQ-PT---PLNCATAITMLLDADE---PEFAIEIWNYILENGILPL-EASANVLLVGLR  217 (274)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~  217 (274)
                      |.+.|++++|...+++..+.... ++   ...+..+...+...++   +.+|...+++   .+..|+ ...+..+...|.
T Consensus       271 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~  347 (378)
T 3q15_A          271 LCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFE  347 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHH
Confidence            99999999999999998764211 12   2345556666677788   6666666655   333333 356677889999


Q ss_pred             hcCCcchHHHHHHHHHh
Q 048737          218 NLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       218 ~~g~~~~a~~~~~~m~~  234 (274)
                      ..|++++|...|++..+
T Consensus       348 ~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          348 SSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            99999999999998765

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.43  E-value=5.9e-12  Score=92.67  Aligned_cols=154  Identities=8%  Similarity=0.075  Sum_probs=78.8

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHH----------------HHHHHhccCcHHHHHHHHHHHhcCCCCCCHH
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYET----------------FLITLIRGKQVDEALKFLRVMKGENCFPTLK   65 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~----------------li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   65 (274)
                      +.+.|++++|+..|++..+.   .|+++.+|..                +..++.+.|++++|+..|++..+.. +-+..
T Consensus        14 ~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~   89 (208)
T 3urz_A           14 AIEAGQNGQAVSYFRQTIAL---NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PNNVD   89 (208)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHCCCHHHHHHHHHHHHHh---CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHH
Confidence            34678999999999998776   7877777766                5555555555555555555555432 22344


Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCC--hhhHHHHHHHHHhcCCCCChhhHHHHH
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNND--VDNVFRFFDQMVFHGAFPDSLTYNMIF  143 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~li  143 (274)
                      .+..+..++...|++++|...|+++++..   |.+..+|..+..+|...|+  .+.+...++....  ..|....+....
T Consensus        90 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~---P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~~~~g  164 (208)
T 3urz_A           90 CLEACAEMQVCRGQEKDALRMYEKILQLE---ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYARYRDG  164 (208)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC---CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHHHHHH
Confidence            55555555555555555555555555543   3344445555544443332  2223333333321  111122222233


Q ss_pred             HHHHhcCCHhHHHHHHHHHHh
Q 048737          144 ECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      .++...|++++|...|++.++
T Consensus       165 ~~~~~~~~~~~A~~~~~~al~  185 (208)
T 3urz_A          165 LSKLFTTRYEKARNSLQKVIL  185 (208)
T ss_dssp             HHHHHHHTHHHHHHHHHHHTT
T ss_pred             HHHHHccCHHHHHHHHHHHHH
Confidence            334444555555555555544

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.42  E-value=3e-11  Score=92.06  Aligned_cols=106  Identities=5%  Similarity=-0.090  Sum_probs=84.5

Q ss_pred             CCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC---HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCcc
Q 048737           24 WNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT---LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPN  100 (274)
Q Consensus        24 ~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  100 (274)
                      ..|.++..+..+...+.+.|++++|+..|+++.+.. +.+   ...+..+..++.+.|+++.|...|+++++...+.+..
T Consensus        10 ~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~   88 (261)
T 3qky_A           10 LRHSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRV   88 (261)
T ss_dssp             -CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTH
T ss_pred             CCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchh
Confidence            356677888889999999999999999999998753 223   5778888899999999999999999999864111223


Q ss_pred             HHhHHHHHHHHHh--------cCChhhHHHHHHHHHhc
Q 048737          101 LIMYNAVVGLLCN--------NNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       101 ~~~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~  130 (274)
                      ...+..+..++..        .|++++|...|+++.+.
T Consensus        89 ~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~  126 (261)
T 3qky_A           89 PQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR  126 (261)
T ss_dssp             HHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH
Confidence            5667778888888        89999999999998875

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.42  E-value=2.1e-11  Score=94.52  Aligned_cols=201  Identities=10%  Similarity=-0.031  Sum_probs=133.1

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhcC----CCCCC-HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCcc-Cc--cHH
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKGE----NCFPT-LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNL-MP--NLI  102 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~--~~~  102 (274)
                      .|......|...|++++|++.|.+..+.    |-+++ ..+|+.+..+|...|++++|...|++..+..... .+  -..
T Consensus        39 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~  118 (292)
T 1qqe_A           39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (292)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            4666677778888888888888877652    21111 4577888888888888888888888887632000 11  145


Q ss_pred             hHHHHHHHHHhc-CChhhHHHHHHHHHhcCCCC-C----hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcc----
Q 048737          103 MYNAVVGLLCNN-NDVDNVFRFFDQMVFHGAFP-D----SLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPL----  172 (274)
Q Consensus       103 ~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----  172 (274)
                      +++.+..+|... |++++|+..|++..+..... +    ..++..+...+...|++++|+..|++..+........    
T Consensus       119 ~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  198 (292)
T 1qqe_A          119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (292)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHH
Confidence            778888888885 88888888888876532110 1    3467788888888888888888888888753222211    


Q ss_pred             --hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccH------HHHHHHHHHHH--hcCCcchHHHHHHHHH
Q 048737          173 --NCATAITMLLDADEPEFAIEIWNYILENGILPLE------ASANVLLVGLR--NLGRLSDVRRFAEEML  233 (274)
Q Consensus       173 --~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~--~~g~~~~a~~~~~~m~  233 (274)
                        .|..+..++...|+++.|...|++..+..  |+.      ..+..++.+|.  ..+++++|...|+.+.
T Consensus       199 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          199 KDYFLKKGLCQLAATDAVAAARTLQEGQSED--PNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence              45667778888888888888888876532  221      12344555553  3455666666665544

>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=99.40  E-value=1e-11  Score=86.40  Aligned_cols=142  Identities=11%  Similarity=0.031  Sum_probs=101.0

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      +...|++++|++.+......   .|.++..+..+...|.+.|++++|++.|++..+.. +-+..+|..+..++...|+++
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~---~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~   82 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPS---PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTD   82 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCS---HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcChHHHHHHHHHHhccc---CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchH
Confidence            34567888888888777443   67667777778888888888888888888887753 345777888888888888888


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHH-HHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRF-FDQMVFHGAFPDSLTYNMIFECLIKNKK  151 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~li~~~~~~~~  151 (274)
                      +|...|++.++..   +.+..+|..+..+|.+.|++++|.+. +++..+.. +-+..+|......+...|+
T Consensus        83 ~A~~~~~~al~~~---p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           83 KAVECYRRSVELN---PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCc
Confidence            8888888888765   44577788888888888887766554 46666642 1245666666666655553

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.39  E-value=3.8e-11  Score=81.19  Aligned_cols=129  Identities=9%  Similarity=0.140  Sum_probs=81.5

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHH
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGL  110 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~  110 (274)
                      +|..+...+...|++++|.++++++.+.+ +.+...+..+...+...|+++.|...++++...+   +.+...+..+...
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~   78 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD---PRSAEAWYNLGNA   78 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC---CCchHHHHHHHHH
Confidence            45566666667777777777777666542 3345566666666666677777777777766654   3445566666666


Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737          111 LCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      +...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+
T Consensus        79 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           79 YYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            666677777777766666542 22455566666666666666666666666654

>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=99.39  E-value=4.9e-12  Score=109.36  Aligned_cols=175  Identities=9%  Similarity=-0.084  Sum_probs=140.2

Q ss_pred             cccchHHHHHHHHHHHh-----ccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCC
Q 048737            4 KEGNVVEANKTFGEMVE-----RFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLN   78 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~-----~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   78 (274)
                      ..|++++|++.|++...     .....|++...|..+...+.+.|++++|++.|++..+.+ +-+...+..+..++...|
T Consensus       403 ~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g  481 (681)
T 2pzi_A          403 VLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLTG  481 (681)
T ss_dssp             TTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHT
T ss_pred             cccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHcC
Confidence            56889999999999871     002368788899999999999999999999999998753 446788888999999999


Q ss_pred             ChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHH
Q 048737           79 DSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENF  158 (274)
Q Consensus        79 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  158 (274)
                      ++++|...|+++.+..   +.+...|..+..++.+.|++++ .+.|++..+... .+...|..+..++.+.|++++|...
T Consensus       482 ~~~~A~~~~~~al~l~---P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          482 DYDSATKHFTEVLDTF---PGELAPKLALAATAELAGNTDE-HKFYQTVWSTND-GVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             CHHHHHHHHHHHHHHS---TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC---CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCC-chHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999999875   5567888999999999999999 999999887632 3577889999999999999999999


Q ss_pred             HHHHHhCCCCCC-cchHHHHHHHHHhcCC
Q 048737          159 FHEMIKNEWQPT-PLNCATAITMLLDADE  186 (274)
Q Consensus       159 ~~~~~~~~~~~~-~~~~~~l~~~~~~~~~  186 (274)
                      |++..+.  .|+ ...+..+..++...++
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            9988764  354 4566667777655444

>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=99.38  E-value=1.3e-11  Score=106.65  Aligned_cols=188  Identities=10%  Similarity=-0.035  Sum_probs=151.0

Q ss_pred             CCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHh--------cCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcC
Q 048737           23 EWNPEHVLAYETFLITLIRGKQVDEALKFLRVMK--------GENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIG   94 (274)
Q Consensus        23 ~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   94 (274)
                      ...|.++..+....   ...|++++|++.+++..        +. .+.+...+..+..++...|++++|...|+++.+..
T Consensus       388 ~~~p~~~~a~~~~a---~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~  463 (681)
T 2pzi_A          388 LVDPTDVAASVLQA---TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERV  463 (681)
T ss_dssp             CCCTTSTTHHHHHH---TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             cCCCCCcchHHhhc---ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC
Confidence            44565555444322   78899999999999998        32 24467788899999999999999999999999875


Q ss_pred             CccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchH
Q 048737           95 FNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNC  174 (274)
Q Consensus        95 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  174 (274)
                         +.+...|..+..++...|++++|.+.|++..+... -+...|..+..+|.+.|++++ +..|++..+.. +.+...|
T Consensus       464 ---p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~  537 (681)
T 2pzi_A          464 ---GWRWRLVWYRAVAELLTGDYDSATKHFTEVLDTFP-GELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAA  537 (681)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHH
T ss_pred             ---cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHH
Confidence               56788999999999999999999999999988632 257889999999999999999 99999998754 3356788


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCC
Q 048737          175 ATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGR  221 (274)
Q Consensus       175 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  221 (274)
                      ..+..++.+.|++++|...|++..+.+. -+...+..+..++...++
T Consensus       538 ~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          538 FGLARARSAEGDRVGAVRTLDEVPPTSR-HFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSCTTST-THHHHHHHHHHHTC----
T ss_pred             HHHHHHHHHcCCHHHHHHHHHhhcccCc-ccHHHHHHHHHHHHccCC
Confidence            9999999999999999999998877542 345677777777766554

>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=99.38  E-value=8.9e-12  Score=89.16  Aligned_cols=163  Identities=9%  Similarity=-0.010  Sum_probs=92.9

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHH
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGL  110 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~  110 (274)
                      .+..+...+.+.|++++|+..|++..+.. +.+...+..+..++...|++++|...++++....    |+...+..+...
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~----p~~~~~~~~~~~   82 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY----QDNSYKSLIAKL   82 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG----CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc----CChHHHHHHHHH
Confidence            44555666666677777777776665432 3345566666666666777777777766665543    233322222211


Q ss_pred             -HHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCC-CcchHHHHHHHHHhcCChH
Q 048737          111 -LCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQP-TPLNCATAITMLLDADEPE  188 (274)
Q Consensus       111 -~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  188 (274)
                       +.+.++...|...+++..+..+ -+...+..+...+...|++++|...|+++.+..-.+ +...+..+...+...|+.+
T Consensus        83 ~~~~~~~~~~a~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~  161 (176)
T 2r5s_A           83 ELHQQAAESPELKRLEQELAANP-DNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGN  161 (176)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSC
T ss_pred             HHHhhcccchHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCC
Confidence             1122233345666666665421 245666666667777777777777777666543111 2345666667777777777


Q ss_pred             HHHHHHHHHHH
Q 048737          189 FAIEIWNYILE  199 (274)
Q Consensus       189 ~a~~~~~~~~~  199 (274)
                      +|...|++...
T Consensus       162 ~A~~~y~~al~  172 (176)
T 2r5s_A          162 AIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHH
T ss_pred             cHHHHHHHHHH
Confidence            77766665543

>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=99.38  E-value=3e-10  Score=101.98  Aligned_cols=189  Identities=14%  Similarity=0.120  Sum_probs=151.0

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      +...|.+++|..+|++...       ...+.+.++.   ..+++++|.++.++.      -++.+|..+..++.+.|+++
T Consensus      1059 ai~lglyEEAf~IYkKa~~-------~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~k 1122 (1630)
T 1xi4_A         1059 AISNELFEEAFAIFRKFDV-------NTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVK 1122 (1630)
T ss_pred             HHhCCCHHHHHHHHHHcCC-------HHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHH
Confidence            3467899999999988631       2333444433   678899999998865      24788999999999999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHE  161 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (274)
                      +|...|.+.        .|...|..++.++.+.|++++|.+.|....+..  ++....+.++.+|.+.+++++...+.  
T Consensus      1123 EAIdsYiKA--------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI-- 1190 (1630)
T 1xi4_A         1123 EAIDSYIKA--------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI-- 1190 (1630)
T ss_pred             HHHHHHHhc--------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH--
Confidence            999999553        366788889999999999999999999887753  44444556899999999988655443  


Q ss_pred             HHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 048737          162 MIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEM  232 (274)
Q Consensus       162 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  232 (274)
                        +   .++...|..+...|...|++++|..+|...         ..|..+...|.+.|++++|.+.+++.
T Consensus      1191 --~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA 1247 (1630)
T 1xi4_A         1191 --N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA 1247 (1630)
T ss_pred             --h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh
Confidence              2   356667778999999999999999999884         48999999999999999999998876

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.37  E-value=3.2e-11  Score=102.24  Aligned_cols=154  Identities=3%  Similarity=-0.086  Sum_probs=121.5

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHH
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTV   84 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   84 (274)
                      .|++++|++.|++..+.   .|.+...|..+...+.+.|++++|++.|++..+.. +.+...+..+..++...|++++|.
T Consensus         2 ~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~   77 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH---RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAA   77 (568)
T ss_dssp             ----------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CccHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            58899999999998665   88889999999999999999999999999999863 456888999999999999999999


Q ss_pred             HHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc---CCHhHHHHHHHH
Q 048737           85 QLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKN---KKVHEVENFFHE  161 (274)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---~~~~~a~~~~~~  161 (274)
                      +.+++..+..   +.+...+..+..+|.+.|++++|.+.|++..+... .+...+..+...+...   |++++|...+++
T Consensus        78 ~~~~~al~~~---p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~  153 (568)
T 2vsy_A           78 VLLQQASDAA---PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRLCDWRALDVLSAQVRA  153 (568)
T ss_dssp             HHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHH
T ss_pred             HHHHHHHhcC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhccccHHHHHHHHHH
Confidence            9999999975   56788999999999999999999999999988632 3578889999999999   999999999999


Q ss_pred             HHhCC
Q 048737          162 MIKNE  166 (274)
Q Consensus       162 ~~~~~  166 (274)
                      ..+.+
T Consensus       154 al~~~  158 (568)
T 2vsy_A          154 AVAQG  158 (568)
T ss_dssp             HHHHT
T ss_pred             HHhcC
Confidence            98754

>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=99.36  E-value=7.9e-11  Score=79.60  Aligned_cols=127  Identities=9%  Similarity=0.125  Sum_probs=58.0

Q ss_pred             HHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048737           67 FSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECL  146 (274)
Q Consensus        67 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  146 (274)
                      +..+...+...|++++|..+++++.+..   +.+...+..+...+...|++++|...++++...+ +.+...+..+...+
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD---PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC---CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHH
Confidence            3344444455555555555555554433   2334444444555555555555555555544432 12334444444444


Q ss_pred             HhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHH
Q 048737          147 IKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYIL  198 (274)
Q Consensus       147 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  198 (274)
                      ...|++++|...++++.+.. +.+...+..+...+...|++++|...+.++.
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  130 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL  130 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            44555555555554444322 1123334444444444444444444444443

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.36  E-value=5.4e-10  Score=89.50  Aligned_cols=239  Identities=11%  Similarity=-0.054  Sum_probs=169.1

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHH----HHHHHHHHHHhCCChhhHHHHHHHHHhcCCcc-Cc--cHHh
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKGENCFPTLK----FFSNALDILVKLNDSTHTVQLWDIMVGIGFNL-MP--NLIM  103 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~--~~~~  103 (274)
                      .+......+...|++++|...+++.....-..+..    .+..+...+...|+++.|...+++........ .+  ...+
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   95 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   95 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            34455667778999999999999988753222222    45667778889999999999999987642000 11  1234


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhc----CCC--C-ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCC--C--Ccc
Q 048737          104 YNAVVGLLCNNNDVDNVFRFFDQMVFH----GAF--P-DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQ--P--TPL  172 (274)
Q Consensus       104 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--~--~~~  172 (274)
                      +..+...+...|++++|...+++..+.    +..  | ....+..+...+...|++++|...+++.......  +  ...
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            677888899999999999999987653    211  2 2456677888899999999999999998764211  1  124


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccH-HHHH-----HHHHHHHhcCCcchHHHHHHHHHhCCCcc---CHHH
Q 048737          173 NCATAITMLLDADEPEFAIEIWNYILENGILPLE-ASAN-----VLLVGLRNLGRLSDVRRFAEEMLNRRILI---YDVT  243 (274)
Q Consensus       173 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~-----~l~~~~~~~g~~~~a~~~~~~m~~~~~~~---~~~~  243 (274)
                      .+..+...+...|++++|...+++.......++. ..+.     ..+..+...|++++|...+++.......+   ....
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            5777888899999999999999988753211111 1121     23344779999999999999987643221   2335


Q ss_pred             HHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          244 MQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       244 ~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                      +..+...+...|+.  |.+.++.+.+..
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~  283 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENA  283 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            66778888888987  888888776654

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.36  E-value=1.2e-10  Score=85.62  Aligned_cols=130  Identities=7%  Similarity=0.013  Sum_probs=70.2

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCC
Q 048737          107 VVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADE  186 (274)
Q Consensus       107 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  186 (274)
                      +..+|.+.|++++|...|++..+..+ -+...+..+...+...|++++|...|++.++.. +.+...+..+..+|...|+
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKAP-NNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhH
Confidence            66666666666666666666665421 245666666666666667777776666666532 2234455555555544432


Q ss_pred             --hHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHH
Q 048737          187 --PEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDV  242 (274)
Q Consensus       187 --~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  242 (274)
                        ...+...+....  ...|....+.....++...|++++|...|++..+.  .|+..
T Consensus       138 ~~~~~~~~~~~~~~--~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~  191 (208)
T 3urz_A          138 QEKKKLETDYKKLS--SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTE  191 (208)
T ss_dssp             HHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHH
T ss_pred             HHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHH
Confidence              233334443332  12232223333444455566777777777776654  45543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.36  E-value=2.5e-10  Score=86.92  Aligned_cols=169  Identities=9%  Similarity=0.005  Sum_probs=136.7

Q ss_pred             CCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCcc---HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCC-CCC-h
Q 048737           62 PTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPN---LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGA-FPD-S  136 (274)
Q Consensus        62 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~-~  136 (274)
                      .+...+..+...+.+.|++++|...|+++++..   +.+   ...+..+..+|.+.|++++|...|++..+..+ .|. .
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~---p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~   89 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG---RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVP   89 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC---SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC---CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhH
Confidence            456777888889999999999999999999875   333   67888999999999999999999999988632 112 4


Q ss_pred             hhHHHHHHHHHh--------cCCHhHHHHHHHHHHhCCCCCCc-chH-----------------HHHHHHHHhcCChHHH
Q 048737          137 LTYNMIFECLIK--------NKKVHEVENFFHEMIKNEWQPTP-LNC-----------------ATAITMLLDADEPEFA  190 (274)
Q Consensus       137 ~~~~~li~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~-~~~-----------------~~l~~~~~~~~~~~~a  190 (274)
                      ..+..+..++..        .|++++|...|++.++..  |+. ...                 ..+...|.+.|++++|
T Consensus        90 ~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  167 (261)
T 3qky_A           90 QAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAA  167 (261)
T ss_dssp             HHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHH
Confidence            567778888888        999999999999998753  443 333                 4567889999999999


Q ss_pred             HHHHHHHHHCCCCc--cHHHHHHHHHHHHhc----------CCcchHHHHHHHHHhC
Q 048737          191 IEIWNYILENGILP--LEASANVLLVGLRNL----------GRLSDVRRFAEEMLNR  235 (274)
Q Consensus       191 ~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~----------g~~~~a~~~~~~m~~~  235 (274)
                      ...|+++.+.....  ....+..+..+|...          |++++|...|+++.+.
T Consensus       168 ~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          168 AVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            99999998854321  345777788888766          8899999999999876

>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=99.35  E-value=3.4e-10  Score=83.47  Aligned_cols=178  Identities=12%  Similarity=0.053  Sum_probs=130.7

Q ss_pred             HHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCC----ChhhHH
Q 048737            9 VEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLN----DSTHTV   84 (274)
Q Consensus         9 ~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~   84 (274)
                      .+|++.|++..+. |    ++.++..|...|...+++++|+++|++..+.|   ++..+..|...|.. +    ++++|.
T Consensus         3 ~eA~~~~~~aa~~-g----~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~   73 (212)
T 3rjv_A            3 TEPGSQYQQQAEA-G----DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQAR   73 (212)
T ss_dssp             -CTTHHHHHHHHT-T----CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHH
T ss_pred             chHHHHHHHHHHC-C----CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHH
Confidence            3566777777664 2    66778888888888888888988888888765   56677777777776 6    788888


Q ss_pred             HHHHHHHhcCCccCccHHhHHHHHHHHHh----cCChhhHHHHHHHHHhcCCC-CChhhHHHHHHHHHh----cCCHhHH
Q 048737           85 QLWDIMVGIGFNLMPNLIMYNAVVGLLCN----NNDVDNVFRFFDQMVFHGAF-PDSLTYNMIFECLIK----NKKVHEV  155 (274)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a  155 (274)
                      ..|++..+.|     +...+..|...|..    .+++++|+..|++..+.|.. .+...+..|...|..    .+++++|
T Consensus        74 ~~~~~A~~~g-----~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A  148 (212)
T 3rjv_A           74 QLAEKAVEAG-----SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKA  148 (212)
T ss_dssp             HHHHHHHHTT-----CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHH
T ss_pred             HHHHHHHHCC-----CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHH
Confidence            8888887766     55677777777776    77888888888888776421 126677777777777    7788888


Q ss_pred             HHHHHHHHhCCCCCCcchHHHHHHHHHhc-C-----ChHHHHHHHHHHHHCCC
Q 048737          156 ENFFHEMIKNEWQPTPLNCATAITMLLDA-D-----EPEFAIEIWNYILENGI  202 (274)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~~~~~~  202 (274)
                      ...|++..+.  ..+...+..|...|... |     ++++|...|++..+.|.
T Consensus       149 ~~~~~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          149 SEYFKGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            8888888775  23445666676666543 2     78888888888777764

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.35  E-value=4.2e-11  Score=92.88  Aligned_cols=196  Identities=9%  Similarity=-0.009  Sum_probs=141.2

Q ss_pred             cccccchHHHHHHHHHHHhc---cCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCC-CCC----HHHHHHHHHH
Q 048737            2 WEKEGNVVEANKTFGEMVER---FEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENC-FPT----LKFFSNALDI   73 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~---~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~   73 (274)
                      |...|++++|.+.|++....   .|-.+....+|+.+..+|.+.|++++|+..|++..+... ..+    ..++..+...
T Consensus        47 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~  126 (292)
T 1qqe_A           47 YRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEI  126 (292)
T ss_dssp             HHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            44578899999998876542   122222367899999999999999999999998875311 012    3578888999


Q ss_pred             HHhC-CChhhHHHHHHHHHhcCCcc-Cc--cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCCh------hhHHHHH
Q 048737           74 LVKL-NDSTHTVQLWDIMVGIGFNL-MP--NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDS------LTYNMIF  143 (274)
Q Consensus        74 ~~~~-~~~~~a~~~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~li  143 (274)
                      |... |++++|...|++..+..... .+  ...+++.+...+.+.|++++|+..|++..+.......      ..|..+.
T Consensus       127 ~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  206 (292)
T 1qqe_A          127 LENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKG  206 (292)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHH
T ss_pred             HHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHH
Confidence            9996 99999999999998743000 01  1457889999999999999999999999886433222      1567788


Q ss_pred             HHHHhcCCHhHHHHHHHHHHhCCCCCCcc------hHHHHHHHHH--hcCChHHHHHHHHHHHH
Q 048737          144 ECLIKNKKVHEVENFFHEMIKNEWQPTPL------NCATAITMLL--DADEPEFAIEIWNYILE  199 (274)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~--~~~~~~~a~~~~~~~~~  199 (274)
                      .++...|++++|...|++..+.  .|+..      .+..++.++.  ..+++++|...|+.+..
T Consensus       207 ~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          207 LCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             HHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc
Confidence            8899999999999999998763  34321      2444556664  34667888887766544

>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=8.3e-10  Score=84.89  Aligned_cols=180  Identities=11%  Similarity=0.022  Sum_probs=84.8

Q ss_pred             HHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHH
Q 048737           48 ALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQM  127 (274)
Q Consensus        48 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  127 (274)
                      |+..|++..+.+ .++..++..+..++...|++++|++++.+.+..+. ..-+...+..++..+.+.|+.+.|.+.+++|
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~-~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDE-AEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCC-CcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            334444444332 33444444555555555666666666655554430 0124455555555666666666666666665


Q ss_pred             HhcCCCC-----ChhhHHHHHHH--HHhcC--CHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHH
Q 048737          128 VFHGAFP-----DSLTYNMIFEC--LIKNK--KVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYIL  198 (274)
Q Consensus       128 ~~~~~~~-----~~~~~~~li~~--~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  198 (274)
                      .+.  .|     +..+...+..+  ....|  ++.+|..+|+++.+.  .|+..+-..++.++...|++++|...++.+.
T Consensus       163 ~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          163 TNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             Hhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            542  33     23344444433  22223  555666666665442  2332222333335555566666666655443


Q ss_pred             HCC---------CCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          199 ENG---------ILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       199 ~~~---------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      +..         -+-++.+...++......|+  +|.+++.++.+.
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            320         02234444333333333444  555555555554

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.33  E-value=2.7e-10  Score=87.61  Aligned_cols=239  Identities=9%  Similarity=0.008  Sum_probs=159.5

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHH
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTV   84 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   84 (274)
                      .|.+..++.-...+.   ...+ +. .-.-+.+++...|++...         ..-.|....+..+...+ ..+    +.
T Consensus        26 ~G~yq~~i~e~~~~~---~~~~-~~-~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~----a~   86 (310)
T 3mv2_B           26 TGNFVQCLQEIEKFS---KVTD-NT-LLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK----NI   86 (310)
T ss_dssp             TTCHHHHTHHHHTSS---CCCC-HH-HHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT----CC
T ss_pred             hhHHHHHHHHHHhcC---ccch-HH-HHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc----HH
Confidence            466666665332221   1122 22 222345667766766531         11234433444333333 322    67


Q ss_pred             HHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCC-CCChhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737           85 QLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGA-FPDSLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      ..+++....+   +++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+++.|.+.+++|.
T Consensus        87 ~~l~~l~~~~---~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           87 EELENLLKDK---QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             HHHHHTTTTS---CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhcC---CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            8888887765   45566667888999999999999999999877653 2357888899999999999999999999998


Q ss_pred             hCCCCC-----CcchHHHHHHHH--HhcC--ChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          164 KNEWQP-----TPLNCATAITML--LDAD--EPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       164 ~~~~~~-----~~~~~~~l~~~~--~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      +.  .|     +..+...|..++  ...|  ++..|..+|+++.+..  |+..+-..++.++.+.|++++|.+.++.+.+
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--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF--PTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS--CSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC--CCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            74  56     356666676663  3334  8999999999987653  5433334444589999999999999997765


Q ss_pred             C-----C----CccCHHHHHHHHHHHHhcChhHHHHHHHHHHHh
Q 048737          235 R-----R----ILIYDVTMQKLKKAFYNESRSMRDRFDSLERRW  269 (274)
Q Consensus       235 ~-----~----~~~~~~~~~~l~~~~~~~g~~a~~~~~~~~~~~  269 (274)
                      .     +    -+-|+.++..+|......|+.|.++++++.+.-
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk~a~~l~~qL~~~~  283 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGLDTEDLTNQLVKLD  283 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTCTTHHHHHHHHHTT
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhChHHHHHHHHHHHhC
Confidence            3     1    133556665666666667777777777776543

>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=99.33  E-value=3.9e-10  Score=83.11  Aligned_cols=179  Identities=8%  Similarity=-0.065  Sum_probs=145.2

Q ss_pred             HHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcC----ChhhHH
Q 048737           46 DEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNN----DVDNVF  121 (274)
Q Consensus        46 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~  121 (274)
                      .+|++.|++..+.|   ++..+..|...+...+++++|...|++..+.|     +...+..|...|.. +    ++++|.
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g-----~~~a~~~lg~~y~~-~g~~~~~~~A~   73 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG-----DGDALALLAQLKIR-NPQQADYPQAR   73 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-----CHHHHHHHHHHTTS-STTSCCHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC-----CHHHHHHHHHHHHc-CCCCCCHHHHH
Confidence            35778888888764   78888889999999999999999999999877     56778888888888 6    899999


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHh----cCCHhHHHHHHHHHHhCCCC-CCcchHHHHHHHHHh----cCChHHHHH
Q 048737          122 RFFDQMVFHGAFPDSLTYNMIFECLIK----NKKVHEVENFFHEMIKNEWQ-PTPLNCATAITMLLD----ADEPEFAIE  192 (274)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~  192 (274)
                      ..|++..+.|   +...+..+...|..    .+++++|...|++..+.|.. .++..+..|...|..    .+++++|..
T Consensus        74 ~~~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~  150 (212)
T 3rjv_A           74 QLAEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASE  150 (212)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHH
T ss_pred             HHHHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            9999998754   67788888888877    88999999999999886521 026788888888888    789999999


Q ss_pred             HHHHHHHCCCCccHHHHHHHHHHHHhc-C-----CcchHHHHHHHHHhCCCc
Q 048737          193 IWNYILENGILPLEASANVLLVGLRNL-G-----RLSDVRRFAEEMLNRRIL  238 (274)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~m~~~~~~  238 (274)
                      .|++..+.+  .+...+..|...|... |     ++++|..+|+...+.|..
T Consensus       151 ~~~~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~  200 (212)
T 3rjv_A          151 YFKGSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFD  200 (212)
T ss_dssp             HHHHHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCH
Confidence            999998862  3344667777777653 3     899999999999888754

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.31  E-value=2.8e-09  Score=82.52  Aligned_cols=220  Identities=10%  Similarity=0.041  Sum_probs=170.5

Q ss_pred             chHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccC--cHHHHHHHHHHHhcCCCCCCHHHHHHHHHHH----HhC---
Q 048737            7 NVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGK--QVDEALKFLRVMKGENCFPTLKFFSNALDIL----VKL---   77 (274)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---   77 (274)
                      ..++|+++++.+...   .|.+..+|+.--..+...+  ++++++++++.+.... +-+..+|+.--..+    ...   
T Consensus        48 ~s~~aL~~t~~~L~~---nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~  123 (306)
T 3dra_A           48 YSERALHITELGINE---LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNND  123 (306)
T ss_dssp             CSHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTC
T ss_pred             CCHHHHHHHHHHHHH---CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhcccc
Confidence            346899999988665   8888889999888888888  9999999999998753 33455565544444    444   


Q ss_pred             CChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChh--hHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC----
Q 048737           78 NDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVD--NVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKK----  151 (274)
Q Consensus        78 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~----  151 (274)
                      ++++++..+++.+.+..   +.+..+|+.-..+..+.++++  ++++.++++.+..+. |-..|+.-...+...++    
T Consensus       124 ~~~~~EL~~~~~~l~~~---pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~  199 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD---PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATD  199 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCH
T ss_pred             CCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchh
Confidence            78899999999999876   678888988888888888888  999999999887543 77888877777777666    


Q ss_pred             --HhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHH-HHHHHHHHHHCC--CCccHHHHHHHHHHHHhcCCcchHH
Q 048737          152 --VHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEF-AIEIWNYILENG--ILPLEASANVLLVGLRNLGRLSDVR  226 (274)
Q Consensus       152 --~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~  226 (274)
                        ++++++.+++++... +-|...|+.+-..+.+.|+... +..+..++.+.+  -..+...+..+...|.+.|+.++|.
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              888999998888754 4466788888888888877444 555666655433  1246678888889999999999999


Q ss_pred             HHHHHHHhC
Q 048737          227 RFAEEMLNR  235 (274)
Q Consensus       227 ~~~~~m~~~  235 (274)
                      ++++.+.+.
T Consensus       279 ~~~~~l~~~  287 (306)
T 3dra_A          279 TVYDLLKSK  287 (306)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHhc
Confidence            999998764

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.31  E-value=3e-11  Score=99.50  Aligned_cols=241  Identities=14%  Similarity=0.111  Sum_probs=130.2

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcH---HHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCC-
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQV---DEALKFLRVMKGENCFPTLKFFSNALDILVKLN-   78 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-   78 (274)
                      .+.|++++|+++|++..+. |    ++.++..|...|...|++   ++|+.+|++..+.    ++..+..|...+...+ 
T Consensus        14 ~~~g~~~~A~~~~~~aa~~-g----~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~~~   84 (452)
T 3e4b_A           14 LKRGDTVTAQQNYQQLAEL-G----YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAKPG   84 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHH-T----CCTGGGTCC--------------------------------CHHHHHHHHHTC--
T ss_pred             HhCCCHHHHHHHHHHHHHC-C----CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhCCC
Confidence            4568889999999888764 3    344566677777777777   8888888887753    4455566666454444 


Q ss_pred             ----ChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCC-----------------------------------hhh
Q 048737           79 ----DSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNND-----------------------------------VDN  119 (274)
Q Consensus        79 ----~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-----------------------------------~~~  119 (274)
                          ++++|...|++..+.|   .++  .+..|...|...+.                                   +++
T Consensus        85 ~~~~~~~~A~~~~~~Aa~~g---~~~--A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~  159 (452)
T 3e4b_A           85 ATEAEHHEAESLLKKAFANG---EGN--TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQ  159 (452)
T ss_dssp             CCHHHHHHHHHHHHHHHHTT---CSS--CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGG
T ss_pred             CCCcCHHHHHHHHHHHHHCC---CHH--HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCccc
Confidence                6778888888888776   222  44444444444333                                   222


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHhcC---CHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc----CChHHHHH
Q 048737          120 VFRFFDQMVFHGAFPDSLTYNMIFECLIKNK---KVHEVENFFHEMIKNEWQPTPLNCATAITMLLDA----DEPEFAIE  192 (274)
Q Consensus       120 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~  192 (274)
                      +......+.+.-...+...+..+...|...|   +.++|+..|++..+.| .++...+..+...|...    +++++|..
T Consensus       160 ~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~  238 (452)
T 3e4b_A          160 HLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQA  238 (452)
T ss_dssp             GHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHH
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHH
Confidence            2222111111111233446777777777777   7778888888877766 34444445666666544    57788888


Q ss_pred             HHHHHHHCCCCccHHHHHHHHHH-H--HhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcC-----hh--HHHHH
Q 048737          193 IWNYILENGILPLEASANVLLVG-L--RNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNES-----RS--MRDRF  262 (274)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~l~~~-~--~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g-----~~--a~~~~  262 (274)
                      .|++.. .|   +...+..+... |  ...+++++|...|++..+.|   +...+..|-..|. .|     +.  |.+.+
T Consensus       239 ~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~  310 (452)
T 3e4b_A          239 LLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHF  310 (452)
T ss_dssp             HHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHH
T ss_pred             HHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHH
Confidence            887776 33   33455555555 3  45678888888888887776   4555666666665 33     33  66665


Q ss_pred             HHHH
Q 048737          263 DSLE  266 (274)
Q Consensus       263 ~~~~  266 (274)
                      .+..
T Consensus       311 ~~Aa  314 (452)
T 3e4b_A          311 EKAV  314 (452)
T ss_dssp             HTTT
T ss_pred             HHHh
Confidence            5443

>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=99.29  E-value=8.3e-11  Score=84.05  Aligned_cols=160  Identities=9%  Similarity=0.013  Sum_probs=79.9

Q ss_pred             HHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH-H
Q 048737           68 SNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC-L  146 (274)
Q Consensus        68 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~  146 (274)
                      ..+...+...|++++|...|+++.+..   |.+...+..+..++.+.|++++|...|++.....  |+...+..+... +
T Consensus        10 ~~~a~~~~~~g~~~~A~~~~~~al~~~---P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~   84 (176)
T 2r5s_A           10 LKQVSELLQQGEHAQALNVIQTLSDEL---QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLEL   84 (176)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSCHHH---HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC---CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHH
Confidence            334445555666666666666555543   3345555556666666666666666666554432  232222221111 1


Q ss_pred             HhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCc-cHHHHHHHHHHHHhcCCcchH
Q 048737          147 IKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILP-LEASANVLLVGLRNLGRLSDV  225 (274)
Q Consensus       147 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a  225 (274)
                      ...++..++...+++..+.. +-+...+..+..++...|++++|...|+++.+....+ +...+..+...+...|+.++|
T Consensus        85 ~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             HhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            11122223455555555432 1234455555566666666666666666655543221 234555555566666666666


Q ss_pred             HHHHHHHH
Q 048737          226 RRFAEEML  233 (274)
Q Consensus       226 ~~~~~~m~  233 (274)
                      ...|++..
T Consensus       164 ~~~y~~al  171 (176)
T 2r5s_A          164 ASKYRRQL  171 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66555543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.29  E-value=4.1e-10  Score=87.02  Aligned_cols=166  Identities=10%  Similarity=0.003  Sum_probs=107.3

Q ss_pred             CCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHH
Q 048737           62 PTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNM  141 (274)
Q Consensus        62 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  141 (274)
                      .+...+..+...+...|++++|...|+++.+..   +.+...+..+..++.+.|++++|...+++....  .|+......
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~---P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~  189 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQLS---NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGL  189 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT---TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC---CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHH
Confidence            344556666667777777777777777777754   445666777777777777777777777776654  344332222


Q ss_pred             -HHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-ccHHHHHHHHHHHHhc
Q 048737          142 -IFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGIL-PLEASANVLLVGLRNL  219 (274)
Q Consensus       142 -li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~  219 (274)
                       ....+...++.++|...+++..... +.+...+..+...+...|++++|...+.++.+.... .+...+..+...|...
T Consensus       190 ~~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~  268 (287)
T 3qou_A          190 VAQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAAL  268 (287)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHc
Confidence             2223555666666777777766643 334566677777777777777777777777765432 1245677777777777


Q ss_pred             CCcchHHHHHHHHH
Q 048737          220 GRLSDVRRFAEEML  233 (274)
Q Consensus       220 g~~~~a~~~~~~m~  233 (274)
                      |+.++|...+++..
T Consensus       269 g~~~~a~~~~r~al  282 (287)
T 3qou_A          269 GTGDALASXYRRQL  282 (287)
T ss_dssp             CTTCHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHH
Confidence            77777777776644

>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=99.29  E-value=4.2e-10  Score=87.87  Aligned_cols=221  Identities=14%  Similarity=0.107  Sum_probs=143.9

Q ss_pred             cccchHHHHHHHHHHHhc-----cCCCCc---hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCC-CC----HHHHHHH
Q 048737            4 KEGNVVEANKTFGEMVER-----FEWNPE---HVLAYETFLITLIRGKQVDEALKFLRVMKGENCF-PT----LKFFSNA   70 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~-----~~~~p~---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l   70 (274)
                      ..|++++|.+++++..+.     +++.|+   -...|......|...|++++|...|.+..+.... .+    ..+|+.+
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~l   82 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQA   82 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            468999999999877653     111231   1235777777888888999888888877652100 11    3467778


Q ss_pred             HHHHHhCCChhhHHHHHHHHHhcCCcc-Cc--cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC-----ChhhHHHH
Q 048737           71 LDILVKLNDSTHTVQLWDIMVGIGFNL-MP--NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP-----DSLTYNMI  142 (274)
Q Consensus        71 ~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l  142 (274)
                      ...|...|++++|...|++..+..... .+  ...+++.+..+|.. |++++|+..|++..+.....     ...++..+
T Consensus        83 g~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~l  161 (307)
T 2ifu_A           83 GMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKA  161 (307)
T ss_dssp             HHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHH
Confidence            888888889999988888876531000 12  24567788888888 88999988888876531110     14567788


Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhC----CCCCC-cchHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-cc---HHHHHHHH
Q 048737          143 FECLIKNKKVHEVENFFHEMIKN----EWQPT-PLNCATAITMLLDADEPEFAIEIWNYILENGIL-PL---EASANVLL  213 (274)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~~l~  213 (274)
                      ...|...|++++|+..|++..+.    +..++ ...+..+..++...|++++|...|++.. .... ++   ......++
T Consensus       162 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l~~l~  240 (307)
T 2ifu_A          162 SRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SIPGFSGSEDCAALEDLL  240 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHH
Confidence            88888889999998888887653    11111 1255566677777788999988888877 4211 01   12334445


Q ss_pred             HHHHhcCCcchHHH
Q 048737          214 VGLRNLGRLSDVRR  227 (274)
Q Consensus       214 ~~~~~~g~~~~a~~  227 (274)
                      .++ ..|+.+.+..
T Consensus       241 ~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          241 QAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHH-HTTCHHHHHH
T ss_pred             HHH-HhcCHHHHHH
Confidence            544 4566655555

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.27  E-value=4.6e-09  Score=86.44  Aligned_cols=193  Identities=11%  Similarity=0.058  Sum_probs=136.9

Q ss_pred             hHhHHHHHHHHHhccC---cHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhC----CChhhHHHHHHHHHhcCCccCcc
Q 048737           28 HVLAYETFLITLIRGK---QVDEALKFLRVMKGENCFPTLKFFSNALDILVKL----NDSTHTVQLWDIMVGIGFNLMPN  100 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~  100 (274)
                      ++.++..|...|...|   +.++|++.|++..+.| .++...+..|...|...    +++++|...|++.. .|     +
T Consensus       175 ~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g-----~  247 (452)
T 3e4b_A          175 TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG-----Y  247 (452)
T ss_dssp             CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG-----S
T ss_pred             CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC-----C
Confidence            3347777888888888   8888888888888776 45555556666666544    68888888888887 54     3


Q ss_pred             HHhHHHHHHH-H--HhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC-----CHhHHHHHHHHHHhCCCCCCcc
Q 048737          101 LIMYNAVVGL-L--CNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNK-----KVHEVENFFHEMIKNEWQPTPL  172 (274)
Q Consensus       101 ~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~  172 (274)
                      ...+..|... +  ...+++++|...|++..+.|   +...+..+...|. .|     ++++|...|++.. .   -+..
T Consensus       248 ~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~  319 (452)
T 3e4b_A          248 PASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---REVA  319 (452)
T ss_dssp             THHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHH
T ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHH
Confidence            4455666665 3  45788888888888888765   5667777777776 45     8888888888776 3   3555


Q ss_pred             hHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHh----cCCcchHHHHHHHHHhCCCc
Q 048737          173 NCATAITMLLD----ADEPEFAIEIWNYILENGILPLEASANVLLVGLRN----LGRLSDVRRFAEEMLNRRIL  238 (274)
Q Consensus       173 ~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~  238 (274)
                      .+..|...|..    ..++++|...|++..+.|. |  .....|...|..    ..+.++|..+|+...+.|..
T Consensus       320 A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~-~--~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~  390 (452)
T 3e4b_A          320 ADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ-N--SADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTP  390 (452)
T ss_dssp             HHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC-T--THHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCH
T ss_pred             HHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh-H--HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCH
Confidence            66667766665    3488888888888877664 2  345555555553    35788888888888887743

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.26  E-value=3.5e-10  Score=87.46  Aligned_cols=167  Identities=10%  Similarity=0.041  Sum_probs=117.3

Q ss_pred             CccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHH-H
Q 048737           98 MPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCA-T  176 (274)
Q Consensus        98 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~  176 (274)
                      +.+...+..+...+.+.|++++|...|++..+... -+...+..+...+...|++++|...+++....  .|+..... .
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSN-QNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT-SCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCC-cchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHH
Confidence            45566677777888888888888888888877532 25677788888888888888888888877653  35433222 2


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCc-cCHHHHHHHHHHHHhcC
Q 048737          177 AITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRIL-IYDVTMQKLKKAFYNES  255 (274)
Q Consensus       177 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~l~~~~~~~g  255 (274)
                      ....+...++.+.|...+++..+... .+...+..+...+...|++++|...|.++.+.... .+...+..+...+...|
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            22335566777778888888777653 55677788888888888888888888888776422 12566777888888877


Q ss_pred             hh--HHHHHHHHHHH
Q 048737          256 RS--MRDRFDSLERR  268 (274)
Q Consensus       256 ~~--a~~~~~~~~~~  268 (274)
                      +.  |...+++.+..
T Consensus       270 ~~~~a~~~~r~al~~  284 (287)
T 3qou_A          270 TGDALASXYRRQLYA  284 (287)
T ss_dssp             TTCHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHH
Confidence            65  66666665543

>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=99.26  E-value=6.3e-11  Score=82.39  Aligned_cols=144  Identities=9%  Similarity=-0.063  Sum_probs=83.4

Q ss_pred             HHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhc
Q 048737           35 FLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNN  114 (274)
Q Consensus        35 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  114 (274)
                      |...+...|++++|++.+....... +-++..+..+...|.+.|++++|.+.|++.++..   +.+..+|..+..+|.+.
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~---p~~~~a~~~lg~~~~~~   78 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ---ERDPKAHRFLGLLYELE   78 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHT
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHc
Confidence            3445556667777777776665431 1123344556666777777777777777777654   44566677777777777


Q ss_pred             CChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHH-HHHHHhCCCCCC-cchHHHHHHHHHhcC
Q 048737          115 NDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENF-FHEMIKNEWQPT-PLNCATAITMLLDAD  185 (274)
Q Consensus       115 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~-~~~~~~~~~~~~-~~~~~~l~~~~~~~~  185 (274)
                      |++++|...|++..+..+ -+..+|..+...|.+.|+++++... +++..+.  .|+ +..|......+...|
T Consensus        79 ~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l--~P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           79 ENTDKAVECYRRSVELNP-TQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL--FPGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             TCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH--STTCHHHHHHHHHHHHTCC
T ss_pred             CchHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhC
Confidence            777777777777666421 1456666666677777766654443 4555553  233 344444444444444

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.26  E-value=2.7e-09  Score=79.30  Aligned_cols=186  Identities=8%  Similarity=-0.014  Sum_probs=116.2

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCC-CC-CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccH---H
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENC-FP-TLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNL---I  102 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~  102 (274)
                      ++..+..+...+.+.|++++|+..|+++.+..- .| ....+..+..++.+.|++++|...|+++.+..   |.+.   .
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~---P~~~~~~~   79 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN---PTHPNIDY   79 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCTTHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC---cCCCcHHH
Confidence            345667788888999999999999999887421 12 13567778889999999999999999998865   2222   2


Q ss_pred             hHHHHHHHHHh------------------cCChhhHHHHHHHHHhcCCCCCh-hhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737          103 MYNAVVGLLCN------------------NNDVDNVFRFFDQMVFHGAFPDS-LTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus       103 ~~~~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      .+..+..++..                  .|++++|...|+++.+.  .|+. ..+......-          .+...+.
T Consensus        80 a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~----------~~~~~~~  147 (225)
T 2yhc_A           80 VMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLV----------FLKDRLA  147 (225)
T ss_dssp             HHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHH----------HHHHHHH
T ss_pred             HHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHH----------HHHHHHH
Confidence            45555555554                  34566666666666553  2322 1111110000          0000000


Q ss_pred             hCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCc--cHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC
Q 048737          164 KNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILP--LEASANVLLVGLRNLGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       164 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  236 (274)
                              .....+...|.+.|+++.|...|+++.+.....  ....+..+..+|.+.|++++|.+.++.+...+
T Consensus       148 --------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          148 --------KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             --------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             --------HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence                    011245566777888888888888887753221  12467777888888888888888888777653

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.25  E-value=2.2e-09  Score=79.77  Aligned_cols=175  Identities=12%  Similarity=0.030  Sum_probs=115.6

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCH----HHHHHHHHHHHh-
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTL----KFFSNALDILVK-   76 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~-   76 (274)
                      +.+.|++++|+..|+++.....-.|....++..+..++.+.|++++|+..|++..+..  |+.    ..+..+..++.. 
T Consensus        14 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--P~~~~~~~a~~~~g~~~~~~   91 (225)
T 2yhc_A           14 KLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN--PTHPNIDYVMYMRGLTNMAL   91 (225)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCcHHHHHHHHHHHHHhh
Confidence            4568999999999999988622222224678889999999999999999999998743  332    245555555554 


Q ss_pred             -----------------CCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhH
Q 048737           77 -----------------LNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTY  139 (274)
Q Consensus        77 -----------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  139 (274)
                                       .|++++|...|+++++..   |-+...+.......          .+...+        ....
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~---P~~~~a~~a~~~l~----------~~~~~~--------~~~~  150 (225)
T 2yhc_A           92 DDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY---PNSQYTTDATKRLV----------FLKDRL--------AKYE  150 (225)
T ss_dssp             HC--------------CCHHHHHHHHHHHHHHTTC---TTCTTHHHHHHHHH----------HHHHHH--------HHHH
T ss_pred             hhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC---cCChhHHHHHHHHH----------HHHHHH--------HHHH
Confidence                             578999999999999875   33333333221110          000111        0112


Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCc----chHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 048737          140 NMIFECLIKNKKVHEVENFFHEMIKNEWQPTP----LNCATAITMLLDADEPEFAIEIWNYILENG  201 (274)
Q Consensus       140 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  201 (274)
                      ..+...|.+.|++++|...|+++++.  .|+.    ..+..+..++.+.|++++|.+.++.+...+
T Consensus       151 ~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          151 YSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            23456677777777887777777764  2432    356667777777788888877777776654

>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=99.23  E-value=4.5e-10  Score=95.21  Aligned_cols=155  Identities=7%  Similarity=-0.075  Sum_probs=119.6

Q ss_pred             cCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHH
Q 048737           42 GKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVF  121 (274)
Q Consensus        42 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  121 (274)
                      .|++++|++.|++..+.. +.+...+..+...+...|++++|...+++..+..   +.+...+..+..+|...|++++|.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~lg~~~~~~g~~~~A~   77 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH---PGHPEAVARLGRVRWTQQRHAEAA   77 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS---TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            478899999999988753 4457889999999999999999999999999975   567889999999999999999999


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc---CChHHHHHHHHHHH
Q 048737          122 RFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDA---DEPEFAIEIWNYIL  198 (274)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~  198 (274)
                      +.|++..+.. +.+...+..+...|...|++++|.+.+++..+.. +.+...+..+..++...   |+.++|.+.+++..
T Consensus        78 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al  155 (568)
T 2vsy_A           78 VLLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAV  155 (568)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHH
Confidence            9999998863 2357889999999999999999999999998753 33467888899999999   99999999999998


Q ss_pred             HCCC
Q 048737          199 ENGI  202 (274)
Q Consensus       199 ~~~~  202 (274)
                      +.+.
T Consensus       156 ~~~p  159 (568)
T 2vsy_A          156 AQGV  159 (568)
T ss_dssp             HHTC
T ss_pred             hcCC
Confidence            8653

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.23  E-value=2e-09  Score=92.28  Aligned_cols=237  Identities=6%  Similarity=-0.031  Sum_probs=175.8

Q ss_pred             HHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHH-HHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHH
Q 048737            9 VEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEAL-KFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLW   87 (274)
Q Consensus         9 ~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   87 (274)
                      +.+..+|++....   .|.+...|...+..+...|+.++|. ++|++.... ++.+...+...+...-+.|+++.|..+|
T Consensus       326 ~Rv~~~Ye~aL~~---~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iy  401 (679)
T 4e6h_A          326 ARMTYVYMQAAQH---VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTI  401 (679)
T ss_dssp             HHHHHHHHHHHHH---TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHH---cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            4556788888776   6667889999999999999999997 999999864 4556667778888888999999999999


Q ss_pred             HHHHhcCC-------ccCc------------cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 048737           88 DIMVGIGF-------NLMP------------NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK  148 (274)
Q Consensus        88 ~~~~~~~~-------~~~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (274)
                      +.++....       +..|            ...+|...+....+.|+.+.|..+|.+..+.-..+....|...+..-.+
T Consensus       402 ek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~  481 (679)
T 4e6h_A          402 LSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYH  481 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH
Confidence            99986410       0013            2346888888888899999999999999875111223344333332233


Q ss_pred             c-CCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCC--ccHHHHHHHHHHHHhcCCcchH
Q 048737          149 N-KKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGIL--PLEASANVLLVGLRNLGRLSDV  225 (274)
Q Consensus       149 ~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a  225 (274)
                      . ++++.|.++|+..++. .+-+...+...++.....|+.+.|..+|++.......  -....|...+..-.+.|+.+.+
T Consensus       482 ~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~  560 (679)
T 4e6h_A          482 ISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSV  560 (679)
T ss_dssp             TTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHH
T ss_pred             hCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            3 4589999999999875 2334556678888888899999999999998876532  2457888888888999999999


Q ss_pred             HHHHHHHHhCCCccCHHHHHHHHHHHH
Q 048737          226 RRFAEEMLNRRILIYDVTMQKLKKAFY  252 (274)
Q Consensus       226 ~~~~~~m~~~~~~~~~~~~~~l~~~~~  252 (274)
                      .++.+++.+.  .|+......+++-|.
T Consensus       561 ~~v~~R~~~~--~P~~~~~~~f~~ry~  585 (679)
T 4e6h_A          561 RTLEKRFFEK--FPEVNKLEEFTNKYK  585 (679)
T ss_dssp             HHHHHHHHHH--STTCCHHHHHHHHTC
T ss_pred             HHHHHHHHHh--CCCCcHHHHHHHHhc
Confidence            9999999887  344444444544443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.20  E-value=6.4e-10  Score=74.77  Aligned_cols=104  Identities=13%  Similarity=0.074  Sum_probs=83.5

Q ss_pred             CCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHH
Q 048737           23 EWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLI  102 (274)
Q Consensus        23 ~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  102 (274)
                      -+.|.....|......+.+.|++++|++.|++..+.. +.+...|..+..++.+.|++++|...|++.++..   +.+..
T Consensus         7 ~inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~---p~~~~   82 (126)
T 4gco_A            7 YINPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD---SKFIK   82 (126)
T ss_dssp             CCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHH
T ss_pred             HHCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh---hhhhH
Confidence            3577777788888888888888888888888887753 4567788888888888888888888888888865   55677


Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      .|..+..+|...|++++|.+.|++..+.
T Consensus        83 a~~~lg~~~~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           83 GYIRKAACLVAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            8888888888888888888888888774

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=99.19  E-value=3.5e-10  Score=80.72  Aligned_cols=122  Identities=6%  Similarity=0.079  Sum_probs=89.2

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHH-HHhCCCh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDI-LVKLNDS   80 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~   80 (274)
                      +...|++++|+..|++....   .|.+..+|..+...+...|++++|+..|++..+.. +.+...+..+..+ +...|++
T Consensus        20 ~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~   95 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRA---NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQH   95 (177)
T ss_dssp             CC-----CCCCHHHHHHHHH---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTC
T ss_pred             hhhccCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCc
Confidence            45667888888888887665   67677788888888888888888888888877643 3356667777777 6677887


Q ss_pred             --hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737           81 --THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus        81 --~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                        +.|...++++.+..   +.+...+..+..+|...|++++|...|++..+.
T Consensus        96 ~~~~A~~~~~~al~~~---p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           96 MTAQTRAMIDKALALD---SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             CCHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence              88888888888765   445677777888888888888888888887765

>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=99.19  E-value=5.1e-09  Score=76.87  Aligned_cols=132  Identities=10%  Similarity=-0.017  Sum_probs=110.6

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      +...+..+...+...|++++|+..|++..    .|+...+..+..++...|++++|...|++..+..   +.+...+..+
T Consensus         5 ~~~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~---~~~~~~~~~l   77 (213)
T 1hh8_A            5 EAISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD---KHLAVAYFQR   77 (213)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---ccchHHHHHH
Confidence            34456678888899999999999998774    5688899999999999999999999999999875   5678889999


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCC--------------C-ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCC
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAF--------------P-DSLTYNMIFECLIKNKKVHEVENFFHEMIKNE  166 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~--------------~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  166 (274)
                      ..+|...|++++|...|++..+....              | ....+..+..+|...|++++|...|++..+..
T Consensus        78 g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           78 GMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            99999999999999999998875321              1 12678888888999999999999999988753

>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=99.18  E-value=4.8e-09  Score=81.82  Aligned_cols=213  Identities=7%  Similarity=0.004  Sum_probs=147.8

Q ss_pred             cCcHHHHHHHHHHHhcC------CCCCCH----HHHHHHHHHHHhCCChhhHHHHHHHHHhcCCcc-C--ccHHhHHHHH
Q 048737           42 GKQVDEALKFLRVMKGE------NCFPTL----KFFSNALDILVKLNDSTHTVQLWDIMVGIGFNL-M--PNLIMYNAVV  108 (274)
Q Consensus        42 ~~~~~~a~~~~~~~~~~------~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~--~~~~~~~~l~  108 (274)
                      .|++++|.+++++..+.      +..++.    ..|......|...|++++|...|.+..+..... .  .-..+|+.+.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg   83 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAG   83 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46677777777655431      112342    256666788889999999999999887642000 1  1245788999


Q ss_pred             HHHHhcCChhhHHHHHHHHHhc----CCCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCC---C--CcchHHHHH
Q 048737          109 GLLCNNNDVDNVFRFFDQMVFH----GAFP-DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQ---P--TPLNCATAI  178 (274)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~l~  178 (274)
                      .+|.+.|++++|+..|++..+.    |-.. -..++..+...|.. |++++|+..|++..+....   +  ...++..+.
T Consensus        84 ~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg  162 (307)
T 2ifu_A           84 MMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKAS  162 (307)
T ss_dssp             HHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            9999999999999999987653    1111 14678888888988 9999999999988753111   1  135678889


Q ss_pred             HHHHhcCChHHHHHHHHHHHHC----CCCcc-HHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCc-cC---HHHHHHHHH
Q 048737          179 TMLLDADEPEFAIEIWNYILEN----GILPL-EASANVLLVGLRNLGRLSDVRRFAEEMLNRRIL-IY---DVTMQKLKK  249 (274)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-~~---~~~~~~l~~  249 (274)
                      ..|...|++++|...|++..+.    +..+. ...+..+...+...|++++|...|++.. .... ++   ......++.
T Consensus       163 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l~~l~~  241 (307)
T 2ifu_A          163 RLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SIPGFSGSEDCAALEDLLQ  241 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHHH
Confidence            9999999999999999998763    22222 2356667778888899999999999988 4211 11   123445555


Q ss_pred             HHHhcChh
Q 048737          250 AFYNESRS  257 (274)
Q Consensus       250 ~~~~~g~~  257 (274)
                      ++ ..|+.
T Consensus       242 ~~-~~~d~  248 (307)
T 2ifu_A          242 AY-DEQDE  248 (307)
T ss_dssp             HH-HTTCH
T ss_pred             HH-HhcCH
Confidence            55 44554

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=99.16  E-value=1.1e-09  Score=83.24  Aligned_cols=188  Identities=7%  Similarity=-0.101  Sum_probs=133.8

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHH-------HHHHhccCcHHHHHHHHHHHhcCCCCCC-------------
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETF-------LITLIRGKQVDEALKFLRVMKGENCFPT-------------   63 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~l-------i~~~~~~~~~~~a~~~~~~~~~~~~~~~-------------   63 (274)
                      +.++...|.+.|.++...   .|.....|..+       ...+.+.++..+++..+..-.+  +.|+             
T Consensus        18 ~~~d~~~A~~~F~~a~~~---dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~   92 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNY---DESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYG   92 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTC
T ss_pred             cCCCHHHHHHHHHHHHHh---ChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccc
Confidence            467889999999999776   88888889888       5666666666666666655544  2221             


Q ss_pred             ---------HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC
Q 048737           64 ---------LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP  134 (274)
Q Consensus        64 ---------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  134 (274)
                               ......+...+...|++++|.++|+.+...+    |+......+...+.+.+++++|+..|+...... .|
T Consensus        93 ~~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~----p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~  167 (282)
T 4f3v_A           93 DITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG----SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DK  167 (282)
T ss_dssp             CCEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT----CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CH
T ss_pred             ccccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC----CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-Cc
Confidence                     2233455677778889999999988887754    443366666778888899999999888654421 11


Q ss_pred             C--hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCC--cchHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 048737          135 D--SLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT--PLNCATAITMLLDADEPEFAIEIWNYILENG  201 (274)
Q Consensus       135 ~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  201 (274)
                      .  ...+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++....
T Consensus       168 ~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          168 FLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             ccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            1  23677778888888999999999888875433243  2355666777788888899999888888865

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.16  E-value=6.1e-10  Score=77.27  Aligned_cols=105  Identities=10%  Similarity=0.092  Sum_probs=75.2

Q ss_pred             cCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccH
Q 048737           22 FEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNL  101 (274)
Q Consensus        22 ~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  101 (274)
                      ..+.|++...+..+...+.+.|++++|+..|++..... +-+...|..+..++...|++++|...|+++.+..   |.+.
T Consensus        29 l~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~---P~~~  104 (151)
T 3gyz_A           29 NAIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG---KNDY  104 (151)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---SSCC
T ss_pred             hCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC---CCCc
Confidence            34567677777777777777777777777777777643 3456677777777777777777777777777764   4456


Q ss_pred             HhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737          102 IMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       102 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      ..|..+..+|.+.|++++|...|++..+.
T Consensus       105 ~~~~~lg~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          105 TPVFHTGQCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            67777777777777777777777777664

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.13  E-value=1.8e-09  Score=78.53  Aligned_cols=160  Identities=7%  Similarity=-0.042  Sum_probs=99.8

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcC----CCC-CCHHHHHHHHHHHHh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGE----NCF-PTLKFFSNALDILVK   76 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~   76 (274)
                      ....|++++|++.++.+...   .+....++..+...+...|++++|...+++..+.    +.. ....++..+...+..
T Consensus         2 ~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~   78 (203)
T 3gw4_A            2 AFEAHDYALAERQAQALLAH---PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERM   78 (203)
T ss_dssp             -----CHHHHHHHHHHHHTS---TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             ccccccHHHHHHHHHHhcCC---hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHH
Confidence            45678888888866555332   3346778888888888888888888888877651    111 123456677777788


Q ss_pred             CCChhhHHHHHHHHHhcCCcc--C--ccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCC-CCC----hhhHHHHHHHHH
Q 048737           77 LNDSTHTVQLWDIMVGIGFNL--M--PNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGA-FPD----SLTYNMIFECLI  147 (274)
Q Consensus        77 ~~~~~~a~~~~~~~~~~~~~~--~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~  147 (274)
                      .|++++|...+++..+.....  .  .....+..+...+...|++++|...+++...... .++    ..++..+...+.
T Consensus        79 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~  158 (203)
T 3gw4_A           79 AGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQ  158 (203)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHH
Confidence            888888888887776541001  1  1244566777777778888888877777653210 011    233456666677


Q ss_pred             hcCCHhHHHHHHHHHHh
Q 048737          148 KNKKVHEVENFFHEMIK  164 (274)
Q Consensus       148 ~~~~~~~a~~~~~~~~~  164 (274)
                      ..|++++|...+++..+
T Consensus       159 ~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          159 QEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HCcCHHHHHHHHHHHHH
Confidence            77777777777666543

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=99.12  E-value=2.7e-10  Score=90.12  Aligned_cols=148  Identities=10%  Similarity=0.019  Sum_probs=95.7

Q ss_pred             cchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC----------------HHHHHH
Q 048737            6 GNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT----------------LKFFSN   69 (274)
Q Consensus         6 g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~   69 (274)
                      +++++|++.|+.....   .|.+...|..+...+.+.|++++|+..|++..+..  |+                ...|..
T Consensus       127 ~~~~~A~~~~~~a~~~---~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~n  201 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEE---KLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESSFSNEEAQKAQALRLASHLN  201 (336)
T ss_dssp             EEEECCCCGGGCCHHH---HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCCCCSHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHH---HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh--hccccCChHHHHHHHHHHHHHHHH
Confidence            4555566565554433   56567788888888888888888888888887743  32                356666


Q ss_pred             HHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 048737           70 ALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKN  149 (274)
Q Consensus        70 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  149 (274)
                      +..++.+.|++++|...++++++..   +.+...|..+..+|...|++++|...|++..+... .+...+..+...+...
T Consensus       202 la~~~~~~g~~~~A~~~~~~al~~~---p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~  277 (336)
T 1p5q_A          202 LAMCHLKLQAFSAAIESCNKALELD---SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVCQQRI  277 (336)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHH
Confidence            6666667777777777777666654   44566666666666667777777777666665421 2455666666666666


Q ss_pred             CCHhHH-HHHHHHH
Q 048737          150 KKVHEV-ENFFHEM  162 (274)
Q Consensus       150 ~~~~~a-~~~~~~~  162 (274)
                      |+.+++ ...+..|
T Consensus       278 ~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          278 RRQLAREKKLYANM  291 (336)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            666665 3344444

>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=99.12  E-value=4.2e-09  Score=81.54  Aligned_cols=171  Identities=10%  Similarity=0.007  Sum_probs=128.8

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCC-CCCCHH----HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCcc--
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGEN-CFPTLK----FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPN--  100 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--  100 (274)
                      ....+...+..+...|++++|.+++++..+.. ..|+..    .+..+...+...++++.|...++++..... -.++  
T Consensus        74 ~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~-~~~~~~  152 (293)
T 3u3w_A           74 RKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQL-TGIDVY  152 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCC-CCSCTT
T ss_pred             hHHHHHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhc-ccccHH
Confidence            56677778889999999999999999988743 223321    334577777788899999999999987431 1122  


Q ss_pred             --HHhHHHHHHHHHhcCChhhHHHHHHHHHh----c-CCCCC-hhhHHHHHHHHHhcCCHhHHHHHHHHHHhC----CCC
Q 048737          101 --LIMYNAVVGLLCNNNDVDNVFRFFDQMVF----H-GAFPD-SLTYNMIFECLIKNKKVHEVENFFHEMIKN----EWQ  168 (274)
Q Consensus       101 --~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~-~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~  168 (274)
                        ..+++.+..+|...|++++|...|+++.+    . +..+. ..+|..+...|.+.|++++|...+++..+.    +..
T Consensus       153 ~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~  232 (293)
T 3u3w_A          153 QNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSM  232 (293)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcH
Confidence              34689999999999999999999998873    1 12222 357888999999999999999999887642    222


Q ss_pred             CC-cchHHHHHHHHHhcCC-hHHHHHHHHHHHH
Q 048737          169 PT-PLNCATAITMLLDADE-PEFAIEIWNYILE  199 (274)
Q Consensus       169 ~~-~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~  199 (274)
                      +. ..+|..+..++.+.|+ +++|...+++...
T Consensus       233 ~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          233 ALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             TTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            22 4678888999999994 6999998888764

>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=99.12  E-value=5.7e-08  Score=76.16  Aligned_cols=221  Identities=11%  Similarity=0.104  Sum_probs=163.6

Q ss_pred             cchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccC-cHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhC-C-Chhh
Q 048737            6 GNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGK-QVDEALKFLRVMKGENCFPTLKFFSNALDILVKL-N-DSTH   82 (274)
Q Consensus         6 g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~~   82 (274)
                      +..++|+++++.+...   .|.+..+|+.--..+...| .+++++++++.+.... +-+..+|+.-..++... + ++++
T Consensus        68 e~se~AL~lt~~~L~~---nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~  143 (349)
T 3q7a_A           68 EKSERALELTEIIVRM---NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVS  143 (349)
T ss_dssp             CCSHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHH
T ss_pred             CCCHHHHHHHHHHHHh---CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHH
Confidence            4557899999999766   8888899998888888888 5999999999998864 45677787777666665 6 8899


Q ss_pred             HHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChh--------hHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC---
Q 048737           83 TVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVD--------NVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKK---  151 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~---  151 (274)
                      +..+++.+.+..   +.|..+|+.-..+..+.+.++        ++++.++++.+..+ -|...|+.....+.+.++   
T Consensus       144 EL~~~~k~L~~d---pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~~  219 (349)
T 3q7a_A          144 EIEYIHGSLLPD---PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAET  219 (349)
T ss_dssp             HHHHHHHHTSSC---TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCCC
T ss_pred             HHHHHHHHHHhC---CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcccccc
Confidence            999999999876   678888887777777766666        89999999988754 378888888887777776   


Q ss_pred             ----HhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCh--------------------HHHHHHHHHHHHCC-----C
Q 048737          152 ----VHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEP--------------------EFAIEIWNYILENG-----I  202 (274)
Q Consensus       152 ----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~~~~~-----~  202 (274)
                          ++++++.+++.+... +-|...|+.+-..+.+.|+.                    .........+...+     -
T Consensus       220 ~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  298 (349)
T 3q7a_A          220 SSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTP  298 (349)
T ss_dssp             CHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCC
T ss_pred             chHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccC
Confidence                678888888888753 34566777766666666553                    22222222222211     1


Q ss_pred             CccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          203 LPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       203 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      .++......++..|...|+.++|.++++.+.+.
T Consensus       299 ~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          299 LPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            366778888889999999999999999998755

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.12  E-value=1.4e-07  Score=73.00  Aligned_cols=224  Identities=11%  Similarity=0.098  Sum_probs=175.7

Q ss_pred             HHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCC--ChhhHHHHHHHHHhcCCccCccHHhHHHHHHHH----
Q 048737           38 TLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLN--DSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLL----  111 (274)
Q Consensus        38 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~----  111 (274)
                      ........++|+++++.++..+ +-+...|+.--..+...+  ++++++++++.+....   +-+..+|+.--.++    
T Consensus        42 ~~~~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n---Pk~y~aW~~R~~iL~~~~  117 (306)
T 3dra_A           42 LMKAEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN---EKNYQIWNYRQLIIGQIM  117 (306)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC---TTCCHHHHHHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC---cccHHHHHHHHHHHHHHH
Confidence            3344455579999999999853 345677888888888888  9999999999999876   55667777666555    


Q ss_pred             Hhc---CChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHh--HHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCC
Q 048737          112 CNN---NDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVH--EVENFFHEMIKNEWQPTPLNCATAITMLLDADE  186 (274)
Q Consensus       112 ~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  186 (274)
                      ...   +++++++++++++.+... .|-.+|+--.-.+.+.|+++  +++++++++++.. +-|...|+.-...+...+.
T Consensus       118 ~~l~~~~~~~~EL~~~~~~l~~~p-kny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~  195 (306)
T 3dra_A          118 ELNNNDFDPYREFDILEAMLSSDP-KNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKH  195 (306)
T ss_dssp             HHTTTCCCTHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGG
T ss_pred             HhccccCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccc
Confidence            555   789999999999998753 47888988888888889888  9999999999865 3466777776666667676


Q ss_pred             ------hHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcch-HHHHHHHHHhCC--CccCHHHHHHHHHHHHhcChh
Q 048737          187 ------PEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSD-VRRFAEEMLNRR--ILIYDVTMQKLKKAFYNESRS  257 (274)
Q Consensus       187 ------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~m~~~~--~~~~~~~~~~l~~~~~~~g~~  257 (274)
                            ++++.+.+.++....+ -|...|+.+-..+.+.|+... +..+..++.+.+  -..+...+..+...+.+.|+.
T Consensus       196 ~~~~~~~~eEl~~~~~aI~~~p-~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~  274 (306)
T 3dra_A          196 LATDNTIDEELNYVKDKIVKCP-QNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKY  274 (306)
T ss_dssp             GCCHHHHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCH
T ss_pred             cchhhhHHHHHHHHHHHHHhCC-CCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCH
Confidence                  8899999999988764 677889888888888888544 666777776543  234778888899999988877


Q ss_pred             --HHHHHHHHHHH
Q 048737          258 --MRDRFDSLERR  268 (274)
Q Consensus       258 --a~~~~~~~~~~  268 (274)
                        |.++++.+.++
T Consensus       275 ~~A~~~~~~l~~~  287 (306)
T 3dra_A          275 NESRTVYDLLKSK  287 (306)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhc
Confidence              99999988763

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=99.11  E-value=7.4e-10  Score=76.73  Aligned_cols=111  Identities=5%  Similarity=-0.027  Sum_probs=91.1

Q ss_pred             HHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHh
Q 048737           13 KTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVG   92 (274)
Q Consensus        13 ~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   92 (274)
                      ..|+++.   .+.|.+...+..+...+.+.|++++|+..|++..... +.+...|..+..++...|++++|...|+++..
T Consensus         8 ~~~~~al---~~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   83 (148)
T 2vgx_A            8 GTIAMLN---EISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAV   83 (148)
T ss_dssp             CSHHHHT---TCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHH---cCCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            4455553   4478788888889999999999999999999888753 45678888888889999999999999999988


Q ss_pred             cCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737           93 IGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus        93 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      ..   +.+...+..+..+|...|++++|...|++..+.
T Consensus        84 l~---p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           84 MD---IXEPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HS---TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cC---CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            65   556778888888999999999999999888764

>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=99.09  E-value=3.6e-08  Score=72.25  Aligned_cols=129  Identities=9%  Similarity=-0.063  Sum_probs=104.6

Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC  145 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (274)
                      .+..+...+...|++++|...|++..      +|+..++..+..+|.+.|++++|...|++..... +.+...|..+..+
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~------~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~   80 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ------DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGML   80 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS------SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc------CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHH
Confidence            34556677888999999999998773      4577889999999999999999999999988763 3367788889999


Q ss_pred             HHhcCCHhHHHHHHHHHHhCCCCCCc----------------chHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 048737          146 LIKNKKVHEVENFFHEMIKNEWQPTP----------------LNCATAITMLLDADEPEFAIEIWNYILENGI  202 (274)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  202 (274)
                      |...|++++|...|++..+.. +.+.                ..+..+..++...|++++|...|++..+...
T Consensus        81 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           81 YYQTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHcccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            999999999999999988753 1222                5677888889999999999999998887653

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=99.09  E-value=8.3e-10  Score=85.06  Aligned_cols=196  Identities=9%  Similarity=-0.023  Sum_probs=132.6

Q ss_pred             CchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHH
Q 048737           26 PEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYN  105 (274)
Q Consensus        26 p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  105 (274)
                      |.+...+..+...+.+.|++++|+..|++..+.. +.+...+..+..++.+.|++++|...++++.+..   +.+...+.
T Consensus         1 p~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~   76 (281)
T 2c2l_A            1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD---GQSVKAHF   76 (281)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC---TTCHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC---CCCHHHHH
Confidence            3467788889999999999999999999988753 3478888999999999999999999999999875   56678889


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc
Q 048737          106 AVVGLLCNNNDVDNVFRFFDQMVFHGAFPD-SLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDA  184 (274)
Q Consensus       106 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  184 (274)
                      .+..+|...|++++|...|++..+..  |+ ...+...+....+.   .++.. +..........+......+ ..+ ..
T Consensus        77 ~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~i~~~l-~~l-~~  148 (281)
T 2c2l_A           77 FLGQCQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALRI---AKKKR-WNSIEERRIHQESELHSYL-TRL-IA  148 (281)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHH---HHHHH-HHHHHHTCCCCCCHHHHHH-HHH-HH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHH---HHHHH-HHHHHHHHHhhhHHHHHHH-HHH-HH
Confidence            99999999999999999999887642  22 11222222222211   11111 2223333333444443333 333 26


Q ss_pred             CChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhc-CCcchHHHHHHHHHh
Q 048737          185 DEPEFAIEIWNYILENGILPLEASANVLLVGLRNL-GRLSDVRRFAEEMLN  234 (274)
Q Consensus       185 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~  234 (274)
                      |+.++|.+.+++..+... .+......+-..+.+. +.+++|.++|.+..+
T Consensus       149 ~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          149 AERERELEECQRNHEGHE-DDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHHHHHTTTSGGGTTTS-CHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHHHHhhhcccc-chhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            888888888887766432 3333444444444444 668889999987765

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.08  E-value=8.7e-09  Score=68.36  Aligned_cols=113  Identities=9%  Similarity=0.098  Sum_probs=74.4

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHH
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVV  108 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~  108 (274)
                      ...|..+...+...|++++|++.++++.+.. +.+..++..+...+...|++++|...++++.+..   +.+..++..+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~la   84 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD---PNNAEAWYNLG   84 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC---CccHHHHHHHH
Confidence            5567777777777777777777777776542 3456666777777777777777777777777654   44566677777


Q ss_pred             HHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048737          109 GLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECL  146 (274)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  146 (274)
                      .++...|++++|...|+++.+... .+...+..+...+
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~  121 (125)
T 1na0_A           85 NAYYKQGDYDEAIEYYQKALELDP-NNAEAKQNLGNAK  121 (125)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHH
Confidence            777777777777777777665421 2344444444443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.08  E-value=1e-08  Score=69.02  Aligned_cols=121  Identities=12%  Similarity=0.093  Sum_probs=86.6

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhH
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMY  104 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  104 (274)
                      .|.+...|..+...+...|++++|++.|++..+.. +.+...+..+..++...|++++|...++++.+..   +.+...+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~   87 (133)
T 2lni_A           12 NPDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE---PTFIKGY   87 (133)
T ss_dssp             SSCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC---TTCHHHH
T ss_pred             CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC---CCchHHH
Confidence            45567778888888888888888888888877653 3456777777788888888888888888887764   4566777


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC
Q 048737          105 NAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNK  150 (274)
Q Consensus       105 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  150 (274)
                      ..+..++.+.|++++|...|++..+... .+...+..+...+...|
T Consensus        88 ~~la~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           88 TRKAAALEAMKDYTKAMDVYQKALDLDS-SCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCG-GGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHhc
Confidence            7777888888888888888887766421 23455555555555443

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=99.07  E-value=9.5e-09  Score=72.06  Aligned_cols=131  Identities=10%  Similarity=-0.011  Sum_probs=88.5

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      ....|..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+..   +.+..++..+
T Consensus        12 ~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~~   87 (166)
T 1a17_A           12 RAEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD---KKYIKGYYRR   87 (166)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---cccHHHHHHH
Confidence            34566777777777888888888887777642 3456677777777777888888888887777764   4456677777


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHH--HHHHHHhcCCHhHHHHHHHHHH
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNM--IFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      ..++...|++++|...|++..+... .+...+..  ....+...|++++|...+....
T Consensus        88 a~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           88 AASNMALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            7777777888888877777766532 23334432  3333556677777777766553

>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=99.06  E-value=1e-07  Score=73.68  Aligned_cols=163  Identities=7%  Similarity=0.032  Sum_probs=81.3

Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCC-CCCh----hhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCC-CCc----chHHHH
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGA-FPDS----LTYNMIFECLIKNKKVHEVENFFHEMIKNEWQ-PTP----LNCATA  177 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~----~~~~~l  177 (274)
                      +..+...|++++|..++++..+... .|+.    ..+..+...+...+++++|...+++..+.... ++.    .+++.+
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            4455556666666666666554311 1111    11223444444555666666666666553211 111    145556


Q ss_pred             HHHHHhcCChHHHHHHHHHHHH----C-CCCcc-HHHHHHHHHHHHhcCCcchHHHHHHHHHhC----CCccC-HHHHHH
Q 048737          178 ITMLLDADEPEFAIEIWNYILE----N-GILPL-EASANVLLVGLRNLGRLSDVRRFAEEMLNR----RILIY-DVTMQK  246 (274)
Q Consensus       178 ~~~~~~~~~~~~a~~~~~~~~~----~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~----~~~~~-~~~~~~  246 (274)
                      ...|...|++++|...+++..+    . +..+. ..++..+...|...|++++|...+++..+.    +..+. ..+|..
T Consensus       162 g~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~  241 (293)
T 3u3w_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQ  241 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            6666666666666666665552    1 11111 235555666666666666666666655431    11111 345555


Q ss_pred             HHHHHHhcC-h-h-HHHHHHHHHHHhh
Q 048737          247 LKKAFYNES-R-S-MRDRFDSLERRWK  270 (274)
Q Consensus       247 l~~~~~~~g-~-~-a~~~~~~~~~~~~  270 (274)
                      +..++.+.| + . |.+.++++++..+
T Consensus       242 lg~~~~~~g~~~~~A~~~~~~Al~i~~  268 (293)
T 3u3w_A          242 RGECLRKLEYEEAEIEDAYKKASFFFD  268 (293)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHHHHH
Confidence            666666666 3 2 6666655555443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.05  E-value=8.7e-09  Score=68.98  Aligned_cols=123  Identities=12%  Similarity=0.061  Sum_probs=90.1

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhH
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMY  104 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  104 (274)
                      .|.+...+..+...+...|++++|+..|++..... +.+...+..+...+...|++++|...+++..+..   +.+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~   83 (131)
T 2vyi_A            8 DSAEAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID---PAYSKAY   83 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHH
T ss_pred             chhhhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC---ccCHHHH
Confidence            34466777888888888888888888888877642 3456777777888888888888888888887764   4456777


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH
Q 048737          105 NAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKV  152 (274)
Q Consensus       105 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  152 (274)
                      ..+..++.+.|++++|...|++..+... .+...+..+..++...|++
T Consensus        84 ~~~~~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           84 GRMGLALSSLNKHVEAVAYYKKALELDP-DNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHhcC
Confidence            7778888888888888888888776532 2556666666666666653

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.05  E-value=1.4e-08  Score=78.56  Aligned_cols=170  Identities=12%  Similarity=-0.056  Sum_probs=119.0

Q ss_pred             HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCc----cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCC---CCC-
Q 048737           64 LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMP----NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGA---FPD-  135 (274)
Q Consensus        64 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~-  135 (274)
                      ...+...+..+...|++++|.+.++...+... ..+    ....+..+...+...|++++|...+++..+...   .+. 
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  153 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEE-YHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQ  153 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCC-CCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhcccc-CChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHH
Confidence            34555667788888899999888888776541 011    123355566777888899999998888775321   111 


Q ss_pred             -hhhHHHHHHHHHhcCCHhHHHHHHHHHHhC-CCCCC-----cchHHHHHHHHHhcCChHHHHHHHHHHHHCC----C-C
Q 048737          136 -SLTYNMIFECLIKNKKVHEVENFFHEMIKN-EWQPT-----PLNCATAITMLLDADEPEFAIEIWNYILENG----I-L  203 (274)
Q Consensus       136 -~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~  203 (274)
                       ..+|+.+...|...|++++|...+++..+. ...|+     ..++..+...|...|++++|...+++..+..    . .
T Consensus       154 ~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~  233 (293)
T 2qfc_A          154 NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMA  233 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHH
Confidence             447888888888999999999998887632 01122     1477888888899999999999888876531    1 1


Q ss_pred             ccHHHHHHHHHHHHhcCCcchH-HHHHHHHHh
Q 048737          204 PLEASANVLLVGLRNLGRLSDV-RRFAEEMLN  234 (274)
Q Consensus       204 ~~~~~~~~l~~~~~~~g~~~~a-~~~~~~m~~  234 (274)
                      .-..+|..+...|...|++++| ...+++...
T Consensus       234 ~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             SHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            1256788888888999999988 676776543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.04  E-value=3.6e-09  Score=71.09  Aligned_cols=101  Identities=17%  Similarity=0.198  Sum_probs=87.4

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|++++|++.|++..+.   .|.++.+|..+..++.+.|++++|+..|++.++.+ +.+...|..+..++...|+++
T Consensus        23 ~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~   98 (126)
T 4gco_A           23 YFKKGDYPTAMRHYNEAVKR---DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVAMREWS   98 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHHCCCHH
Confidence            56789999999999999776   88899999999999999999999999999998853 456889999999999999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVG  109 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~  109 (274)
                      +|.+.|++.++..   |.+...+..+-.
T Consensus        99 ~A~~~~~~al~l~---P~~~~a~~~l~~  123 (126)
T 4gco_A           99 KAQRAYEDALQVD---PSNEEAREGVRN  123 (126)
T ss_dssp             HHHHHHHHHHHHC---TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHC---cCCHHHHHHHHH
Confidence            9999999999965   445555555443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.04  E-value=7.8e-09  Score=75.15  Aligned_cols=159  Identities=6%  Similarity=-0.105  Sum_probs=95.5

Q ss_pred             hccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCC---ccCccHHhHHHHHHHHHhcCC
Q 048737           40 IRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGF---NLMPNLIMYNAVVGLLCNNND  116 (274)
Q Consensus        40 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~  116 (274)
                      ...|++++|.+.++.+... .......+..+...+...|+++.|...+++......   ..+....++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            4567888888855444331 123456777777788888888888888877765210   012335567777777888888


Q ss_pred             hhhHHHHHHHHHhc----CCCC--ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCC-CCC----cchHHHHHHHHHhcC
Q 048737          117 VDNVFRFFDQMVFH----GAFP--DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEW-QPT----PLNCATAITMLLDAD  185 (274)
Q Consensus       117 ~~~a~~~~~~~~~~----~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~  185 (274)
                      +++|...+++....    +..|  ....+..+...+...|++++|...+++..+... ..+    ..++..+...+...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            88888887776543    1111  134566677777777777777777777653210 011    123455666666677


Q ss_pred             ChHHHHHHHHHHHH
Q 048737          186 EPEFAIEIWNYILE  199 (274)
Q Consensus       186 ~~~~a~~~~~~~~~  199 (274)
                      ++++|...+++..+
T Consensus       162 ~~~~A~~~~~~al~  175 (203)
T 3gw4_A          162 NLLEAQQHWLRARD  175 (203)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            77777766665543

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.03  E-value=1.6e-07  Score=80.64  Aligned_cols=235  Identities=9%  Similarity=0.004  Sum_probs=174.6

Q ss_pred             hHHHHHHHHHhccC-------cHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHH-HHHHHHHhcCCccCccH
Q 048737           30 LAYETFLITLIRGK-------QVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTV-QLWDIMVGIGFNLMPNL  101 (274)
Q Consensus        30 ~~~~~li~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~  101 (274)
                      ..|...+..--..+       ..+.+..+|++.... ++-++..|......+...|+.+.|. .+|++....   +|.+.
T Consensus       303 ~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~---~P~s~  378 (679)
T 4e6h_A          303 LIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC---IPNSA  378 (679)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH---CTTCH
T ss_pred             HHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh---CCCCH
Confidence            45666665544432       234566788888775 4567888988888888999999996 999999975   46677


Q ss_pred             HhHHHHHHHHHhcCChhhHHHHHHHHHhcCC---------CCC------------hhhHHHHHHHHHhcCCHhHHHHHHH
Q 048737          102 IMYNAVVGLLCNNNDVDNVFRFFDQMVFHGA---------FPD------------SLTYNMIFECLIKNKKVHEVENFFH  160 (274)
Q Consensus       102 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------~~~------------~~~~~~li~~~~~~~~~~~a~~~~~  160 (274)
                      ..|..++....+.|++++|.++|+++.+...         .|+            ...|...+....+.|+.+.|..+|.
T Consensus       379 ~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~  458 (679)
T 4e6h_A          379 VLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFG  458 (679)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            7888899999999999999999999876410         132            3468888888888999999999999


Q ss_pred             HHHhCCCCCCcchHHHHHHHHHhc-CChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCcc
Q 048737          161 EMIKNEWQPTPLNCATAITMLLDA-DEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILI  239 (274)
Q Consensus       161 ~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  239 (274)
                      +.++.-..+....|...+..-.+. ++.+.|..+|+...+. .+-+...+...+......|+.+.|..+|+........+
T Consensus       459 ~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~  537 (679)
T 4e6h_A          459 KCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDS  537 (679)
T ss_dssp             HHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSST
T ss_pred             HHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCH
Confidence            998761112334444433333344 4599999999999885 33455677788888888999999999999998874322


Q ss_pred             --CHHHHHHHHHHHHhcChh--HHHHHHHHHHHh
Q 048737          240 --YDVTMQKLKKAFYNESRS--MRDRFDSLERRW  269 (274)
Q Consensus       240 --~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~  269 (274)
                        ....|...+.--.+.|+.  ++.+.+++.+..
T Consensus       538 ~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~  571 (679)
T 4e6h_A          538 HLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKF  571 (679)
T ss_dssp             THHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence              335677777777788877  888888777654

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=99.01  E-value=2.3e-08  Score=70.05  Aligned_cols=127  Identities=9%  Similarity=-0.039  Sum_probs=68.7

Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC  145 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (274)
                      .+..+...+...|+++.|...|++..+..   +.+..++..+..++...|++++|...+++..+.. +.+...|..+...
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN---PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC---CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            34455555666666666666666666543   3445556666666666666666666666655542 2245555566666


Q ss_pred             HHhcCCHhHHHHHHHHHHhCCCCCCcchHH--HHHHHHHhcCChHHHHHHHHHH
Q 048737          146 LIKNKKVHEVENFFHEMIKNEWQPTPLNCA--TAITMLLDADEPEFAIEIWNYI  197 (274)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~  197 (274)
                      +...|++++|...+++..+.. +.+...+.  .....+...|++++|...+...
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            666666666666666655432 11222222  2222244455555555555443

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=99.00  E-value=6.1e-09  Score=74.22  Aligned_cols=122  Identities=7%  Similarity=0.080  Sum_probs=82.0

Q ss_pred             HhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHH-HHhcCCh
Q 048737           39 LIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGL-LCNNNDV  117 (274)
Q Consensus        39 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~  117 (274)
                      +...|++++|+..+++..+.. +.+...+..+...+...|+++.|...|+++.+..   +.+...+..+..+ +...|++
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~la~~l~~~~~~~   95 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR---GENAELYAALATVLYYQASQH   95 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---CSCHHHHHHHHHHHHHHTTTC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC---CCCHHHHHHHHHHHHHhcCCc
Confidence            345667777777777766642 3456677777777777788888888887777754   4456667777777 6677777


Q ss_pred             --hhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC
Q 048737          118 --DNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus       118 --~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                        ++|...|++..+... .+...+..+...|...|++++|...+++..+.
T Consensus        96 ~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           96 MTAQTRAMIDKALALDS-NEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             CCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence              777777777776532 24666777777777777777777777777764

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=99.00  E-value=1.5e-09  Score=78.97  Aligned_cols=142  Identities=9%  Similarity=-0.080  Sum_probs=66.8

Q ss_pred             cchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCH----------------HHHHH
Q 048737            6 GNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTL----------------KFFSN   69 (274)
Q Consensus         6 g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~   69 (274)
                      |+++++.+.|+.-...   .+.....+..+...+...|++++|+..|++..+.. +.+.                ..+..
T Consensus        18 ~~~~~~~~~~~~~~~~---~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~   93 (198)
T 2fbn_A           18 YFQGAKKSIYDYTDEE---KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFF-IHTEEWDDQILLDKKKNIEISCNLN   93 (198)
T ss_dssp             ----CCCSGGGCCHHH---HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-TTCTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             hhccccCchhhCCHHH---HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-hcccccchhhHHHHHHHHHHHHHHH
Confidence            4444444444432222   22244456666666666666666666666666531 1111                44444


Q ss_pred             HHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 048737           70 ALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKN  149 (274)
Q Consensus        70 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  149 (274)
                      +..++...|++++|...+++..+..   +.+...+..+..+|...|++++|...|++..+.. +-+...+..+..++...
T Consensus        94 la~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  169 (198)
T 2fbn_A           94 LATCYNKNKDYPKAIDHASKVLKID---KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKL  169 (198)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhC---cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHH
Confidence            5555555555555555555555543   3344455555555555555555555555554431 11334444444444444


Q ss_pred             CCHhHH
Q 048737          150 KKVHEV  155 (274)
Q Consensus       150 ~~~~~a  155 (274)
                      ++..++
T Consensus       170 ~~~~~~  175 (198)
T 2fbn_A          170 KEARKK  175 (198)
T ss_dssp             HHHHC-
T ss_pred             HHHHHH
Confidence            443333

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.00  E-value=8.4e-08  Score=74.19  Aligned_cols=173  Identities=6%  Similarity=-0.016  Sum_probs=124.4

Q ss_pred             ccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-----hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCC---CC
Q 048737           99 PNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD-----SLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQ---PT  170 (274)
Q Consensus        99 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---~~  170 (274)
                      .....+...+..+...|++++|.+.+.+..+.....+     ...+..+...+...|++++|...+.+..+....   +.
T Consensus        73 ~~~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~  152 (293)
T 2qfc_A           73 ERKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVY  152 (293)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTT
T ss_pred             hHHHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchH
Confidence            3456777788888999999999999988776532211     123445666778888999999999988754211   11


Q ss_pred             --cchHHHHHHHHHhcCChHHHHHHHHHHHH---C-CCCc--cHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC----Cc
Q 048737          171 --PLNCATAITMLLDADEPEFAIEIWNYILE---N-GILP--LEASANVLLVGLRNLGRLSDVRRFAEEMLNRR----IL  238 (274)
Q Consensus       171 --~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~-~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~----~~  238 (274)
                        ..+++.+...|...|++++|...+++..+   . +..+  ...++..+...|...|++++|...+++..+..    ..
T Consensus       153 ~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~  232 (293)
T 2qfc_A          153 QNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSM  232 (293)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcH
Confidence              34788889999999999999999988873   2 1112  22578888899999999999999998876531    11


Q ss_pred             c-CHHHHHHHHHHHHhcChh--H-HHHHHHHHHHhhh
Q 048737          239 I-YDVTMQKLKKAFYNESRS--M-RDRFDSLERRWKT  271 (274)
Q Consensus       239 ~-~~~~~~~l~~~~~~~g~~--a-~~~~~~~~~~~~~  271 (274)
                      . -..+|..+..++...|+.  | ...+++++...+.
T Consensus       233 ~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~~~~  269 (293)
T 2qfc_A          233 ALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFFFDI  269 (293)
T ss_dssp             SSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHH
Confidence            1 156788888899998877  7 6777777665543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.99  E-value=9.4e-09  Score=70.51  Aligned_cols=104  Identities=9%  Similarity=-0.027  Sum_probs=85.6

Q ss_pred             CCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHH
Q 048737           23 EWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLI  102 (274)
Q Consensus        23 ~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  102 (274)
                      ...|.+...+..+...+.+.|++++|+..|++....+ +.+...|..+..++...|++++|...|++.....   +.+..
T Consensus        12 ~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~---p~~~~   87 (142)
T 2xcb_A           12 GLSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD---INEPR   87 (142)
T ss_dssp             TCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCTH
T ss_pred             cCCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC---CCCcH
Confidence            4477777888888888889999999999998888753 4567788888888888999999999999988875   55677


Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      .+..+..+|...|++++|...|++..+.
T Consensus        88 ~~~~lg~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           88 FPFHAAECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            7888888888999999999998888764

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.98  E-value=1.1e-08  Score=66.56  Aligned_cols=103  Identities=9%  Similarity=-0.020  Sum_probs=78.3

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCc--cHH
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMP--NLI  102 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~  102 (274)
                      .|.+...|..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...+++..+..   +.  +..
T Consensus         2 ~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~   77 (112)
T 2kck_A            2 VDQNPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI---EDEYNKD   77 (112)
T ss_dssp             CCSSTTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS---CCTTCHH
T ss_pred             CCCcHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC---cccchHH
Confidence            45566777778888888888888888888877643 3456777777788888888888888888888764   34  567


Q ss_pred             hHHHHHHHHHhc-CChhhHHHHHHHHHhcC
Q 048737          103 MYNAVVGLLCNN-NDVDNVFRFFDQMVFHG  131 (274)
Q Consensus       103 ~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~  131 (274)
                      .+..+..++.+. |++++|.+.+++.....
T Consensus        78 ~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           78 VWAAKADALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHHHHHHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHhhcc
Confidence            777888888888 88888888888877653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.98  E-value=4e-08  Score=65.10  Aligned_cols=95  Identities=8%  Similarity=0.164  Sum_probs=43.2

Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC  145 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (274)
                      .+..+...+...|+++.|.+.++++.+..   +.+..++..+...+.+.|++++|...++++.+.. +.+..++..+...
T Consensus        11 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD---PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC---cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            34444444445555555555555544432   2334444444444444555555555554444331 1233444444444


Q ss_pred             HHhcCCHhHHHHHHHHHHh
Q 048737          146 LIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~  164 (274)
                      +...|++++|...++++.+
T Consensus        87 ~~~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHH
Confidence            4444444444444444443

>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=98.96  E-value=1.6e-09  Score=83.44  Aligned_cols=182  Identities=9%  Similarity=-0.005  Sum_probs=125.4

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|++++|+..|++....   .|.+...|..+...+.+.|++++|+..+++..+.. +.+...+..+..++...|+++
T Consensus        14 ~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~   89 (281)
T 2c2l_A           14 LFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQLEMESYD   89 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            45789999999999999876   88889999999999999999999999999998753 456788999999999999999


Q ss_pred             hHHHHHHHHHhcCCccCccH-HhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNL-IMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFH  160 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (274)
                      +|...|++..+..    |+. ..+...+....+.   .++. .+........+.+......+ ..+ ..|++++|.+.++
T Consensus        90 ~A~~~~~~al~l~----p~~~~~~~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~~i~~~l-~~l-~~~~~~~A~~~~~  159 (281)
T 2c2l_A           90 EAIANLQRAYSLA----KEQRLNFGDDIPSALRI---AKKK-RWNSIEERRIHQESELHSYL-TRL-IAAERERELEECQ  159 (281)
T ss_dssp             HHHHHHHHHHHHH----HHTTCCCCSHHHHHHHH---HHHH-HHHHHHHTCCCCCCHHHHHH-HHH-HHHHHHHHHTTTS
T ss_pred             HHHHHHHHHHHhC----ccchhhHHHHHHHHHHH---HHHH-HHHHHHHHHHhhhHHHHHHH-HHH-HHHHHHHHHHHHH
Confidence            9999999998754    321 1222222222211   1111 12222223334444444433 322 3688899998888


Q ss_pred             HHHhCCCCCCc-chHHHHHHHHHhc-CChHHHHHHHHHHHH
Q 048737          161 EMIKNEWQPTP-LNCATAITMLLDA-DEPEFAIEIWNYILE  199 (274)
Q Consensus       161 ~~~~~~~~~~~-~~~~~l~~~~~~~-~~~~~a~~~~~~~~~  199 (274)
                      ...+.  .|+. .....+...+.+. +.+++|.++|.+..+
T Consensus       160 ~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          160 RNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             GGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             hhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            87764  3543 3333444444444 678889999987765

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.96  E-value=4e-08  Score=65.67  Aligned_cols=120  Identities=8%  Similarity=-0.039  Sum_probs=66.6

Q ss_pred             cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHH
Q 048737          100 NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAIT  179 (274)
Q Consensus       100 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  179 (274)
                      +...+..+...+...|++++|...|++..... +.+...+..+...+...|++++|...+++..+.. +.+...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            34455555666666666666666666655542 2245555566666666666666666666655532 223445555566


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCc
Q 048737          180 MLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRL  222 (274)
Q Consensus       180 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  222 (274)
                      .+...|++++|...+++..+... .+...+..+..++...|++
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELDP-DNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHhcC
Confidence            66666666666666666655432 2344555555555555543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.96  E-value=3.1e-08  Score=68.59  Aligned_cols=95  Identities=7%  Similarity=0.030  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC  145 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (274)
                      .+..+...+.+.|++++|...|+++....   |.+...|..+..+|.+.|++++|+..|++.....+ .+...|..+..+
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~---P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P-~~~~~~~~lg~~  113 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYD---FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGK-NDYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS-SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCC-CCcHHHHHHHHH
Confidence            44444455555555555555555555543   33445555555555555555555555555554321 134455555555


Q ss_pred             HHhcCCHhHHHHHHHHHHh
Q 048737          146 LIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~  164 (274)
                      |...|++++|...|++..+
T Consensus       114 ~~~lg~~~eA~~~~~~al~  132 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQ  132 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            5555555555555555554

>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=98.96  E-value=2.1e-09  Score=85.00  Aligned_cols=151  Identities=9%  Similarity=0.076  Sum_probs=98.8

Q ss_pred             CChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC--------------hhhHHHHH
Q 048737           78 NDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD--------------SLTYNMIF  143 (274)
Q Consensus        78 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~li  143 (274)
                      ++++.|...|+......   +.+...+..+...|.+.|++++|...|++.........              ..+|..+.
T Consensus       127 ~~~~~A~~~~~~a~~~~---p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla  203 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEK---LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLA  203 (336)
T ss_dssp             EEEECCCCGGGCCHHHH---HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHHH---HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHH
Confidence            34455555554444322   22456677777777777777777777777766432211              36777777


Q ss_pred             HHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcc
Q 048737          144 ECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLS  223 (274)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  223 (274)
                      .+|.+.|++++|+..+++.++.. +.+...+..+..+|...|++++|...|++..+... .+...+..+..++...|+.+
T Consensus       204 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~  281 (336)
T 1p5q_A          204 MCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVCQQRIRRQL  281 (336)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHH
Confidence            77778888888888887777643 23456777777777788888888888877777542 34566777777777777777


Q ss_pred             hH-HHHHHHHH
Q 048737          224 DV-RRFAEEML  233 (274)
Q Consensus       224 ~a-~~~~~~m~  233 (274)
                      ++ ..+++.|.
T Consensus       282 ~a~~~~~~~~~  292 (336)
T 1p5q_A          282 AREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77 34555553

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.96  E-value=3.6e-08  Score=66.22  Aligned_cols=97  Identities=6%  Similarity=0.017  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 048737           64 LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIF  143 (274)
Q Consensus        64 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  143 (274)
                      ...+..+...+...|+++.|...|++..+..   +.+..++..+..++...|++++|...+++..+.. +.+...+..+.
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la   91 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRN---PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKA   91 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC---TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC---CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHH
Confidence            4445555555555555555655555555543   3344555555555555555555555555555432 12344555555


Q ss_pred             HHHHhcCCHhHHHHHHHHHHh
Q 048737          144 ECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      ..+...|++++|...+++..+
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            555555555555555555544

>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=98.95  E-value=3.6e-08  Score=65.92  Aligned_cols=99  Identities=10%  Similarity=-0.046  Sum_probs=74.3

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      +...|..+...+.+.|++++|+..|++..+.. +.+...|..+..++.+.|++++|...+++.++..   +.+...|..+
T Consensus         3 ~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~l   78 (126)
T 3upv_A            3 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD---PNFVRAYIRK   78 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC---CCcHHHHHHH
Confidence            55667777778888888888888888777643 4456777777788888888888888888887765   4456777777


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhc
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      ..++...|++++|...|++..+.
T Consensus        79 g~~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           79 ATAQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCHHHHHHHHHHHHHh
Confidence            77888888888888888777664

>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=98.93  E-value=3.3e-08  Score=68.29  Aligned_cols=98  Identities=12%  Similarity=-0.026  Sum_probs=55.6

Q ss_pred             cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHH
Q 048737          100 NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAIT  179 (274)
Q Consensus       100 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  179 (274)
                      +...+..+...+.+.|++++|...|++..... +.+...|..+..+|...|++++|+..|++..+.. +.+...+..+..
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            44455555556666666666666666655542 1245555556666666666666666666655532 223445555566


Q ss_pred             HHHhcCChHHHHHHHHHHHH
Q 048737          180 MLLDADEPEFAIEIWNYILE  199 (274)
Q Consensus       180 ~~~~~~~~~~a~~~~~~~~~  199 (274)
                      ++...|++++|...|++..+
T Consensus        98 ~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666665554

>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=98.88  E-value=2.4e-08  Score=66.82  Aligned_cols=114  Identities=11%  Similarity=0.159  Sum_probs=75.9

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCcc----HHh
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPN----LIM  103 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~  103 (274)
                      ....|..+...+...|++++|+..|++..+.. +.+...+..+...+...|+++.|...++++.....+..++    ..+
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            45567777777888888888888888777643 4456677777777777888888888887777653100111    566


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 048737          104 YNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFE  144 (274)
Q Consensus       104 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  144 (274)
                      +..+..++.+.|++++|.+.|++..+.  .|+......+..
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~  120 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQ  120 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHH
Confidence            777777777777777777777777664  345444444433

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.87  E-value=2.6e-07  Score=70.15  Aligned_cols=194  Identities=10%  Similarity=-0.066  Sum_probs=143.2

Q ss_pred             HHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHH-------HHHHHhCCChhhHHHHHHHHHhcCCccCcc----------
Q 048737           38 TLIRGKQVDEALKFLRVMKGENCFPTLKFFSNA-------LDILVKLNDSTHTVQLWDIMVGIGFNLMPN----------  100 (274)
Q Consensus        38 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----------  100 (274)
                      ++ ..++...|.+.|.+..+.. +-....|..+       ...+.+.++...+...++.....    .|+          
T Consensus        16 ~~-~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l----~p~~l~a~~~~~g   89 (282)
T 4f3v_A           16 SM-LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQI----SMSTLNARIAIGG   89 (282)
T ss_dssp             HH-TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTC----CGGGGCCEEECCT
T ss_pred             cc-cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcC----ChhhhhhhhccCC
Confidence            44 6899999999999999864 3446777777       46666666666666666666552    221          


Q ss_pred             ------------HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCC
Q 048737          101 ------------LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQ  168 (274)
Q Consensus       101 ------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  168 (274)
                                  ...+-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .
T Consensus        90 ~y~~~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d  166 (282)
T 4f3v_A           90 LYGDITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-D  166 (282)
T ss_dssp             TTCCCEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-C
T ss_pred             cccccccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-C
Confidence                        2234556778889999999999999988754  444366666668899999999999998554421 1


Q ss_pred             CC--cchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCc--cHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHH
Q 048737          169 PT--PLNCATAITMLLDADEPEFAIEIWNYILENGILP--LEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDV  242 (274)
Q Consensus       169 ~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  242 (274)
                      |.  ...+..+..++...|++++|+..|++.......|  ..........++.+.|+.++|..+|+++...  .|+..
T Consensus       167 ~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~  242 (282)
T 4f3v_A          167 KFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPEPK  242 (282)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHH
T ss_pred             cccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHH
Confidence            11  2367788899999999999999999988544324  3446677778899999999999999999987  45533

>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=98.87  E-value=1.9e-06  Score=67.65  Aligned_cols=233  Identities=12%  Similarity=0.089  Sum_probs=169.7

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCC-ChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLN-DSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      ..+++.+-......+..++|++++++++..+ +-+..+|+.--..+...+ .++++..+++.+....   +-+..+|+.-
T Consensus        54 ~~~~~~~r~~~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n---PKny~aW~hR  129 (349)
T 3q7a_A           54 KDAMDYFRAIAAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN---LKSYQVWHHR  129 (349)
T ss_dssp             HHHHHHHHHHHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT---CCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC---CCcHHHHHHH
Confidence            3345555555566667789999999999854 445677887777777888 5999999999999876   6778889888


Q ss_pred             HHHHHhc-C-ChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHh--------HHHHHHHHHHhCCCCCCcchHHHH
Q 048737          108 VGLLCNN-N-DVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVH--------EVENFFHEMIKNEWQPTPLNCATA  177 (274)
Q Consensus       108 ~~~~~~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l  177 (274)
                      ..++.+. + ++++++++++++.+... .|-.+|+--.-.+.+.+.++        +++++++++++.. +-|...|+.-
T Consensus       130 ~wlL~~l~~~~~~~EL~~~~k~L~~dp-kNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R  207 (349)
T 3q7a_A          130 LLLLDRISPQDPVSEIEYIHGSLLPDP-KNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWR  207 (349)
T ss_dssp             HHHHHHHCCSCCHHHHHHHHHHTSSCT-TCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHhcCCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            8887776 7 89999999999998643 37788877666666666566        8999999998864 4467788887


Q ss_pred             HHHHHhcCC-------hHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCc--------------------chHHHHHH
Q 048737          178 ITMLLDADE-------PEFAIEIWNYILENGILPLEASANVLLVGLRNLGRL--------------------SDVRRFAE  230 (274)
Q Consensus       178 ~~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--------------------~~a~~~~~  230 (274)
                      ...+.+.+.       ++++.+.+.+.....+ -|...|+-+-..+.+.|+.                    .....+..
T Consensus       208 ~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P-~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  286 (349)
T 3q7a_A          208 WYLRVSRPGAETSSRSLQDELIYILKSIHLIP-HNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGF  286 (349)
T ss_dssp             HHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------C
T ss_pred             HHHHHhccccccchHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHH
Confidence            777777776       6888888888888653 5677787777777776654                    33444444


Q ss_pred             HHHhCC-----CccCHHHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          231 EMLNRR-----ILIYDVTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       231 ~m~~~~-----~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                      ++...+     -.++......+...|...|+.  |.++++.+.++
T Consensus       287 ~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          287 PMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             CCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            443332     135778888899999988876  88888877643

>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=98.85  E-value=2e-07  Score=60.91  Aligned_cols=99  Identities=14%  Similarity=0.005  Sum_probs=62.0

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      ++..+..+...+...|++++|+..|++..... +.+...+..+..++...|+++.|...+++..+..   +.+...+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~   78 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK---PDWGKGYSRK   78 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---TTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC---cccHHHHHHH
Confidence            34556666666666777777777776666532 3345566666666666666666666666666654   3345566666


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhc
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      ..++...|++++|...+++..+.
T Consensus        79 a~~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           79 AAALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHc
Confidence            66666666666666666666554

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.85  E-value=1.4e-07  Score=66.23  Aligned_cols=102  Identities=5%  Similarity=-0.061  Sum_probs=83.6

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhH
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMY  104 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  104 (274)
                      .+.+...|..+...+.+.|++++|+..|++..+.. +-+...|..+..++...|++++|...|++.++..   +.+...|
T Consensus         7 ~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~   82 (164)
T 3sz7_A            7 PTPESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD---PKYSKAW   82 (164)
T ss_dssp             CCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHH
T ss_pred             hhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC---CCCHHHH
Confidence            45567788888888889999999999998888753 3467788888888888899999999998888875   5567788


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737          105 NAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       105 ~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      ..+..+|.+.|++++|...|++..+.
T Consensus        83 ~~lg~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           83 SRLGLARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            88888888888899998888888765

>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=98.84  E-value=1e-08  Score=74.57  Aligned_cols=124  Identities=9%  Similarity=-0.069  Sum_probs=65.8

Q ss_pred             HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC---------------hhhHHHHHHHHHhcCCHhHHHHHHHHHHhC
Q 048737          101 LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD---------------SLTYNMIFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus       101 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                      ...+..+...+.+.|++++|...|++.......-.               ...|..+..+|...|++++|+..+++.++.
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  117 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI  117 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            33445555555555566666655555554311100               145555666666666666666666666553


Q ss_pred             CCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHH
Q 048737          166 EWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVR  226 (274)
Q Consensus       166 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  226 (274)
                      . +.+...+..+..++...|++++|...|++..+... -+...+..+..++...++.+++.
T Consensus       118 ~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~~~  176 (198)
T 2fbn_A          118 D-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP-NNLDIRNSYELCVNKLKEARKKD  176 (198)
T ss_dssp             S-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHC--
T ss_pred             C-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHHHHHHHH
Confidence            2 22345556666666666666666666666655432 23445555555555555554444

>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=98.84  E-value=9.9e-08  Score=64.01  Aligned_cols=63  Identities=13%  Similarity=0.133  Sum_probs=31.2

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHh
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVG   92 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   92 (274)
                      ..++..+...+.+.|++++|++.|++.++.. +-+...|..+..+|...|++++|...+++.++
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~   70 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVE   70 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444455555555555555555555554431 22344444555555555555555555555544

>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=98.83  E-value=7.7e-08  Score=64.56  Aligned_cols=108  Identities=13%  Similarity=0.155  Sum_probs=87.0

Q ss_pred             HHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCC--CC----hhh
Q 048737           65 KFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAF--PD----SLT  138 (274)
Q Consensus        65 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~  138 (274)
                      ..+..+...+.+.|++++|...|++.++..   |.+...|+.+..+|.+.|++++|++.+++..+....  ++    ..+
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~---p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~   85 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD---PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKA   85 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHH
Confidence            456778899999999999999999999875   567888999999999999999999999988764211  11    246


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHH
Q 048737          139 YNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATA  177 (274)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  177 (274)
                      |..+..++...|++++|++.|++.++.  .||+.+...+
T Consensus        86 ~~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~l  122 (127)
T 4gcn_A           86 MSRAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVKKV  122 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHHHH
Confidence            788888999999999999999998773  5676655444

>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=98.82  E-value=9.6e-09  Score=84.65  Aligned_cols=140  Identities=15%  Similarity=0.061  Sum_probs=72.3

Q ss_pred             chHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC---------------HHHHHHHH
Q 048737            7 NVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT---------------LKFFSNAL   71 (274)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~l~   71 (274)
                      ++++|++.|+.....   .|.....|..+...+.+.|++++|+..|++..+.. +.+               ...|..+.
T Consensus       249 ~~~~A~~~~~~~~~~---~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla  324 (457)
T 1kt0_A          249 SFEKAKESWEMDTKE---KLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL-EMEYGLSEKESKASESFLLAAFLNLA  324 (457)
T ss_dssp             EEECCCCGGGSCHHH---HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTCCSCCHHHHHHHHHHHHHHHHHHH
T ss_pred             hcccCcchhhcCHHH---HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-cccccCChHHHHHHHHHHHHHHHHHH
Confidence            445555555544333   45566778888888888888888888888877632 111               23444444


Q ss_pred             HHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 048737           72 DILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKK  151 (274)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  151 (274)
                      .++.+.|++++|...++++++..   +.+...|..+..+|...|++++|...|++..+... -+...+..+..++.+.++
T Consensus       325 ~~~~~~g~~~~A~~~~~~al~~~---p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~  400 (457)
T 1kt0_A          325 MCYLKLREYTKAVECCDKALGLD---SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQISMCQKKAKE  400 (457)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHhcC---CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHH
Confidence            44445555555555555544433   23344444444444444555555544444444311 123344444444444444


Q ss_pred             HhH
Q 048737          152 VHE  154 (274)
Q Consensus       152 ~~~  154 (274)
                      .++
T Consensus       401 ~~~  403 (457)
T 1kt0_A          401 HNE  403 (457)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=98.81  E-value=1.3e-07  Score=64.05  Aligned_cols=100  Identities=8%  Similarity=-0.018  Sum_probs=62.7

Q ss_pred             CchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHH
Q 048737           26 PEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYN  105 (274)
Q Consensus        26 p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  105 (274)
                      |.++..|..+...+...|++++|+..|++..... +.+...+..+..++...|+++.|...+++..+..   +.+...+.
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~   81 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD---GQSVKAHF   81 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC---chhHHHHH
Confidence            3355666666666666667777766666666542 3345566666666666666666666666666654   34455666


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHh
Q 048737          106 AVVGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus       106 ~l~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                      .+..++...|++++|...|++..+
T Consensus        82 ~l~~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           82 FLGQCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHH
Confidence            666666666666666666666554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.81  E-value=3.4e-07  Score=62.64  Aligned_cols=101  Identities=13%  Similarity=-0.040  Sum_probs=74.9

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC----HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCcc
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT----LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPN  100 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  100 (274)
                      .|.+...+..+...+...|++++|++.|++..+.  .|+    ...+..+..++...|++++|...+++..+..   +.+
T Consensus        24 ~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---~~~   98 (148)
T 2dba_A           24 GASSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD---GGD   98 (148)
T ss_dssp             TCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT---SCC
T ss_pred             chHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC---ccC
Confidence            3456777777888888888888888888887764  355    5667777777778888888888888777754   445


Q ss_pred             HHhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737          101 LIMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       101 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      ...+..+..++...|++++|...|++..+.
T Consensus        99 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A           99 VKALYRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            667777777777888888888888777664

>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=98.81  E-value=4.5e-06  Score=65.13  Aligned_cols=219  Identities=11%  Similarity=0.042  Sum_probs=157.4

Q ss_pred             ccchH-HHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCc----------HHHHHHHHHHHhcCCCCCCHHHHHHHHHH
Q 048737            5 EGNVV-EANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQ----------VDEALKFLRVMKGENCFPTLKFFSNALDI   73 (274)
Q Consensus         5 ~g~~~-~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   73 (274)
                      .|.++ +|+++++.+...   .|.+..+|+.--..+...+.          +++++.+++.+.... +-+..+|+.-.-+
T Consensus        42 ~~e~s~eaL~~t~~~L~~---nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wl  117 (331)
T 3dss_A           42 AGELDESVLELTSQILGA---NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWL  117 (331)
T ss_dssp             TTCCSHHHHHHHHHHHTT---CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHH---CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            34444 789999999654   89888899876666555444          678999999998753 5577888877777


Q ss_pred             HHhCC--ChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCC-hhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc-
Q 048737           74 LVKLN--DSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNND-VDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKN-  149 (274)
Q Consensus        74 ~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-  149 (274)
                      +...+  .++++..+++.+.+..   +.|..+|+.-..+....|. ++++++.++++.+..+ -|..+|+.....+... 
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~d---prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p-~N~SAW~~R~~ll~~l~  193 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEAD---ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLH  193 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHHS
T ss_pred             HhccCcccHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhh
Confidence            77777  4889999999999986   7788899988888888888 5899999999998754 3788888776666554 


Q ss_pred             -------------CCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc-----------CChHHHHHHHHHHHHCCCCcc
Q 048737          150 -------------KKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDA-----------DEPEFAIEIWNYILENGILPL  205 (274)
Q Consensus       150 -------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~  205 (274)
                                   +.++++++.+...+... +-|...|+-+--.+...           +.++++++.++++.+..  |+
T Consensus       194 ~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~--pd  270 (331)
T 3dss_A          194 PQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE--PE  270 (331)
T ss_dssp             CCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC--TT
T ss_pred             hccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC--cc
Confidence                         44778888888888753 33456666554444444           34678888888888754  44


Q ss_pred             HHHHHHHHHH-----HHhcCCcchHHHHHHHHHhC
Q 048737          206 EASANVLLVG-----LRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       206 ~~~~~~l~~~-----~~~~g~~~~a~~~~~~m~~~  235 (274)
                      . .|+.+-.+     ....|..+++...+.++.+-
T Consensus       271 ~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          271 N-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             C-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             c-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence            2 33322221     12346666777778777754

>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=98.81  E-value=1.8e-07  Score=62.51  Aligned_cols=95  Identities=8%  Similarity=-0.059  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC  145 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (274)
                      .+..+...+.+.|++++|...|++.++..   +.+...|..+..+|.+.|++++|+..+++..+... .+...|..+..+
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~   81 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA---PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP-NFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC---CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHH
Confidence            44445555555666666666666655543   33455555555555566666666666655555321 134455555555


Q ss_pred             HHhcCCHhHHHHHHHHHHh
Q 048737          146 LIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~  164 (274)
                      +...|++++|...|++..+
T Consensus        82 ~~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           82 QIAVKEYASALETLDAART  100 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHH
Confidence            5555555555555555544

>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=98.80  E-value=3.8e-07  Score=59.57  Aligned_cols=96  Identities=10%  Similarity=0.069  Sum_probs=55.1

Q ss_pred             HHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 048737           65 KFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFE  144 (274)
Q Consensus        65 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  144 (274)
                      ..+..+...+...|+++.|...+++.....   +.+...+..+..++...|++++|...+++..+.. +.+...+..+..
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLD---PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC---CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            344555555666666666666666666543   3345555566666666666666666666655542 123455555555


Q ss_pred             HHHhcCCHhHHHHHHHHHHh
Q 048737          145 CLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~  164 (274)
                      ++...|++++|...+++..+
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            66666666666666665554

>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=98.79  E-value=3e-08  Score=82.08  Aligned_cols=117  Identities=11%  Similarity=0.052  Sum_probs=96.3

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|++++|++.|++..+.   .|.+..+|..+..++.+.|++++|++.+++..+.. +.+...+..+..++...|+++
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            56789999999999999776   88789999999999999999999999999999863 456788999999999999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHH--HHhcCChhhHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGL--LCNNNDVDNVFRFFD  125 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  125 (274)
                      +|.+.|+++.+..   +.+...+..+..+  +.+.|++++|.+.++
T Consensus        92 eA~~~~~~al~~~---p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKVK---PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHS---TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHhC---CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999865   3445566666666  888899999999998

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.77  E-value=2e-07  Score=63.80  Aligned_cols=95  Identities=4%  Similarity=-0.068  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC  145 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (274)
                      .+..+...+.+.|++++|...|+++....   +.+...|..+..+|.+.|++++|...|++...... .+...+..+..+
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~   95 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLD---HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDI-NEPRFPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhC---CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCcHHHHHHHHH
Confidence            34445555666666666666666666654   44555666666666666666666666666655421 234555566666


Q ss_pred             HHhcCCHhHHHHHHHHHHh
Q 048737          146 LIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~  164 (274)
                      |...|++++|...|++..+
T Consensus        96 ~~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            6666666666666666554

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.74  E-value=4.8e-07  Score=61.13  Aligned_cols=98  Identities=4%  Similarity=-0.039  Sum_probs=55.2

Q ss_pred             CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHH
Q 048737           63 TLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMI  142 (274)
Q Consensus        63 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  142 (274)
                      +...+..+...+...|+++.|...|++.....   +.+...|..+..++...|++++|...+++..+... .+...+..+
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l   83 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN---PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFL   83 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC---cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-hhHHHHHHH
Confidence            44555555556666666666666666665543   33455555556666666666666666665555421 234555555


Q ss_pred             HHHHHhcCCHhHHHHHHHHHHh
Q 048737          143 FECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      ..+|...|++++|...|++..+
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHH
Confidence            5555566666666655555543

>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=98.74  E-value=1.7e-07  Score=62.53  Aligned_cols=97  Identities=12%  Similarity=0.150  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCC--CCC----hhh
Q 048737           65 KFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGA--FPD----SLT  138 (274)
Q Consensus        65 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~  138 (274)
                      ..+..+...+...|+++.|...|++.....   +.+...+..+..++...|++++|...+++......  .++    ..+
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   81 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD---PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKA   81 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC---CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHH
Confidence            344555556666666666666666666543   34455566666666666666666666666554321  111    444


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737          139 YNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      +..+...+...|++++|...|++..+
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            55555555555666666666555554

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.74  E-value=6.3e-07  Score=73.03  Aligned_cols=198  Identities=6%  Similarity=-0.032  Sum_probs=139.2

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCc--------------hHhHHHHHHHHHhccCcHHHHHHHHHHHhcC-CCCCCH--
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPE--------------HVLAYETFLITLIRGKQVDEALKFLRVMKGE-NCFPTL--   64 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~--------------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~~--   64 (274)
                      +.+.|++++|++.|..+.+...-..+              ...++..++..|...|++++|.+.+.++... +..++.  
T Consensus        14 l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~   93 (434)
T 4b4t_Q           14 LVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKT   93 (434)
T ss_dssp             HHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHH
Confidence            35679999999999998875111110              1124778999999999999999999987652 111222  


Q ss_pred             --HHHHHHHHHHHhCCChhhHHHHHHHHHhcC---CccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcC----CCC-
Q 048737           65 --KFFSNALDILVKLNDSTHTVQLWDIMVGIG---FNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHG----AFP-  134 (274)
Q Consensus        65 --~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-  134 (274)
                        .+.+.+-..+...|+.+.+..+++......   .+...-..++..+...|...|++++|..++++....-    -.+ 
T Consensus        94 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~  173 (434)
T 4b4t_Q           94 VKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPS  173 (434)
T ss_dssp             HHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchh
Confidence              123333344456789999999998876431   0012235678889999999999999999999876431    112 


Q ss_pred             ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC--CC-CC-C--cchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048737          135 DSLTYNMIFECLIKNKKVHEVENFFHEMIKN--EW-QP-T--PLNCATAITMLLDADEPEFAIEIWNYILE  199 (274)
Q Consensus       135 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~-~~-~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  199 (274)
                      ...++..++..|...|++++|..++++....  .+ .| .  ...+..+...+...++++.|...|.+..+
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          174 LVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            2467889999999999999999999887643  11 11 1  23456667777888999999888877654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.73  E-value=1.9e-07  Score=60.47  Aligned_cols=94  Identities=9%  Similarity=-0.028  Sum_probs=43.0

Q ss_pred             HHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC--ChhhHHHHHH
Q 048737           67 FSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP--DSLTYNMIFE  144 (274)
Q Consensus        67 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~  144 (274)
                      +..+...+...|++++|...++++.+..   +.+...+..+..++...|++++|...|++..+.. +.  +...+..+..
T Consensus         9 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~   84 (112)
T 2kck_A            9 YYLEGVLQYDAGNYTESIDLFEKAIQLD---PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKAD   84 (112)
T ss_dssp             GGGHHHHHHSSCCHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhC---cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHH
Confidence            3344444444555555555555544433   2334444444444445555555555554444431 11  2344444444


Q ss_pred             HHHhc-CCHhHHHHHHHHHHh
Q 048737          145 CLIKN-KKVHEVENFFHEMIK  164 (274)
Q Consensus       145 ~~~~~-~~~~~a~~~~~~~~~  164 (274)
                      .+... |++++|.+.++....
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHHhCCHHHHHHHHHHHhh
Confidence            44444 444455444444443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.70  E-value=5.9e-07  Score=62.96  Aligned_cols=99  Identities=6%  Similarity=0.030  Sum_probs=75.7

Q ss_pred             CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHH
Q 048737           63 TLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMI  142 (274)
Q Consensus        63 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  142 (274)
                      +...+..+...+...|++++|...|++.++..   +.+...|..+..+|.+.|++++|+..|++..+... .+...|..+
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l   85 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA---PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDP-KYSKAWSRL   85 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHH
Confidence            35567777778888888888888888888765   45677788888888888888888888888777532 246777788


Q ss_pred             HHHHHhcCCHhHHHHHHHHHHhC
Q 048737          143 FECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                      ..+|...|++++|...|++.++.
T Consensus        86 g~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           86 GLARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHh
Confidence            88888888888888888887764

>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=98.67  E-value=2.3e-08  Score=82.74  Aligned_cols=128  Identities=12%  Similarity=0.042  Sum_probs=103.0

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      +...|..+...+.+.|++++|++.|++..+.. +.+...+..+..++.+.|++++|...++++.+..   +.+..++..+
T Consensus         5 ~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~---p~~~~~~~~l   80 (477)
T 1wao_1            5 RAEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD---KKYIKGYYRR   80 (477)
T ss_dssp             HHTTSSSSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC---TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC---CCCHHHHHHH
Confidence            44456666777889999999999999998853 4458899999999999999999999999999976   5678899999


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH--HHhcCCHhHHHHHHH
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC--LIKNKKVHEVENFFH  160 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~--~~~~~~~~~a~~~~~  160 (274)
                      ..+|.+.|++++|.+.|++..+... .+...+..+..+  +.+.|++++|++.++
T Consensus        81 g~~~~~~g~~~eA~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           81 AASNMALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHST-TCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999999999999988632 234556666555  888899999999998

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.67  E-value=9.2e-08  Score=63.60  Aligned_cols=96  Identities=4%  Similarity=-0.044  Sum_probs=84.2

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHH
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGL  110 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~  110 (274)
                      .+..+...+.+.|++++|+..|++..+.. +.+...+..+..++...|++++|...|++..+..   +.+...+..+..+
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~---P~~~~~~~~la~~   94 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD---PKDIAVHAALAVS   94 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHH
Confidence            46667888999999999999999998853 4578888999999999999999999999999976   5567889999999


Q ss_pred             HHhcCChhhHHHHHHHHHhc
Q 048737          111 LCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~  130 (274)
                      +.+.|++++|...|++..+.
T Consensus        95 ~~~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           95 HTNEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999998875

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.67  E-value=2.7e-07  Score=61.28  Aligned_cols=96  Identities=4%  Similarity=-0.067  Sum_probs=82.1

Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC  145 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (274)
                      .+..+...+.+.|++++|...|+++++..   +.+...|..+..++.+.|++++|+..|++..+... -+...+..+..+
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~---P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~   94 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE---PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVS   94 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence            34566778889999999999999999875   56788899999999999999999999999988642 257788899999


Q ss_pred             HHhcCCHhHHHHHHHHHHhC
Q 048737          146 LIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~  165 (274)
                      +...|++++|...+++.++.
T Consensus        95 ~~~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           95 HTNEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999998864

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.66  E-value=2.1e-06  Score=69.96  Aligned_cols=201  Identities=5%  Similarity=-0.063  Sum_probs=143.7

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHhcCCCCC-C---------------HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCcc
Q 048737           34 TFLITLIRGKQVDEALKFLRVMKGENCFP-T---------------LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNL   97 (274)
Q Consensus        34 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~---------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   97 (274)
                      .-...+.+.|++++|++.|..+.+..... +               ...+..+...|...|++++|.+.+.++...-..+
T Consensus         9 ~~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~   88 (434)
T 4b4t_Q            9 EEARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQF   88 (434)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTS
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHc
Confidence            34567788999999999999988743211 1               1247788999999999999999999887532001


Q ss_pred             Ccc---HHhHHHHHHHHHhcCChhhHHHHHHHHHh----cCCCCC-hhhHHHHHHHHHhcCCHhHHHHHHHHHHhC--CC
Q 048737           98 MPN---LIMYNAVVGLLCNNNDVDNVFRFFDQMVF----HGAFPD-SLTYNMIFECLIKNKKVHEVENFFHEMIKN--EW  167 (274)
Q Consensus        98 ~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~  167 (274)
                      ...   ..+.+.+-..+...|+++.|..+++....    .+..+. ..++..+...|...|++++|..++......  +.
T Consensus        89 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~  168 (434)
T 4b4t_Q           89 AKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKL  168 (434)
T ss_dssp             CHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTS
T ss_pred             cchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhc
Confidence            111   12344444555667899999999987654    222222 467788999999999999999999988653  11


Q ss_pred             --CCC-cchHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCcc--HHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          168 --QPT-PLNCATAITMLLDADEPEFAIEIWNYILEN----GILPL--EASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       168 --~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                        .+. ...+..++..|...|++++|..++++....    +.+|.  ...+..+...+...|++++|...|.+..+
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          169 DDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             SCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             ccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence              111 346888899999999999999999887642    22222  34566677777888999999888777643

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.65  E-value=1.7e-06  Score=59.11  Aligned_cols=98  Identities=9%  Similarity=0.024  Sum_probs=63.7

Q ss_pred             CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCcc---HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhH
Q 048737           63 TLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPN---LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTY  139 (274)
Q Consensus        63 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  139 (274)
                      +...+..+...+...|+++.|...|++..+..   +.+   ...+..+..+|...|++++|...+++..+.. +.+...+
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD---ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC---CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc---ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            45566666677777777777777777777643   222   5566666667777777777777777666542 2245566


Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737          140 NMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       140 ~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      ..+..++...|++++|...|++..+
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6666666677777777777766665

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.64  E-value=3.5e-07  Score=63.39  Aligned_cols=135  Identities=7%  Similarity=-0.079  Sum_probs=79.7

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCC-CCC----HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCc---cCcc
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGENC-FPT----LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFN---LMPN  100 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~  100 (274)
                      ..++..+...+...|++++|+..+++..+... .++    ..++..+...+...|++++|...+++..+....   ....
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   88 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVE   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHH
Confidence            44677777778888888888888877665210 111    135666677777777777777777776653200   0011


Q ss_pred             HHhHHHHHHHHHhcCChhhHHHHHHHHHhcC----CCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737          101 LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHG----AFP-DSLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus       101 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      ..++..+..++...|++++|...+++..+..    ..+ ...++..+...+...|++++|...+++..
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  156 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHL  156 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            3456666666777777777777776654321    000 12345555555666666666666665554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.63  E-value=3e-05  Score=64.36  Aligned_cols=247  Identities=8%  Similarity=0.015  Sum_probs=129.3

Q ss_pred             HHHHHHHHHHHhccCCCCchHhHHHHHHHHHh----ccCcHHHHHHHHHHHhcCCCCCC--HHHHH--------------
Q 048737            9 VEANKTFGEMVERFEWNPEHVLAYETFLITLI----RGKQVDEALKFLRVMKGENCFPT--LKFFS--------------   68 (274)
Q Consensus         9 ~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~----~~~~~~~a~~~~~~~~~~~~~~~--~~~~~--------------   68 (274)
                      +....+|+......|..|.+...|...+..+.    ..++++.+.++|++.+..  ++.  ...|.              
T Consensus        65 ~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~--P~~~~~~lw~~Y~~fE~~~~~~~~  142 (493)
T 2uy1_A           65 FKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQT--PMGSLSELWKDFENFELELNKITG  142 (493)
T ss_dssp             -CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTS--CCTTHHHHHHHHHHHHHHHCHHHH
T ss_pred             HHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhC--hhhhHHHHHHHHHHHHHHhccccH
Confidence            44566777766656666767778887777654    246777888888888763  221  11111              


Q ss_pred             ----------------------------------HHHHHHHhC--CC-----hhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           69 ----------------------------------NALDILVKL--ND-----STHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        69 ----------------------------------~l~~~~~~~--~~-----~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                                                        ..+..-...  +-     .+.+..+|++++...   +.+...|...
T Consensus       143 ~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~---p~~~~lW~~y  219 (493)
T 2uy1_A          143 KKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF---YYAEEVYFFY  219 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT---TTCHHHHHHH
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC---CCCHHHHHHH
Confidence                                              111110010  00     233566777777653   5567778888


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHH----------------------------------------HHHHHHH
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYN----------------------------------------MIFECLI  147 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----------------------------------------~li~~~~  147 (274)
                      +..+.+.|+.+.|..+|++....  +.+...|.                                        ..+....
T Consensus       220 a~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~y~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~  297 (493)
T 2uy1_A          220 SEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLYYGLVMDEEAVYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVL  297 (493)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHTTCTHHHHHHHHHTC----------CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHHHHhhcchhHHHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHH
Confidence            88888889999999999988776  22222221                                        1122222


Q ss_pred             hcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHh-cCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHH
Q 048737          148 KNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLD-ADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVR  226 (274)
Q Consensus       148 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  226 (274)
                      +.++++.|..+|++. ... ..+...|......-.. .++++.|..+|+...+.-. -+...+...+......|+.+.|.
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-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHP-DSTLLKEEFFLFLLRIGDEENAR  374 (493)
T ss_dssp             HHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHH
Confidence            344455566666655 211 1122222211111111 2246666666666555321 12233444555555566666666


Q ss_pred             HHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          227 RFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       227 ~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      .+|+.+.+     ....|...+.-=...|+.  ++.++++..+..+
T Consensus       375 ~l~er~~k-----~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~~~~  415 (493)
T 2uy1_A          375 ALFKRLEK-----TSRMWDSMIEYEFMVGSMELFRELVDQKMDAIK  415 (493)
T ss_dssp             HHHHHSCC-----BHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHH-----HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhc
Confidence            66666521     234444444444445555  5556666555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.62  E-value=8.8e-07  Score=59.13  Aligned_cols=95  Identities=4%  Similarity=-0.130  Sum_probs=71.1

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCH---HHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCcc---HHhHH
Q 048737           32 YETFLITLIRGKQVDEALKFLRVMKGENCFPTL---KFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPN---LIMYN  105 (274)
Q Consensus        32 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~  105 (274)
                      +..+...+...|++++|++.|++..+.. +.+.   ..+..+..++...|++++|...|+++.+..   +.+   ..++.
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~---p~~~~~~~~~~   80 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY---PTHDKAAGGLL   80 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTSTTHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC---CCCcccHHHHH
Confidence            4456677788888888888888887642 2222   466777788888888888888888888764   333   56677


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhc
Q 048737          106 AVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       106 ~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      .+..++.+.|++++|...|+++.+.
T Consensus        81 ~la~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           81 KLGLSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            7888888888888888888888775

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.61  E-value=1.9e-07  Score=61.55  Aligned_cols=90  Identities=11%  Similarity=-0.081  Sum_probs=61.9

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhH
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHT   83 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   83 (274)
                      ..|++++|+..|++..+...-.|.+..+|..+...+...|++++|+..|++..+.. +-+...+..+..++...|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHH
Confidence            45778888888887755300036667778888888888888888888888877653 34567777777888888888888


Q ss_pred             HHHHHHHHhcC
Q 048737           84 VQLWDIMVGIG   94 (274)
Q Consensus        84 ~~~~~~~~~~~   94 (274)
                      ...+++.....
T Consensus        81 ~~~~~~al~~~   91 (117)
T 3k9i_A           81 VELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            88888777653

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.58  E-value=7.1e-07  Score=61.78  Aligned_cols=133  Identities=12%  Similarity=0.049  Sum_probs=67.9

Q ss_pred             HhHHHHHHHHHhcCChhhHHHHHHHHHhcCCC-CC----hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCC-CCC----c
Q 048737          102 IMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAF-PD----SLTYNMIFECLIKNKKVHEVENFFHEMIKNEW-QPT----P  171 (274)
Q Consensus       102 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~  171 (274)
                      .++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++..+... .++    .
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            34455555555556666665555554432100 01    13455555556666666666666655543210 011    2


Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHC----CCC-ccHHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          172 LNCATAITMLLDADEPEFAIEIWNYILEN----GIL-PLEASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       172 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      ..+..+...+...|++++|...+++..+.    +.. .....+..+...+...|++++|.+.+++..+
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            34455555666666666666666655432    111 1123455566666667777777776666543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.57  E-value=2.1e-06  Score=57.28  Aligned_cols=94  Identities=9%  Similarity=-0.078  Sum_probs=68.2

Q ss_pred             HHHHHHHHhCCChhhHHHHHHHHHhcCCccCccH---HhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC---hhhHHH
Q 048737           68 SNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNL---IMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD---SLTYNM  141 (274)
Q Consensus        68 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~  141 (274)
                      ..+...+...|++++|...|+++.+..   +.+.   ..+..+..++.+.|++++|...|++..+.... +   ...+..
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~---p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~   81 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELY---PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLK   81 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC---SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHC---CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHH
Confidence            345566777888888888888887754   2233   46777778888888888888888887765321 2   456777


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHHhC
Q 048737          142 IFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus       142 li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                      +..++...|++++|...|+.+.+.
T Consensus        82 la~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           82 LGLSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            777888888888888888887764

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.56  E-value=1.3e-05  Score=66.58  Aligned_cols=206  Identities=9%  Similarity=-0.040  Sum_probs=141.3

Q ss_pred             hHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHH
Q 048737            8 VVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLW   87 (274)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   87 (274)
                      .+.+..+|+++...   .|.++..|...+..+.+.|++++|..+|++....  +.+...+.    .|....+.+..   +
T Consensus       195 ~~Rv~~~ye~al~~---~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~---~  262 (493)
T 2uy1_A          195 ESRMHFIHNYILDS---FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAV---Y  262 (493)
T ss_dssp             HHHHHHHHHHHHHH---TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHH---H
T ss_pred             HHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHH---H
Confidence            35567889988775   5667889999999999999999999999999986  33333322    22222222222   3


Q ss_pred             HHHHhcC---C-------ccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHH-hcCCHhHHH
Q 048737           88 DIMVGIG---F-------NLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLI-KNKKVHEVE  156 (274)
Q Consensus        88 ~~~~~~~---~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-~~~~~~~a~  156 (274)
                      +.+.+.-   .       .......+|...+....+.++.+.|..+|++. .. ...+...|......-. ..++++.|.
T Consensus       263 ~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar  340 (493)
T 2uy1_A          263 GDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPY  340 (493)
T ss_dssp             HHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHH
T ss_pred             HHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHH
Confidence            3332210   0       00122356788888888888999999999999 32 2223444443222222 234699999


Q ss_pred             HHHHHHHhCCCCCC-cchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          157 NFFHEMIKNEWQPT-PLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       157 ~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      .+|+...+.-  |+ +..+...++...+.|+.+.|..+|+++.     .....|...+..-...|+.+.+..++++..+
T Consensus       341 ~ife~al~~~--~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          341 NIFSSGLLKH--PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            9999998752  33 3455667777788899999999999872     3567888888877888999999999988864

>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=98.56  E-value=3.8e-05  Score=59.95  Aligned_cols=183  Identities=9%  Similarity=0.010  Sum_probs=140.4

Q ss_pred             hHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccC--cHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCC-hhhHH
Q 048737            8 VVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGK--QVDEALKFLRVMKGENCFPTLKFFSNALDILVKLND-STHTV   84 (274)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~   84 (274)
                      +++++.+++.+...   .|.+..+|+.-.-.+...+  .+++++.+++.+.+.. +-|...|+--.-++...|. ++++.
T Consensus        90 l~~EL~~~~~~L~~---~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel  165 (331)
T 3dss_A           90 VKAELGFLESCLRV---NPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEEL  165 (331)
T ss_dssp             HHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHHHHHHHHHHHh---CCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHH
Confidence            68899999999776   8989999999888888887  4899999999999864 5578888888777888888 58999


Q ss_pred             HHHHHHHhcCCccCccHHhHHHHHHHHHhc--------------CChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc-
Q 048737           85 QLWDIMVGIGFNLMPNLIMYNAVVGLLCNN--------------NDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKN-  149 (274)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-  149 (274)
                      +.++.+++..   +.|...|+.....+.+.              +.++++++.+++.....+ -|...|+-+-..+.+. 
T Consensus       166 ~~~~~~I~~~---p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P-~d~SaW~Y~r~ll~~~~  241 (331)
T 3dss_A          166 AFTDSLITRN---FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGAGS  241 (331)
T ss_dssp             HHHHHHHHHC---SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHSSS
T ss_pred             HHHHHHHHHC---CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcc
Confidence            9999999986   67888888877776665              457889999999887643 3677887655555444 


Q ss_pred             ----------CCHhHHHHHHHHHHhCCCCCCcchHHHHH-----HHHHhcCChHHHHHHHHHHHHCC
Q 048737          150 ----------KKVHEVENFFHEMIKNEWQPTPLNCATAI-----TMLLDADEPEFAIEIWNYILENG  201 (274)
Q Consensus       150 ----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-----~~~~~~~~~~~a~~~~~~~~~~~  201 (274)
                                +.++++++.++++.+.  .||. .|..+.     ......+..+++...+.++.+.+
T Consensus       242 ~~~~~~~~~~~~l~~el~~~~elle~--~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~D  305 (331)
T 3dss_A          242 GRCELSVEKSTVLQSELESCKELQEL--EPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD  305 (331)
T ss_dssp             CGGGCCHHHHHHHHHHHHHHHHHHHH--CTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHC
T ss_pred             CccccchHHHHHHHHHHHHHHHHHhh--Cccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhC
Confidence                      3477899999999874  5765 343222     22224567778888999988755

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.54  E-value=2.7e-06  Score=59.37  Aligned_cols=63  Identities=11%  Similarity=0.075  Sum_probs=35.9

Q ss_pred             HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737          101 LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       101 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      ...|..+..+|.+.|++++|+..+++..... +.+...|..+..+|...|++++|...|++..+
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence            3455555566666666666666666655542 12355555566666666666666666665554

>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=98.53  E-value=9.2e-07  Score=70.71  Aligned_cols=116  Identities=8%  Similarity=-0.050  Sum_probs=69.4

Q ss_pred             cccccchHHHHHHHHHHHhcc-------------CCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHH
Q 048737            2 WEKEGNVVEANKTFGEMVERF-------------EWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFS   68 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~-------------~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   68 (274)
                      |.+.|++++|++.|++..+..             ...|.+..+|..+..++.+.|++++|++.+++..+.. +.+...+.
T Consensus       233 ~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~  311 (370)
T 1ihg_A          233 FFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALY  311 (370)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chhHHHHH
Confidence            346678888888888776510             0244455566666666666666666666666666542 23455666


Q ss_pred             HHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHH
Q 048737           69 NALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVF  121 (274)
Q Consensus        69 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  121 (274)
                      .+..++...|++++|...|+++.+..   +.+...+..+..++.+.++.+++.
T Consensus       312 ~lg~~~~~~g~~~eA~~~l~~Al~l~---P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          312 RRAQGWQGLKEYDQALADLKKAQEIA---PEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666666666666643   334555555555555555544443

>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=98.52  E-value=2.8e-06  Score=69.95  Aligned_cols=130  Identities=8%  Similarity=-0.007  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCcc---------------HHhHHHHHHHHHhcCChhhHHHHHHHHH
Q 048737           64 LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPN---------------LIMYNAVVGLLCNNNDVDNVFRFFDQMV  128 (274)
Q Consensus        64 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~  128 (274)
                      ...+..+...+.+.|+++.|...|+++++..   +.+               ...|..+..+|.+.|++++|+..+++.+
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~---p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al  344 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL---EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKAL  344 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh---cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            3456677778888888888888888887753   222               4677777777888888888888888777


Q ss_pred             hcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHH-HHHHHH
Q 048737          129 FHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIE-IWNYIL  198 (274)
Q Consensus       129 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~  198 (274)
                      +... .+...|..+..+|...|++++|...|++.++.. +-+...+..+..++.+.++.+++.. .+..|.
T Consensus       345 ~~~p-~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          345 GLDS-ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             HHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             hcCC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6532 356777777777788888888888887777643 2244566677777777777666553 344443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.52  E-value=1.6e-06  Score=60.59  Aligned_cols=104  Identities=12%  Similarity=0.013  Sum_probs=87.1

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcC-------CC----------CCCHHHHHHHHHHHHhCCChhhHHHHHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGE-------NC----------FPTLKFFSNALDILVKLNDSTHTVQLWDIM   90 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-------~~----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   90 (274)
                      .+..+......+.+.|++++|+..|.+....       +-          +.+...|..+..++.+.|+++.|...+++.
T Consensus        10 ~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~a   89 (162)
T 3rkv_A           10 SVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEV   89 (162)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            4667888899999999999999999988764       11          122367888889999999999999999999


Q ss_pred             HhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCCh
Q 048737           91 VGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDS  136 (274)
Q Consensus        91 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  136 (274)
                      ++..   +.+...|..+..+|...|++++|...|++....  .|+.
T Consensus        90 l~~~---p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~  130 (162)
T 3rkv_A           90 LKRE---ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAA  130 (162)
T ss_dssp             HHHS---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGG
T ss_pred             HhcC---CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCC
Confidence            9976   667889999999999999999999999999885  4543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.50  E-value=5.5e-07  Score=71.14  Aligned_cols=149  Identities=7%  Similarity=-0.035  Sum_probs=69.6

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      ....+..+...+.+.|++++|+..|++....  .|+...       +...++.+.+...   +         ....|..+
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~---l---------~~~~~~nl  236 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALA---V---------KNPCHLNI  236 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHH---H---------HTHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHH---H---------HHHHHHHH
Confidence            4556677777777888888888888777653  243221       1111111111110   0         11256667


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCC-cchHHHHHHHH-HhcC
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT-PLNCATAITML-LDAD  185 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~-~~~~  185 (274)
                      ..+|.+.|++++|+..+++.++.. +.+...|..+..+|...|++++|...|++..+.  .|+ ...+..+.... ...+
T Consensus       237 a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~  313 (338)
T 2if4_A          237 AACLIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKA  313 (338)
T ss_dssp             HHHHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHH
Confidence            777777777777777777776642 225667777777777777777777777776553  233 33444444432 2345


Q ss_pred             ChHHHHHHHHHHHHC
Q 048737          186 EPEFAIEIWNYILEN  200 (274)
Q Consensus       186 ~~~~a~~~~~~~~~~  200 (274)
                      ..+.+...|.++...
T Consensus       314 ~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          314 LYQKQKEMYKGIFKG  328 (338)
T ss_dssp             ---------------
T ss_pred             HHHHHHHHHHHhhCC
Confidence            566666777776653

>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=98.49  E-value=2.7e-06  Score=68.02  Aligned_cols=122  Identities=6%  Similarity=-0.112  Sum_probs=69.8

Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCC-------------ccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCC
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGF-------------NLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGA  132 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  132 (274)
                      .+..+...+.+.|++++|...|+++++.-.             .-+.+..+|..+..+|.+.|++++|+..+++..+...
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p  304 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP  304 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCc
Confidence            355666677777777777777777765100             0123345566666666666666666666666665421


Q ss_pred             CCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCC-CcchHHHHHHHHHhcCChHHH
Q 048737          133 FPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQP-TPLNCATAITMLLDADEPEFA  190 (274)
Q Consensus       133 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a  190 (274)
                       .+...|..+..+|...|++++|...|++..+.  .| +...+..+..++...++.+++
T Consensus       305 -~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          305 -SNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             -TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             -hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHH
Confidence             24556666666666666666666666666553  23 233444444444444444443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.47  E-value=4.3e-07  Score=59.83  Aligned_cols=86  Identities=7%  Similarity=-0.016  Sum_probs=35.7

Q ss_pred             CChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHH
Q 048737           78 NDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVEN  157 (274)
Q Consensus        78 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  157 (274)
                      |++++|...|++.++.+.+-+.+...+..+..+|.+.|++++|...|++..+..+ -+...+..+..++...|++++|..
T Consensus         4 g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            4 GLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP-NHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ---CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHcCCHHHHHH
Confidence            4444444444444443100022233444444444444445555444444444321 123444444444444455555544


Q ss_pred             HHHHHHh
Q 048737          158 FFHEMIK  164 (274)
Q Consensus       158 ~~~~~~~  164 (274)
                      .+++..+
T Consensus        83 ~~~~al~   89 (117)
T 3k9i_A           83 LLLKIIA   89 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>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=98.46  E-value=9.1e-06  Score=68.66  Aligned_cols=173  Identities=10%  Similarity=0.037  Sum_probs=139.0

Q ss_pred             chHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCc----------HHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh
Q 048737            7 NVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQ----------VDEALKFLRVMKGENCFPTLKFFSNALDILVK   76 (274)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   76 (274)
                      .-++|++.++.+...   .|++..+|+.--.++...|+          ++++++.++.+.+.. +-+..+|..-.-++.+
T Consensus        44 ~~eeal~~~~~~l~~---nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~  119 (567)
T 1dce_A           44 LDESVLELTSQILGA---NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSR  119 (567)
T ss_dssp             CSHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHH---CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            346778999998776   89889999988888877777          899999999999864 4567888888888888


Q ss_pred             CC--ChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcC-ChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc----
Q 048737           77 LN--DSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNN-DVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKN----  149 (274)
Q Consensus        77 ~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----  149 (274)
                      .+  +++++...++++.+..   +.|..+|+.-..+..+.| .++++++.++++.+..+ -|..+|+.....+...    
T Consensus       120 l~~~~~~~el~~~~k~l~~d---~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p-~n~saW~~r~~ll~~l~~~~  195 (567)
T 1dce_A          120 LPEPNWARELELCARFLEAD---ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQP  195 (567)
T ss_dssp             CSSCCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCC
T ss_pred             cccccHHHHHHHHHHHHhhc---cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCC-CCccHHHHHHHHHHhhcccc
Confidence            88  6799999999999987   678899998888888888 89999999999988754 3788888877776663    


Q ss_pred             ----------CCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChH
Q 048737          150 ----------KKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPE  188 (274)
Q Consensus       150 ----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  188 (274)
                                +.++++.+.+++.+... +-|...|..+-..+.+.++.+
T Consensus       196 ~~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          196 DSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             CSSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCS
T ss_pred             cccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCcc
Confidence                      45788999998888753 335677877777776666633

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.45  E-value=7.1e-07  Score=70.49  Aligned_cols=138  Identities=11%  Similarity=0.030  Sum_probs=76.5

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|++++|+..|++....   .|.+.        .+...++.+++...+.          ...|..+..++.+.|+++
T Consensus       189 ~~~~g~~~~A~~~y~~Al~~---~p~~~--------~~~~~~~~~~~~~~l~----------~~~~~nla~~~~~~g~~~  247 (338)
T 2if4_A          189 LFKEEKLEEAMQQYEMAIAY---MGDDF--------MFQLYGKYQDMALAVK----------NPCHLNIAACLIKLKRYD  247 (338)
T ss_dssp             TCSSSCCHHHHHHHHHHHHH---SCHHH--------HHTCCHHHHHHHHHHH----------THHHHHHHHHHHTTTCCH
T ss_pred             HHhcCCHHHHHHHHHHHHHH---hccch--------hhhhcccHHHHHHHHH----------HHHHHHHHHHHHHcCCHH
Confidence            56789999999999998765   56332        1334455555443331          136777888888888888


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC-ChhhHHHHHHH-HHhcCCHhHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP-DSLTYNMIFEC-LIKNKKVHEVENFF  159 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~-~~~~~~~~~a~~~~  159 (274)
                      .|...+++.++..   +.+...|..+..+|...|++++|...|++..+.  .| +...+..+... ....+..+++...|
T Consensus       248 ~A~~~~~~al~~~---p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~~~~a~~~~  322 (338)
T 2if4_A          248 EAIGHCNIVLTEE---EKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKALYQKQKEMY  322 (338)
T ss_dssp             HHHHHHHHHHHHC---TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------------
T ss_pred             HHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888888765   456778888888888888888888888888764  33 34445544444 23445667777788


Q ss_pred             HHHHhC
Q 048737          160 HEMIKN  165 (274)
Q Consensus       160 ~~~~~~  165 (274)
                      ..|...
T Consensus       323 ~~~l~~  328 (338)
T 2if4_A          323 KGIFKG  328 (338)
T ss_dssp             ------
T ss_pred             HHhhCC
Confidence            877653

>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=98.44  E-value=1.4e-05  Score=54.19  Aligned_cols=112  Identities=9%  Similarity=0.020  Sum_probs=68.6

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh----CCCh
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVK----LNDS   80 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~   80 (274)
                      .+++++|++.|++..+. | .|   .+.  |...|...+.+++|+++|++..+.|   ++..+..|...|..    .+++
T Consensus         8 ~~d~~~A~~~~~~aa~~-g-~~---~a~--lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~   77 (138)
T 1klx_A            8 KKDLKKAIQYYVKACEL-N-EM---FGC--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDL   77 (138)
T ss_dssp             HHHHHHHHHHHHHHHHT-T-CT---THH--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCH
T ss_pred             ccCHHHHHHHHHHHHcC-C-CH---hhh--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccH
Confidence            45666777777766664 3 22   222  5566666666666777777666653   45556666666665    5666


Q ss_pred             hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHh----cCChhhHHHHHHHHHhcC
Q 048737           81 THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCN----NNDVDNVFRFFDQMVFHG  131 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  131 (274)
                      ++|...|++..+.|     +...+..|...|..    .+++++|...|++..+.|
T Consensus        78 ~~A~~~~~~Aa~~g-----~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           78 RKAAQYYSKACGLN-----DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHHHHTT-----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCC-----CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            67777776666655     34555666666666    566666666666666554

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.42  E-value=1.4e-06  Score=72.06  Aligned_cols=125  Identities=15%  Similarity=0.073  Sum_probs=88.6

Q ss_pred             ccCcHHHHHHHHHHHhcC---CCCCC----HHHHHHHHHHHHhCCChhhHHHHHHHHHh-----cCCccCccHHhHHHHH
Q 048737           41 RGKQVDEALKFLRVMKGE---NCFPT----LKFFSNALDILVKLNDSTHTVQLWDIMVG-----IGFNLMPNLIMYNAVV  108 (274)
Q Consensus        41 ~~~~~~~a~~~~~~~~~~---~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~~~l~  108 (274)
                      ..|++++|+.++++..+.   -+.|+    ..+++.|..+|...|++++|+.++++.++     .|.+.+....+++.|.
T Consensus       321 ~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  400 (490)
T 3n71_A          321 SEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAG  400 (490)
T ss_dssp             TTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            567888888888776541   12232    45678888888888888888888887764     2433344566788888


Q ss_pred             HHHHhcCChhhHHHHHHHHHh-----cCC-CCC-hhhHHHHHHHHHhcCCHhHHHHHHHHHHhC
Q 048737          109 GLLCNNNDVDNVFRFFDQMVF-----HGA-FPD-SLTYNMIFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~-----~~~-~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                      ..|...|++++|+.++++..+     .|. .|+ ..+.+.+-.++...+.+++|+.+|..+++.
T Consensus       401 ~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          401 LTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            899999999998888887653     231 122 344566667777888889999888888763

>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=98.37  E-value=2.4e-05  Score=53.09  Aligned_cols=111  Identities=8%  Similarity=-0.050  Sum_probs=62.3

Q ss_pred             CcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHh----cCChh
Q 048737           43 KQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCN----NNDVD  118 (274)
Q Consensus        43 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~  118 (274)
                      +++++|+++|++..+.| .|+..    |...|...+.++.|.+.|++..+.|     +...+..|...|..    .++++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g-----~~~a~~~Lg~~y~~G~g~~~d~~   78 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN-----SGNGCRFLGDFYENGKYVKKDLR   78 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT-----CHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC-----CHHHHHHHHHHHHcCCCCCccHH
Confidence            35566666666666655 22222    4445555555666666666666655     44555555555555    55666


Q ss_pred             hHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCCHhHHHHHHHHHHhCC
Q 048737          119 NVFRFFDQMVFHGAFPDSLTYNMIFECLIK----NKKVHEVENFFHEMIKNE  166 (274)
Q Consensus       119 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~  166 (274)
                      +|.+.|++..+.|   +...+..|...|..    .+++++|...|++..+.|
T Consensus        79 ~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           79 KAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            6666666665542   44455555555555    555666666666555544

>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=98.36  E-value=7.9e-06  Score=56.34  Aligned_cols=28  Identities=14%  Similarity=-0.104  Sum_probs=19.7

Q ss_pred             hHHHHHHHHHhccCcHHHHHHHHHHHhc
Q 048737           30 LAYETFLITLIRGKQVDEALKFLRVMKG   57 (274)
Q Consensus        30 ~~~~~li~~~~~~~~~~~a~~~~~~~~~   57 (274)
                      ..+......+.+.|++++|+..|++.++
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~   39 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAME   39 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            3455566677777777777777777766

>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=98.34  E-value=1.5e-06  Score=59.78  Aligned_cols=87  Identities=9%  Similarity=-0.049  Sum_probs=61.7

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcH----------HHHHHHHHHHhcCCCCCCHHHHHHHHH
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQV----------DEALKFLRVMKGENCFPTLKFFSNALD   72 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~   72 (274)
                      .+.+.+++|.+.++...+.   .|.++..|..+..++...+++          ++|+..|++.++.+ +-+..+|..+..
T Consensus        13 ~r~~~feeA~~~~~~Ai~l---~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~   88 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKS---NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGN   88 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHH
Confidence            3567889999999988776   888899999888888888765          47777777766642 224556666666


Q ss_pred             HHHhCC-----------ChhhHHHHHHHHHhc
Q 048737           73 ILVKLN-----------DSTHTVQLWDIMVGI   93 (274)
Q Consensus        73 ~~~~~~-----------~~~~a~~~~~~~~~~   93 (274)
                      +|...|           ++++|.+.|+++++.
T Consensus        89 ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           89 AYTSFAFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcccCcchhhhhccHHHHHHHHHHHHHh
Confidence            666553           566666666666663

>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=98.31  E-value=6.1e-05  Score=63.63  Aligned_cols=177  Identities=8%  Similarity=-0.017  Sum_probs=136.1

Q ss_pred             ccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCC----------hhhHHHHHHHHHhcCCccCccHHhHHHHHHH
Q 048737           41 RGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLND----------STHTVQLWDIMVGIGFNLMPNLIMYNAVVGL  110 (274)
Q Consensus        41 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~  110 (274)
                      .....++|++.++++...+ +-+...|+.--.++...++          ++++.+.++.+.+..   +-+..+|+.-..+
T Consensus        41 ~~~~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~---pK~y~aW~hR~w~  116 (567)
T 1dce_A           41 AGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN---PKSYGTWHHRCWL  116 (567)
T ss_dssp             TTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC---TTCHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC---CCCHHHHHHHHHH
Confidence            3445578899999998853 3346677766666666666          899999999999976   6788899998888


Q ss_pred             HHhcC--ChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC-CHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc---
Q 048737          111 LCNNN--DVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNK-KVHEVENFFHEMIKNEWQPTPLNCATAITMLLDA---  184 (274)
Q Consensus       111 ~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---  184 (274)
                      +.+.+  +++++++.++++.+...+ |..+|+.-...+.+.| .++++++.++++++.. +-|...|+.....+.+.   
T Consensus       117 l~~l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~  194 (567)
T 1dce_A          117 LSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQ  194 (567)
T ss_dssp             HHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCC
T ss_pred             HHHcccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccc
Confidence            99999  669999999999987543 7888988888888888 8999999999998754 34567777776666653   


Q ss_pred             -----------CChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcch
Q 048737          185 -----------DEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSD  224 (274)
Q Consensus       185 -----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  224 (274)
                                 +.++++.+.+.+...... -+...|+-+-..+.+.++.++
T Consensus       195 ~~~~~~~~~~~~~~~eel~~~~~ai~~~P-~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          195 PDSGPQGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CCSSSCCSSCHHHHHHHHHHHHHHHHHCS-SCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccccccHHHHHHHHHHHHHHHhhCC-CCccHHHHHHHHHhcCCCccc
Confidence                       456888888888887653 456777777777777666443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.29  E-value=4.7e-06  Score=54.48  Aligned_cols=81  Identities=17%  Similarity=0.119  Sum_probs=60.6

Q ss_pred             HHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHH
Q 048737            9 VEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWD   88 (274)
Q Consensus         9 ~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   88 (274)
                      ++|++.|++..+.   .|.+...|..+...+...|++++|+..|++..+.. +.+...+..+..++...|++++|...|+
T Consensus         2 ~~a~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~   77 (115)
T 2kat_A            2 QAITERLEAMLAQ---GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWE   77 (115)
T ss_dssp             CCHHHHHHHHHTT---TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            3566777777554   67777788888888888888888888888877643 3456677777788888888888888888


Q ss_pred             HHHhc
Q 048737           89 IMVGI   93 (274)
Q Consensus        89 ~~~~~   93 (274)
                      +..+.
T Consensus        78 ~al~~   82 (115)
T 2kat_A           78 SGLAA   82 (115)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            77764

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.29  E-value=1.5e-05  Score=65.92  Aligned_cols=127  Identities=7%  Similarity=-0.087  Sum_probs=96.8

Q ss_pred             HHhCCChhhHHHHHHHHHhc-----CCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc-----C-CCCC-hhhHHH
Q 048737           74 LVKLNDSTHTVQLWDIMVGI-----GFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH-----G-AFPD-SLTYNM  141 (274)
Q Consensus        74 ~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~-~~~~~~  141 (274)
                      +...|++++|+.++++..+.     |.+.+....+++.|..+|...|++++|..++++.++.     | -.|+ ..+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            34678999999999888753     2212234678999999999999999999999887542     2 2233 567899


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHHh-----CCC-CCC-cchHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 048737          142 IFECLIKNKKVHEVENFFHEMIK-----NEW-QPT-PLNCATAITMLLDADEPEFAIEIWNYILEN  200 (274)
Q Consensus       142 li~~~~~~~~~~~a~~~~~~~~~-----~~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  200 (274)
                      |...|...|++++|+.++++..+     .|- .|+ ..+.+.+-.++...+.++.|+.++.++++.
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999998764     231 222 234566777888899999999999999873

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.28  E-value=1.3e-06  Score=56.60  Aligned_cols=94  Identities=13%  Similarity=-0.019  Sum_probs=60.3

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCcc------H
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPN------L  101 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~  101 (274)
                      +...|..+...+...|++++|++.|++..+.. +.+...+..+..++...|++++|...+++..+..   +.+      .
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~~   78 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT---STAEHVAIRS   78 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC---SSTTSHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC---CCccHHHHHH
Confidence            45567777777777777777777777776642 3456667777777777777777777777777654   222      4


Q ss_pred             HhHHHHHHHHHhcCChhhHHHHHH
Q 048737          102 IMYNAVVGLLCNNNDVDNVFRFFD  125 (274)
Q Consensus       102 ~~~~~l~~~~~~~~~~~~a~~~~~  125 (274)
                      ..+..+..++...|+.+.|...++
T Consensus        79 ~~~~~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           79 KLQYRLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHHHHHhHhhhHhHHH
Confidence            445555555555555555544443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.27  E-value=1.4e-05  Score=49.42  Aligned_cols=82  Identities=10%  Similarity=0.045  Sum_probs=48.8

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      +...|..+...+...|++++|+..|++..+.. +.+...+..+..++...|++++|...+++..+..   +.+...+..+
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~---p~~~~~~~~l   83 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD---PNNAEAKQNL   83 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC---CCCHHHHHHH
Confidence            44556666666666777777777776666532 3345556666666666666666666666666643   3344455555


Q ss_pred             HHHHHh
Q 048737          108 VGLLCN  113 (274)
Q Consensus       108 ~~~~~~  113 (274)
                      ..++.+
T Consensus        84 ~~~~~~   89 (91)
T 1na3_A           84 GNAKQK   89 (91)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            444443

>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=98.26  E-value=2.1e-05  Score=54.22  Aligned_cols=95  Identities=8%  Similarity=-0.012  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCcc-------------HHhHHHHHHHHHhcCChhhHHHHHHHHHhc--
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPN-------------LIMYNAVVGLLCNNNDVDNVFRFFDQMVFH--  130 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--  130 (274)
                      .+......+.+.|++++|...|++.++..    |+             ...|+.+..++.+.|++++|+..+++.++.  
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~----p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n   88 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEIS----HTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   88 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHH----TTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhC----CCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhh
Confidence            34556667778888888888888888754    32             226666667777777777777777666653  


Q ss_pred             ---CCCCC-hhhH----HHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737          131 ---GAFPD-SLTY----NMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       131 ---~~~~~-~~~~----~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                         .+.|+ ...|    .....++...|++++|+..|++.++
T Consensus        89 ~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           89 RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence               01333 4455    5666666666666666666666554

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.19  E-value=1e-05  Score=52.11  Aligned_cols=64  Identities=13%  Similarity=0.065  Sum_probs=41.7

Q ss_pred             HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737           64 LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus        64 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      ...+..+...+...|++++|...|++..+..   +.+...+..+..++.+.|++++|...+++..+.
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQ---PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC---CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            4455566666666777777777777766654   445666666666677777777777777666654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.15  E-value=3.4e-05  Score=50.25  Aligned_cols=77  Identities=8%  Similarity=0.117  Sum_probs=33.6

Q ss_pred             HHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737           83 TVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      |...|++..+..   +.+...+..+..+|...|++++|...|++..+... .+...|..+..+|...|++++|...|++.
T Consensus         4 a~~~~~~al~~~---p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            4 ITERLEAMLAQG---TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDP-TYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             HHHHHHHHHTTT---CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC---CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            344444444432   23344444444444444444444444444444321 12334444444444444444444444444


Q ss_pred             H
Q 048737          163 I  163 (274)
Q Consensus       163 ~  163 (274)
                      .
T Consensus        80 l   80 (115)
T 2kat_A           80 L   80 (115)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.08  E-value=1.6e-05  Score=50.56  Aligned_cols=68  Identities=7%  Similarity=0.172  Sum_probs=49.1

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhc
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGI   93 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   93 (274)
                      .|+++.+|..+...+...|++++|+..|++..+.. +.+...|..+..++...|++++|...|++..+.
T Consensus         3 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            3 DPEDPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             --CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            46677777778888888888888888888777653 334667777777777888888888877777653

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.07  E-value=6.6e-05  Score=46.27  Aligned_cols=61  Identities=10%  Similarity=0.179  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHh
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                      .+..+...+...|++++|...|++..+..   +.+..++..+..++.+.|++++|...|++..+
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD---PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC---CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            34444445555555555555555555433   23344444555555555555555555555444

>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=98.04  E-value=2e-05  Score=54.18  Aligned_cols=92  Identities=10%  Similarity=-0.002  Sum_probs=45.8

Q ss_pred             CChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCCh----------hhHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 048737           78 NDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDV----------DNVFRFFDQMVFHGAFPDSLTYNMIFECLI  147 (274)
Q Consensus        78 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  147 (274)
                      +.+++|.+.+++..+..   +.+...|+.+..++...+++          ++|+..|++.++... -+..+|..+..+|.
T Consensus        16 ~~feeA~~~~~~Ai~l~---P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP-~~~~A~~~LG~ay~   91 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKSN---PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP-KKDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHH
Confidence            34455555555555543   33445555555555544443          355555555555321 13445555555555


Q ss_pred             hc-----------CCHhHHHHHHHHHHhCCCCCCcchHH
Q 048737          148 KN-----------KKVHEVENFFHEMIKNEWQPTPLNCA  175 (274)
Q Consensus       148 ~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~  175 (274)
                      ..           |++++|+..|++.++  +.|+...|.
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~  128 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYL  128 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHH
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHH
Confidence            44           356666666666655  345544443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.95  E-value=6e-05  Score=47.79  Aligned_cols=64  Identities=11%  Similarity=0.055  Sum_probs=42.0

Q ss_pred             CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHh
Q 048737           63 TLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus        63 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                      +...+..+..++...|++++|...|+++++..   +.+...|..+..+|...|++++|.+.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~---p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD---PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45566666666667777777777777776654   34455666666777777777777777666554

>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=97.80  E-value=0.00077  Score=53.06  Aligned_cols=64  Identities=14%  Similarity=-0.019  Sum_probs=35.4

Q ss_pred             ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 048737          135 DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILEN  200 (274)
Q Consensus       135 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  200 (274)
                      +..+|..+...+...|++++|...++++...+  |+...|..+...+...|++++|.+.+++....
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            44555555444444566666666666655543  45445555555555566666666666555553

>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=97.78  E-value=0.00067  Score=53.38  Aligned_cols=74  Identities=9%  Similarity=0.031  Sum_probs=53.9

Q ss_pred             CccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHH
Q 048737           98 MPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCA  175 (274)
Q Consensus        98 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  175 (274)
                      +.+..+|..+...+...|++++|...+++....+  |+...|..+...+...|++++|.+.|++....  .|...+|.
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~  347 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLY  347 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHH
Confidence            5566777777766666788888888888887754  67777777777778888888888888877763  46655543

>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=97.64  E-value=0.00047  Score=56.07  Aligned_cols=61  Identities=7%  Similarity=0.034  Sum_probs=27.2

Q ss_pred             HhHHHHHHHHHhcCChhhHHHHHHHHHhc-----C-CCCC-hhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737          102 IMYNAVVGLLCNNNDVDNVFRFFDQMVFH-----G-AFPD-SLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus       102 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      .+++.|..+|...|++++|+.++++.++.     | -.|+ ..+++.|...|...|++++|+.++++.
T Consensus       341 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~A  408 (433)
T 3qww_A          341 HMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKA  408 (433)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            34444445555555555554444443321     1 1111 234444555555555555555555444

>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=97.62  E-value=0.00019  Score=58.39  Aligned_cols=87  Identities=9%  Similarity=0.066  Sum_probs=65.0

Q ss_pred             CcHHHHHHHHHHHhc---CCCCCC----HHHHHHHHHHHHhCCChhhHHHHHHHHHh-----cCCccCccHHhHHHHHHH
Q 048737           43 KQVDEALKFLRVMKG---ENCFPT----LKFFSNALDILVKLNDSTHTVQLWDIMVG-----IGFNLMPNLIMYNAVVGL  110 (274)
Q Consensus        43 ~~~~~a~~~~~~~~~---~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~~~l~~~  110 (274)
                      |++++|+.++++..+   .-+.|+    ..+++.|..+|...|++++|+.++++.++     .|.+.+....+++.|...
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            578888888877654   223333    35778888889999999999988888764     343334446678899999


Q ss_pred             HHhcCChhhHHHHHHHHHh
Q 048737          111 LCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~  129 (274)
                      |...|++++|+.++++..+
T Consensus       392 ~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHH
Confidence            9999999999999888754

>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=97.56  E-value=0.0013  Score=53.49  Aligned_cols=93  Identities=4%  Similarity=-0.025  Sum_probs=52.3

Q ss_pred             HHHHHhCCChhhHHHHHHHHHhc-----CCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc-----C-CCCC-hhh
Q 048737           71 LDILVKLNDSTHTVQLWDIMVGI-----GFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH-----G-AFPD-SLT  138 (274)
Q Consensus        71 ~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~-~~~  138 (274)
                      +..+.+.|++++|+.++++..+.     |.+.+....+++.+..+|...|++++|+.++++.++.     | -.|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            33344556666666666666542     1111122455666666666667777766666655421     1 1222 345


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737          139 YNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      ++.|...|...|++++|+.++++..
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            6666666777777777766666654

>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=97.54  E-value=0.016  Score=44.02  Aligned_cols=92  Identities=12%  Similarity=0.105  Sum_probs=66.0

Q ss_pred             hhhHHHHHHHHHhcCCCCC---hhhHHHHHHHHHhc-----CCHhHHHHHHHHHHhCCCCC--CcchHHHHHHHHHhc-C
Q 048737          117 VDNVFRFFDQMVFHGAFPD---SLTYNMIFECLIKN-----KKVHEVENFFHEMIKNEWQP--TPLNCATAITMLLDA-D  185 (274)
Q Consensus       117 ~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~-----~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~-~  185 (274)
                      ...|...+++..+.  .|+   ...|..+...|...     |+.++|.+.|++.++.  .|  +..++....+.++.. |
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~L--nP~~~id~~v~YA~~l~~~~g  254 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRY--CSAHDPDHHITYADALCIPLN  254 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHH--CCTTCSHHHHHHHHHTTTTTT
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHh--CCCCCchHHHHHHHHHHHhcC
Confidence            45667777777764  455   55788888888884     8888888888888874  45  366777777777774 8


Q ss_pred             ChHHHHHHHHHHHHCCCC--ccHHHHHHH
Q 048737          186 EPEFAIEIWNYILENGIL--PLEASANVL  212 (274)
Q Consensus       186 ~~~~a~~~~~~~~~~~~~--~~~~~~~~l  212 (274)
                      +.+.+.+.+++.......  |+....+.+
T Consensus       255 d~~~a~~~L~kAL~a~p~~~P~~~lan~~  283 (301)
T 3u64_A          255 NRAGFDEALDRALAIDPESVPHNKLLVIL  283 (301)
T ss_dssp             CHHHHHHHHHHHHHCCGGGCSSCHHHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCCCChhHHHHH
Confidence            888888888888886655  554444433

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.47  E-value=0.001  Score=58.64  Aligned_cols=46  Identities=2%  Similarity=0.031  Sum_probs=25.9

Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737          111 LCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      ....|+++.|.++.+.+      .+...|..+...+.+.++++.|++.|.++
T Consensus       662 ~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            34456666666554332      24556666666666666666666666554

>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=97.45  E-value=0.0018  Score=52.71  Aligned_cols=92  Identities=8%  Similarity=0.017  Sum_probs=71.6

Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcC---CCCC----hhhHHHHHHHHHhcCCHhHHHHHHHHHHhC-----C-CCCC-cch
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHG---AFPD----SLTYNMIFECLIKNKKVHEVENFFHEMIKN-----E-WQPT-PLN  173 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~---~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~-~~~  173 (274)
                      +.-+.+.|++++|+.++++.++..   ..|+    ..+++.+...|...|++++|+.++++.+..     | ..|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            444667789999999999887531   2233    467899999999999999999999987642     2 1232 357


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHH
Q 048737          174 CATAITMLLDADEPEFAIEIWNYILE  199 (274)
Q Consensus       174 ~~~l~~~~~~~~~~~~a~~~~~~~~~  199 (274)
                      ++.|...|...|++++|..++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            88999999999999999999988764

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.43  E-value=0.0027  Score=39.45  Aligned_cols=65  Identities=11%  Similarity=-0.033  Sum_probs=28.5

Q ss_pred             hHhHHHHHHHHHhccCc---HHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhc
Q 048737           28 HVLAYETFLITLIRGKQ---VDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGI   93 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   93 (274)
                      ++..+..+..++...++   .++|..++++..+.. +-+......+...+.+.|++++|...|+++.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            44444444444432222   344445554444432 223344444444444445555555555544443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.40  E-value=0.00052  Score=42.97  Aligned_cols=54  Identities=9%  Similarity=0.054  Sum_probs=25.1

Q ss_pred             HHHhCCChhhHHHHHHHHHhcCCccCccHH-hHHHHHHHHHhcCChhhHHHHHHHHHh
Q 048737           73 ILVKLNDSTHTVQLWDIMVGIGFNLMPNLI-MYNAVVGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus        73 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                      .+...|++++|...|+++.+..   +.+.. .+..+..+|...|++++|...|++..+
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQTE---PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC---SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC---CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3344444555555555444432   22333 444444445555555555555554444

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.35  E-value=0.00095  Score=41.74  Aligned_cols=53  Identities=15%  Similarity=0.103  Sum_probs=32.4

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHh-HHHHHHHHHhccCcHHHHHHHHHHHhcC
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVL-AYETFLITLIRGKQVDEALKFLRVMKGE   58 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~   58 (274)
                      .+.|++++|++.|++..+.   .|.+.. .|..+..++...|++++|++.|++..+.
T Consensus        11 ~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A           11 INQGDIENALQALEEFLQT---EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHTCHHHHHHHHHHHHHH---CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3456666666666666554   555555 6666666666666666666666666553

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.33  E-value=0.006  Score=37.86  Aligned_cols=66  Identities=8%  Similarity=-0.026  Sum_probs=36.6

Q ss_pred             CCHHHHHHHHHHHHhCCC---hhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737           62 PTLKFFSNALDILVKLND---STHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus        62 ~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      .++..+..+..++...++   .++|..++++..+..   +.+......+...+.+.|++++|+..|+++.+.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d---p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE---PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC---cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            344555555555543333   456666666666654   444555555556666666666666666666554

>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=97.25  E-value=0.0056  Score=41.23  Aligned_cols=105  Identities=8%  Similarity=0.025  Sum_probs=60.3

Q ss_pred             CCchHhHHHHHHHHHhccCcH------HHHHHHHHHHhcCCCCCCHH-HHHHHHH------HHHhCCChhhHHHHHHHHH
Q 048737           25 NPEHVLAYETFLITLIRGKQV------DEALKFLRVMKGENCFPTLK-FFSNALD------ILVKLNDSTHTVQLWDIMV   91 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~-~~~~l~~------~~~~~~~~~~a~~~~~~~~   91 (274)
                      .|.|..+|-..+...-+.|++      ++..++|++.... ++|+.. .+..-+.      .+...++++.|.++|+.++
T Consensus         9 ~p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~   87 (161)
T 4h7y_A            9 MANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMAR   87 (161)
T ss_dssp             -CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            466777888888877777887      7777888877764 555421 0111110      1122356666666666665


Q ss_pred             hcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCC
Q 048737           92 GIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAF  133 (274)
Q Consensus        92 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  133 (274)
                      +..  -.- .-+|-.....-.+.|+...|.+++.+....+.+
T Consensus        88 ~~h--KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           88 ANC--KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HHC--TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             HHh--HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            543  111 555555555556666666666666666655444

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.23  E-value=0.0047  Score=42.00  Aligned_cols=81  Identities=6%  Similarity=0.006  Sum_probs=49.3

Q ss_pred             hhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcC---ChhhHHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCCHhH
Q 048737           80 STHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNN---DVDNVFRFFDQMVFHGAFP--DSLTYNMIFECLIKNKKVHE  154 (274)
Q Consensus        80 ~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~  154 (274)
                      +..+++-|.+..+.+   +++..+...+..++++.+   +.++++.+|+...+.. .|  +...+-.+.-+|.+.|++++
T Consensus        14 l~~~~~~y~~e~~~~---~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAG---SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHTT---CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHccC---CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHH
Confidence            344555555555555   456666666666777766   4556777777766653 13  23444455555667777777


Q ss_pred             HHHHHHHHHh
Q 048737          155 VENFFHEMIK  164 (274)
Q Consensus       155 a~~~~~~~~~  164 (274)
                      |.+.++.+++
T Consensus        90 A~~y~~~lL~   99 (152)
T 1pc2_A           90 ALKYVRGLLQ   99 (152)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            7777777766

>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=97.14  E-value=0.0088  Score=45.35  Aligned_cols=96  Identities=9%  Similarity=0.062  Sum_probs=61.0

Q ss_pred             ccCcHHHHHHHHHHHhcCCCCCC---HHHHHHHHHHHHhC-----CChhhHHHHHHHHHhcCCccCc--cHHhHHHHHHH
Q 048737           41 RGKQVDEALKFLRVMKGENCFPT---LKFFSNALDILVKL-----NDSTHTVQLWDIMVGIGFNLMP--NLIMYNAVVGL  110 (274)
Q Consensus        41 ~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~--~~~~~~~l~~~  110 (274)
                      ..+....|...+++..+.  .|+   ...|..+...|...     |+.++|++.|++.++.+    |  +..++......
T Consensus       175 Al~~l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~Ln----P~~~id~~v~YA~~  248 (301)
T 3u64_A          175 LPDTVHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYC----SAHDPDHHITYADA  248 (301)
T ss_dssp             CHHHHHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHC----CTTCSHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhC----CCCCchHHHHHHHH
Confidence            334556666777776663  344   45666777777663     77777777777777754    4  25666666676


Q ss_pred             HHhc-CChhhHHHHHHHHHhcCCC--CChhhHHHH
Q 048737          111 LCNN-NDVDNVFRFFDQMVFHGAF--PDSLTYNMI  142 (274)
Q Consensus       111 ~~~~-~~~~~a~~~~~~~~~~~~~--~~~~~~~~l  142 (274)
                      +++. |+.+.+.+.+++.......  |+....+.+
T Consensus       249 l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~~  283 (301)
T 3u64_A          249 LCIPLNNRAGFDEALDRALAIDPESVPHNKLLVIL  283 (301)
T ss_dssp             TTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHHH
Confidence            7663 7777777777777776554  554444443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.09  E-value=0.014  Score=51.42  Aligned_cols=129  Identities=10%  Similarity=0.013  Sum_probs=86.6

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHH
Q 048737           33 ETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLC  112 (274)
Q Consensus        33 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  112 (274)
                      ..++..+.+.|.+++|+++.+         ++   ..-.......|+++.|.++.+.        ..+...|..+...+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~---------~~---~~~f~~~l~~~~~~~A~~~~~~--------~~~~~~W~~la~~al  692 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISP---------DQ---DQKFELALKVGQLTLARDLLTD--------ESAEMKWRALGDASL  692 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCC---------CH---HHHHHHHHHHTCHHHHHHHHTT--------CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCChHHheecCC---------Cc---chheehhhhcCCHHHHHHHHHh--------hCcHhHHHHHHHHHH
Confidence            667777777777777776552         11   1123445677888888887532        246789999999999


Q ss_pred             hcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHH
Q 048737          113 NNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIE  192 (274)
Q Consensus       113 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  192 (274)
                      +.++++.|.+.|.++.+         |..+...|...|+.+...++-+.....|      -++....+|.+.|++++|.+
T Consensus       693 ~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~------~~~~A~~~~~~~g~~~~a~~  757 (814)
T 3mkq_A          693 QRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG------KFNLAFNAYWIAGDIQGAKD  757 (814)
T ss_dssp             HTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC------chHHHHHHHHHcCCHHHHHH
Confidence            99999999999998754         4455566666787777666655555443      23444445555666666666


Q ss_pred             HHHH
Q 048737          193 IWNY  196 (274)
Q Consensus       193 ~~~~  196 (274)
                      ++.+
T Consensus       758 ~~~~  761 (814)
T 3mkq_A          758 LLIK  761 (814)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=97.03  E-value=0.042  Score=38.35  Aligned_cols=98  Identities=9%  Similarity=0.136  Sum_probs=49.4

Q ss_pred             HhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChh
Q 048737           39 LIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVD  118 (274)
Q Consensus        39 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  118 (274)
                      ..+.|+++.|.++.+.+      -+...|..|.......|+++-|++.|.+...           +..+.-.|.-.|+.+
T Consensus        15 AL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D-----------~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS-----------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC-----------HHHHHHHHHHHTCHH
T ss_pred             HHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC-----------HHHHHHHHHHhCCHH
Confidence            34556666666665544      2455566666666666666666666655432           222333344445554


Q ss_pred             hHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHH
Q 048737          119 NVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFF  159 (274)
Q Consensus       119 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  159 (274)
                      +-.++-+.....|      -++.....+...|+++++.++|
T Consensus        78 ~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL  112 (177)
T 3mkq_B           78 KLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIF  112 (177)
T ss_dssp             HHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHH
Confidence            4444433333222      2444444555556666665555

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.96  E-value=0.0073  Score=38.29  Aligned_cols=66  Identities=3%  Similarity=-0.074  Sum_probs=43.6

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCC------CCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcC
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGEN------CFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIG   94 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   94 (274)
                      +.-+..|...+.+.++++.|...|+...+.-      -.+....+..|..++.+.|+++.|...++++.+..
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            3445567777778888888888877765521      12345566667777777777777777777776643

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.95  E-value=0.012  Score=39.96  Aligned_cols=84  Identities=8%  Similarity=0.072  Sum_probs=51.6

Q ss_pred             cchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccC---cHHHHHHHHHHHhcCCCCC--CHHHHHHHHHHHHhCCCh
Q 048737            6 GNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGK---QVDEALKFLRVMKGENCFP--TLKFFSNALDILVKLNDS   80 (274)
Q Consensus         6 g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~   80 (274)
                      ..+..+++-|.+.... +  |.+..+...+.-++++.+   +.++++.+|++..+.+ .|  +...+-.|.-++.+.|++
T Consensus        12 ~~l~~~~~~y~~e~~~-~--~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y   87 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKAA-G--SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEY   87 (152)
T ss_dssp             HHHHHHHHHHHHHHHT-T--CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCH
T ss_pred             HHHHHHHHHHHHHHcc-C--CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCH
Confidence            3455666666655543 2  225566666777777766   5557777777776643 23  234445555566777777


Q ss_pred             hhHHHHHHHHHhc
Q 048737           81 THTVQLWDIMVGI   93 (274)
Q Consensus        81 ~~a~~~~~~~~~~   93 (274)
                      ++|.+.++.+.+.
T Consensus        88 ~~A~~y~~~lL~i  100 (152)
T 1pc2_A           88 EKALKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc
Confidence            7777777777764

>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=96.92  E-value=0.022  Score=38.41  Aligned_cols=107  Identities=14%  Similarity=0.122  Sum_probs=62.2

Q ss_pred             CccHHhHHHHHHHHHhcCCh------hhHHHHHHHHHhcCCCCChh-hHHHHHH------HHHhcCCHhHHHHHHHHHHh
Q 048737           98 MPNLIMYNAVVGLLCNNNDV------DNVFRFFDQMVFHGAFPDSL-TYNMIFE------CLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus        98 ~~~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~-~~~~li~------~~~~~~~~~~a~~~~~~~~~  164 (274)
                      +.|..+|-..+...-+.|++      ++..++|++.... ++|+.. .|...+.      .+...+++++|.++|..+++
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~   88 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARA   88 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            34556666666666666666      6666677666554 444421 1111110      11233677778888877766


Q ss_pred             CCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccH
Q 048737          165 NEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLE  206 (274)
Q Consensus       165 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  206 (274)
                      .+-.. ...|....+--.+.|++..|..++.+....+.+|..
T Consensus        89 ~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~  129 (161)
T 4h7y_A           89 NCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLE  129 (161)
T ss_dssp             HCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHH
T ss_pred             HhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHH
Confidence            42222 445555555556778888888888887777665543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.88  E-value=0.01  Score=37.60  Aligned_cols=67  Identities=9%  Similarity=-0.001  Sum_probs=37.7

Q ss_pred             CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCC----ccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHh
Q 048737           63 TLKFFSNALDILVKLNDSTHTVQLWDIMVGIGF----NLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus        63 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                      +..-+..|...+.+.++++.|...|+.+.+...    .-.+...++..+..++.+.|+++.|...+++..+
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            344455566666666666666666666654310    0023345556666666666666666666666555

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.81  E-value=0.067  Score=37.34  Aligned_cols=131  Identities=9%  Similarity=0.126  Sum_probs=89.6

Q ss_pred             HHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 048737           70 ALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKN  149 (274)
Q Consensus        70 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  149 (274)
                      -.......|+++.|.++.+.+        .+...|..|.+...+.|+++-|.+.|.+..+         +..+.-.|.-.
T Consensus        11 rF~LAL~lg~l~~A~e~a~~l--------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~t   73 (177)
T 3mkq_B           11 RFDLALEYGNLDAALDEAKKL--------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVT   73 (177)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH--------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHh--------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHh
Confidence            345566889999998887655        2567899999999999999999999988753         44555566777


Q ss_pred             CCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHH
Q 048737          150 KKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFA  229 (274)
Q Consensus       150 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  229 (274)
                      |+.++..++-+.....|      -++.....+...|+++++.++|.+   .|-.|...      ......|..+.|.++.
T Consensus        74 g~~e~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~---~~r~~eA~------~~A~t~g~~~~a~~~~  138 (177)
T 3mkq_B           74 GDVNKLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAE---GGSLPLAY------AVAKANGDEAAASAFL  138 (177)
T ss_dssp             TCHHHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHH---TTCHHHHH------HHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHH---CCChHHHH------HHHHHcCcHHHHHHHH
Confidence            88877666665555544      345566667778999999888743   33322211      1122356677777777


Q ss_pred             HHH
Q 048737          230 EEM  232 (274)
Q Consensus       230 ~~m  232 (274)
                      +++
T Consensus       139 ~~~  141 (177)
T 3mkq_B          139 EQA  141 (177)
T ss_dssp             HHT
T ss_pred             HHh
Confidence            665

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.57  E-value=0.021  Score=37.44  Aligned_cols=83  Identities=7%  Similarity=-0.001  Sum_probs=50.4

Q ss_pred             CChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhh---HHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCCH
Q 048737           78 NDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDN---VFRFFDQMVFHGAFP--DSLTYNMIFECLIKNKKV  152 (274)
Q Consensus        78 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~~~~  152 (274)
                      ..+..+++-|......|   .++..+-..+..++++..+...   ++.+++.+.+.+ .|  .....-.+.-++.+.|++
T Consensus        15 ~~l~~~~~~y~~e~~~~---~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y   90 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAG---SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEY   90 (126)
T ss_dssp             HHHHHHHHHHHHHHHHS---CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHhccC---CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhH
Confidence            34455556666555555   4666666666667777666555   667777766653 12  233334455566777777


Q ss_pred             hHHHHHHHHHHh
Q 048737          153 HEVENFFHEMIK  164 (274)
Q Consensus       153 ~~a~~~~~~~~~  164 (274)
                      ++|.+.++.+++
T Consensus        91 ~~A~~~~~~lL~  102 (126)
T 1nzn_A           91 EKALKYVRGLLQ  102 (126)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            777777777766

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.64  E-value=0.27  Score=32.65  Aligned_cols=67  Identities=10%  Similarity=0.003  Sum_probs=46.2

Q ss_pred             cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCC
Q 048737          100 NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEW  167 (274)
Q Consensus       100 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  167 (274)
                      +....+..++.....|+.+.-.+++..+... .+|++.....+..+|.+.|+..++.+++.+.-+.|+
T Consensus        90 ~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           90 LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            4455666677777777777777777775332 456777777777777777777777777777777664

>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=0.25  Score=32.29  Aligned_cols=65  Identities=6%  Similarity=-0.044  Sum_probs=28.1

Q ss_pred             CCHHHHHHHHHHHHhCCChhh---HHHHHHHHHhcCCccCc--cHHhHHHHHHHHHhcCChhhHHHHHHHHHh
Q 048737           62 PTLKFFSNALDILVKLNDSTH---TVQLWDIMVGIGFNLMP--NLIMYNAVVGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus        62 ~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                      |+..+--.+.-++++..+...   +..+++.+.+.+   .|  .....-.|.-++.+.|++++|.+.++.+++
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~---~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG---SKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS---CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC---CcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            344443444444444443333   444444444432   12  122223333445555555555555555554

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=95.07  E-value=0.00012  Score=59.30  Aligned_cols=205  Identities=9%  Similarity=0.037  Sum_probs=131.3

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      .+..|..|..+..+.+++.+|++-|-   +.   -|+..|..++....+.|.++.-.+++...++..    .++.+=+.|
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyI---kA---~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~----ke~~IDteL  122 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYI---KA---DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA----RESYVETEL  122 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSC---CC---SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC----CSTTTTHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHH---hC---CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh----cccccHHHH
Confidence            45678888888888888888876662   21   256667888888888888888888887776643    444566788


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh-------------------C-CC
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK-------------------N-EW  167 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-------------------~-~~  167 (274)
                      +-+|++.++..+-.+++       -.||..-...+..-|...|.++.|.-+|..+..                   . .-
T Consensus       123 i~ayAk~~rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArK  195 (624)
T 3lvg_A          123 IFALAKTNRLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARK  195 (624)
T ss_dssp             HHHHHTSCSSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTT
T ss_pred             HHHHHhhCcHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHh
Confidence            88888888876644433       135666666667777777777666655543311                   1 11


Q ss_pred             CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHH
Q 048737          168 QPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKL  247 (274)
Q Consensus       168 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  247 (274)
                      ..++.||-.+-.+|...+.+.-|.-.--.+.-.     ..-...++..|-..|.+++.+.+++.-... -.....+|+-|
T Consensus       196 Ans~ktWKeV~~ACvd~~EfrLAqicGLniIvh-----adeL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTEL  269 (624)
T 3lvg_A          196 ANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH-----ADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTEL  269 (624)
T ss_dssp             CCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC-----SSCCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHH
T ss_pred             cCChhHHHHHHHHHhCchHHHHHHHhcchhccc-----HHHHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHH
Confidence            346678888888888888877665543333321     112233555667777777777777765532 13345566666


Q ss_pred             HHHHHhcC
Q 048737          248 KKAFYNES  255 (274)
Q Consensus       248 ~~~~~~~g  255 (274)
                      .-.|++-.
T Consensus       270 aILYsKY~  277 (624)
T 3lvg_A          270 AILYSKFK  277 (624)
T ss_dssp             HHHHHSSC
T ss_pred             HHHHHhcC
Confidence            66666544

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.06  E-value=0.25  Score=43.04  Aligned_cols=124  Identities=13%  Similarity=0.188  Sum_probs=78.2

Q ss_pred             HHHHHHHhccCc-HHHHHHHHHHHhcCCCCCCHHHH--HHHHHHHHhCCC-hhhHHHHHHHHHhc------CCccCc-c-
Q 048737           33 ETFLITLIRGKQ-VDEALKFLRVMKGENCFPTLKFF--SNALDILVKLND-STHTVQLWDIMVGI------GFNLMP-N-  100 (274)
Q Consensus        33 ~~li~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~-~~~a~~~~~~~~~~------~~~~~~-~-  100 (274)
                      ..++..+...++ .+.|+.+|+++....  |...++  ..++..+...++ --+|.++..+.++.      .  .++ + 
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~--l~~~~~  327 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLND--LPPRDA  327 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHT--CSSCCH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhh--hccccc
Confidence            345555556666 588999999998753  433332  233333333322 12344444444321      1  111 1 


Q ss_pred             ---------HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737          101 ---------LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP-DSLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus       101 ---------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                               ....+.=.+.+...|+++.|+++-++....  .| +-.+|..|..+|...|+++.|+-.+..+
T Consensus       328 ~~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          328 DSARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             ccccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence                     112222344566789999999999998875  34 4789999999999999999999988876

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.99  E-value=0.66  Score=40.48  Aligned_cols=117  Identities=9%  Similarity=0.134  Sum_probs=78.1

Q ss_pred             cc-hHHHHHHHHHHHhccCCCCchHhHHH-HHHHHHhccC-cHHHHHHHHHHHhcC------CCCCC-HH----------
Q 048737            6 GN-VVEANKTFGEMVERFEWNPEHVLAYE-TFLITLIRGK-QVDEALKFLRVMKGE------NCFPT-LK----------   65 (274)
Q Consensus         6 g~-~~~a~~~~~~~~~~~~~~p~~~~~~~-~li~~~~~~~-~~~~a~~~~~~~~~~------~~~~~-~~----------   65 (274)
                      |+ ++.|..+|+++..+   .|.....+. .++..+.+.+ +--+|.+++.+..+.      ..++. ..          
T Consensus       262 ~~~~~~a~~~le~L~~~---~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~  338 (754)
T 4gns_B          262 PSLVDFTIDYLKGLTKK---DPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLMNCMSD  338 (754)
T ss_dssp             GGGHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhh---CCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccccccCcchH
Confidence            44 57899999999887   663332222 3333333333 233566666555421      12221 11          


Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHH
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMV  128 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  128 (274)
                      .+..=...|...|+++.|+++-++.....   |.+-.+|..|..+|...|+++.|+-.+..+.
T Consensus       339 LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a---PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          339 LLNIQTNFLLNRGDYELALGVSNTSTELA---LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC---SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHhcC---chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            11122345678899999999999999874   6678999999999999999999999998873

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=94.89  E-value=2.3  Score=39.34  Aligned_cols=190  Identities=12%  Similarity=0.041  Sum_probs=113.8

Q ss_pred             HHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC---------------
Q 048737           70 ALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP---------------  134 (274)
Q Consensus        70 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------------  134 (274)
                      ++..+...+..+.+..+...       ++.+....-.+..+|...|++++|...|++... |+..               
T Consensus       818 l~~~l~~~~~~~~~~~l~~~-------~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~  889 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGW-------LNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIA  889 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHH-------SCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhh-------ccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhccccccc
Confidence            44455556666655543322       233444445667788899999999999977521 1111               


Q ss_pred             --------ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCc----chHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 048737          135 --------DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTP----LNCATAITMLLDADEPEFAIEIWNYILENGI  202 (274)
Q Consensus       135 --------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  202 (274)
                              -..=|.-++..+.+.+.++.+.++-...++....-+.    ..|..+.+.+...|++++|-..+..+.....
T Consensus       890 ~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~  969 (1139)
T 4fhn_B          890 EKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL  969 (1139)
T ss_dssp             HTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS
T ss_pred             ccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH
Confidence                    0122566777888888888888888777654211111    2577888999999999999888887776544


Q ss_pred             CccHHHHHHHHHHHHhcCCcc------------hHHHHHHHHHhC--CCccCHHHHHHHHHHHHhcChh---HHHHHHHH
Q 048737          203 LPLEASANVLLVGLRNLGRLS------------DVRRFAEEMLNR--RILIYDVTMQKLKKAFYNESRS---MRDRFDSL  265 (274)
Q Consensus       203 ~~~~~~~~~l~~~~~~~g~~~------------~a~~~~~~m~~~--~~~~~~~~~~~l~~~~~~~g~~---a~~~~~~~  265 (274)
                      +  ......|+...+..|..+            +..+++..-.+.  .+...+.-|..|-.-....|+.   |.-+++++
T Consensus       970 r--~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~ 1047 (1139)
T 4fhn_B          970 K--KSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKL 1047 (1139)
T ss_dssp             C--HHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             H--HHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHH
Confidence            3  345666666666555443            333444332211  1111122345555555566666   77777777


Q ss_pred             HHHh
Q 048737          266 ERRW  269 (274)
Q Consensus       266 ~~~~  269 (274)
                      .+-.
T Consensus      1048 ~RL~ 1051 (1139)
T 4fhn_B         1048 SRYI 1051 (1139)
T ss_dssp             HHHH
T ss_pred             HHhh
Confidence            6644

>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=94.88  E-value=0.17  Score=40.51  Aligned_cols=72  Identities=8%  Similarity=0.048  Sum_probs=48.6

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh-----CCCCCCcchHH
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK-----NEWQPTPLNCA  175 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  175 (274)
                      +...++..+...|++++|...+..+.... +.+...|..+|.++.+.|+..+|++.|+.+.+     .|+.|+..+-.
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            34455666777777777777777766542 34667777777777777777777777776643     37777665533

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.88  E-value=0.5  Score=31.39  Aligned_cols=141  Identities=15%  Similarity=0.055  Sum_probs=82.3

Q ss_pred             HHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHh
Q 048737           74 LVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVH  153 (274)
Q Consensus        74 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  153 (274)
                      ..-.|.+++..++..+.....     +..-+|-++--....-+-+-..++++..-+   ..|..          ..|+..
T Consensus        17 ~ildG~v~qGveii~k~~~ss-----ni~E~NW~ICNiiD~a~C~y~v~vLd~IGk---iFDis----------~C~NlK   78 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKSS-----TKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFDLD----------KCQNLK   78 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-----CHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSCGG----------GCSCTH
T ss_pred             HHHhhhHHHHHHHHHHHcCCC-----CccccceeeeecchhhchhHHHHHHHHHhh---hcCcH----------hhhcHH
Confidence            344566777777776666543     233333333333333333344444443322   22221          223333


Q ss_pred             HHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 048737          154 EVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEML  233 (274)
Q Consensus       154 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  233 (274)
                      .....+-.+     ..+...+...++.....|.-+.-.+++..+.. +.+|++...-.+..+|.+.|+..++.+++.+..
T Consensus        79 rVi~C~~~~-----n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC  152 (172)
T 1wy6_A           79 SVVECGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEAC  152 (172)
T ss_dssp             HHHHHHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHh-----cchHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence            333333222     13445566677777888888888888888654 345777788888888888888888888888888


Q ss_pred             hCCCc
Q 048737          234 NRRIL  238 (274)
Q Consensus       234 ~~~~~  238 (274)
                      ++|++
T Consensus       153 ~kG~k  157 (172)
T 1wy6_A          153 KKGEK  157 (172)
T ss_dssp             HTTCH
T ss_pred             HhhhH
Confidence            88865

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=94.84  E-value=1.8  Score=39.97  Aligned_cols=150  Identities=7%  Similarity=-0.093  Sum_probs=71.8

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC----hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHH
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD----SLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAI  178 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  178 (274)
                      -|..++..+.+.+.++.+.++-....+....-+    ...|..+...+...|++++|...+-.+.....+  ......|+
T Consensus       901 YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--~~cLr~LV  978 (1139)
T 4fhn_B          901 YYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK--KSCLLDFV  978 (1139)
T ss_dssp             HHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--HHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--HHHHHHHH
Confidence            355555666666666666655554443211111    124556666666666666666666555443221  22334444


Q ss_pred             HHHHhc------------CChHHHHHHHHHHHH-C-CCCccHHHHHHHHHHHHhcCCcchHHHH-HHHHHhCC----C--
Q 048737          179 TMLLDA------------DEPEFAIEIWNYILE-N-GILPLEASANVLLVGLRNLGRLSDVRRF-AEEMLNRR----I--  237 (274)
Q Consensus       179 ~~~~~~------------~~~~~a~~~~~~~~~-~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~-~~~m~~~~----~--  237 (274)
                      ...|..            |..+++.+++...-+ . .+...+.-|..|-.-+...|++.+|-.+ |+.+.+.+    .  
T Consensus       979 ~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~RL~~~~~~~~ 1058 (1139)
T 4fhn_B          979 NQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLSRYISTTELIG 1058 (1139)
T ss_dssp             HHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHCCCC
T ss_pred             HHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHHHhhhcccccc
Confidence            444433            334444454433221 1 1111112345455555777888877665 44433211    1  


Q ss_pred             ----ccCHHHHHHHHHHHHhc
Q 048737          238 ----LIYDVTMQKLKKAFYNE  254 (274)
Q Consensus       238 ----~~~~~~~~~l~~~~~~~  254 (274)
                          ..-...|..+|+++.-.
T Consensus      1059 ~~~~~~q~~~yL~~INaLslv 1079 (1139)
T 4fhn_B         1059 KKERTFIIEHYLIVLNTLELL 1079 (1139)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHS
T ss_pred             chhHHHHHHHHHHHHHHHhcC
Confidence                11235677777776643

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.73  E-value=1.4  Score=35.92  Aligned_cols=247  Identities=9%  Similarity=-0.006  Sum_probs=141.2

Q ss_pred             ccchHHHHHHHHHHHhccCC---CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhc-CCCCCCHHHHHHHHHHH----Hh
Q 048737            5 EGNVVEANKTFGEMVERFEW---NPEHVLAYETFLITLIRGKQVDEALKFLRVMKG-ENCFPTLKFFSNALDIL----VK   76 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~---~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~----~~   76 (274)
                      .|+++.|++.+..+.+....   .+........++..|...++|+...+.+..+.. +|..+  .....+++.+    ..
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 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLK--LSIQYMIQKVMEYLKS  106 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSH--HHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhH--HHHHHHHHHHHHHHhc
Confidence            47788888888776643111   122455677899999999999999888776654 34322  2233444333    23


Q ss_pred             CCChhhHHH--HHHHHHh--cCCccCc---cHHhHHHHHHHHHhcCChhhHHHHHHHHHhc--CCCCC---hhhHHHHHH
Q 048737           77 LNDSTHTVQ--LWDIMVG--IGFNLMP---NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH--GAFPD---SLTYNMIFE  144 (274)
Q Consensus        77 ~~~~~~a~~--~~~~~~~--~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~li~  144 (274)
                      ....+...+  +.+.+..  .|. +-.   .......|...|...|++.+|..++..+...  |..+.   ...+...++
T Consensus       107 ~~~~d~~~~~~~i~~l~~vte~k-iflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~r  185 (445)
T 4b4t_P          107 SKSLDLNTRISVIETIRVVTENK-IFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQME  185 (445)
T ss_dssp             HCTTHHHHHHHHHHCCSSSSSCC-CCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHH
T ss_pred             CCchhHHHHHHHHHHHHHHhccc-hHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            333332211  1111111  110 011   2334567889999999999999999987642  22111   356777888


Q ss_pred             HHHhcCCHhHHHHHHHHHHh----CCCCCC--cchHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCccHHHH----HHHH
Q 048737          145 CLIKNKKVHEVENFFHEMIK----NEWQPT--PLNCATAITMLLDADEPEFAIEIWNYILEN-GILPLEASA----NVLL  213 (274)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~----~~l~  213 (274)
                      .|...+++..|..++.+...    ....|+  ...+...+..+...+++.+|-..|.+..+. ....+...+    ..++
T Consensus       186 l~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v  265 (445)
T 4b4t_P          186 LSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIV  265 (445)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHH
Confidence            89999999999999988742    121222  134567778888889999988888777542 111121111    1122


Q ss_pred             HHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhc
Q 048737          214 VGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNE  254 (274)
Q Consensus       214 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~  254 (274)
                      ....-.+..+.-..++.........++...|..++.+|...
T Consensus       266 ~~~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~  306 (445)
T 4b4t_P          266 YFLVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTN  306 (445)
T ss_dssp             HHHHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHC
T ss_pred             HHHHhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhc
Confidence            22222333333333344333332335666777777777543

>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=94.50  E-value=0.2  Score=40.12  Aligned_cols=70  Identities=10%  Similarity=-0.120  Sum_probs=52.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHh-----CCCccCHHHHH
Q 048737          175 ATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLN-----RRILIYDVTMQ  245 (274)
Q Consensus       175 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~~~  245 (274)
                      ..++..+...|++++|...+..+.... +.+...|..+|.++.+.|+..+|++.|+.+.+     .|+.|...+-.
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            345667777888888888888777654 35677888888888888888888888888654     48888876533

>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=93.94  E-value=0.65  Score=28.88  Aligned_cols=31  Identities=19%  Similarity=0.316  Sum_probs=12.6

Q ss_pred             cCccHHhHHHHHHHHHhcCChhhHHHHHHHH
Q 048737           97 LMPNLIMYNAVVGLLCNNNDVDNVFRFFDQM  127 (274)
Q Consensus        97 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  127 (274)
                      +.|++.+..+.+++|.|.+++..|.++|+-.
T Consensus        41 lVP~P~ii~aaLrAcRRvND~alAVR~lE~i   71 (109)
T 1v54_E           41 LVPEPKIIDAALRACRRLNDFASAVRILEVV   71 (109)
T ss_dssp             BCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cCCCcHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            3344444444444444444444444444333

>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=92.86  E-value=0.99  Score=29.73  Aligned_cols=67  Identities=6%  Similarity=-0.042  Sum_probs=39.9

Q ss_pred             CccHHhHHHHHHHHHhcCCh---hhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737           98 MPNLIMYNAVVGLLCNNNDV---DNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus        98 ~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      .|+..+--.+..++++..+.   .+++.+++.+.+.+..-....+-.+.-++.+.|++++|.++.+.+.+
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            45555555555566665543   45666676666554211244455555666777777777777777766

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.72  E-value=3.5  Score=33.64  Aligned_cols=191  Identities=13%  Similarity=0.094  Sum_probs=120.5

Q ss_pred             CcHHHHHHHHHHHhc-----CCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHh--HHHHHHHHHhcC
Q 048737           43 KQVDEALKFLRVMKG-----ENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIM--YNAVVGLLCNNN  115 (274)
Q Consensus        43 ~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~  115 (274)
                      |+++.|++.+..+.+     .+..........++..|...++++.....+..+.+... ..+...+  .+.++.......
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~-qlk~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHG-QLKLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTT-TSHHHHHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhh-hhHHHHHHHHHHHHHHHhcCC
Confidence            678888887765543     23455677788899999999999998888777665431 2222221  122233222333


Q ss_pred             ChhhH--HHHHHHHHh--cC-CCC---ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC--CCCCC---cchHHHHHHHHH
Q 048737          116 DVDNV--FRFFDQMVF--HG-AFP---DSLTYNMIFECLIKNKKVHEVENFFHEMIKN--EWQPT---PLNCATAITMLL  182 (274)
Q Consensus       116 ~~~~a--~~~~~~~~~--~~-~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~  182 (274)
                      ..+..  ..+.+....  .| +..   .......|...|...|++.+|.+++..+...  |....   ...+...++.|.
T Consensus       109 ~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l  188 (445)
T 4b4t_P          109 SLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSI  188 (445)
T ss_dssp             TTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            33321  222221111  01 111   1223456788899999999999999998643  22111   135667788999


Q ss_pred             hcCChHHHHHHHHHHHH----CCCCcc--HHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          183 DADEPEFAIEIWNYILE----NGILPL--EASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       183 ~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      ..+++..|..++.++..    ....|+  ...+...+..+...+++.+|...|.+..+
T Consensus       189 ~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            99999999999988753    222233  24567777888889999999988887754

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.71  E-value=2.1  Score=34.73  Aligned_cols=98  Identities=9%  Similarity=-0.138  Sum_probs=70.2

Q ss_pred             HhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC--hhhHHHHHHHHHhcCCHhHHHHHHHHHHhC-CCCCCcchHHHH-
Q 048737          102 IMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD--SLTYNMIFECLIKNKKVHEVENFFHEMIKN-EWQPTPLNCATA-  177 (274)
Q Consensus       102 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l-  177 (274)
                      .+...+...|.+.|+++.|.+.|.++...-..+.  ...+-.+++.+...+++..+...+.+.... .-.++....+.+ 
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            3677889999999999999999999987533322  567788889999999999999999887543 112333332222 


Q ss_pred             ---HHHHHhcCChHHHHHHHHHHHH
Q 048737          178 ---ITMLLDADEPEFAIEIWNYILE  199 (274)
Q Consensus       178 ---~~~~~~~~~~~~a~~~~~~~~~  199 (274)
                         ...+...+++..|-..|-+...
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhc
Confidence               2223456889998888877654

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=92.68  E-value=1.1  Score=27.87  Aligned_cols=63  Identities=8%  Similarity=0.048  Sum_probs=41.1

Q ss_pred             ChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHH
Q 048737          116 DVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAIT  179 (274)
Q Consensus       116 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  179 (274)
                      |.-+..+-++.+......|++......+++|.+.+++..|.++++..+.+- .+...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHH
Confidence            455666667777666777777777777777777777777777777665431 222344555543

>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=92.55  E-value=1.5  Score=28.97  Aligned_cols=44  Identities=5%  Similarity=0.038  Sum_probs=19.9

Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737          120 VFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus       120 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      ..+-++.+....+.|++......+++|.+.+|+..|.++|+-.+
T Consensus        72 lrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK  115 (152)
T 2y69_E           72 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK  115 (152)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33334444444444444444444444444444444444444443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=92.44  E-value=0.51  Score=32.45  Aligned_cols=69  Identities=9%  Similarity=0.045  Sum_probs=44.5

Q ss_pred             CCCCchHhH--HHHHHHHHhccCcHHHHHHHHHHHhcC-CCCCC-------HHHHHHHHHHHHhCCChhhHHHHHHHHHh
Q 048737           23 EWNPEHVLA--YETFLITLIRGKQVDEALKFLRVMKGE-NCFPT-------LKFFSNALDILVKLNDSTHTVQLWDIMVG   92 (274)
Q Consensus        23 ~~~p~~~~~--~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   92 (274)
                      |..|+ ...  +-.-+..+...+.++.|+-+.+.+... +..|+       ..++..+.+++...+++..|...|++.++
T Consensus        13 ~~~~~-~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           13 GLVPR-GSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             ---------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCCC-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            55552 323  344567788899999999888876542 12233       13556677889999999999999999754

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=92.44  E-value=0.0057  Score=49.86  Aligned_cols=177  Identities=11%  Similarity=0.035  Sum_probs=98.9

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhH
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMY  104 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  104 (274)
                      +.+|+..|..+|.+..+.|.+++.++++.-.++..  -++..=+.|+-+|++.+++.+-++++         ..||..-.
T Consensus        79 kA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ayAk~~rL~elEefl---------~~~N~A~i  147 (624)
T 3lvg_A           79 KADDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---------NGPNNAHI  147 (624)
T ss_dssp             CCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHHHTSCSSSTTTSTT---------SCCSSSCT
T ss_pred             hCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHHHhhCcHHHHHHHH---------cCCCcccH
Confidence            34477789999999999999999999887665543  23344467899999988876544333         13444444


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhc--------------------CCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737          105 NAVVGLLCNNNDVDNVFRFFDQMVFH--------------------GAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       105 ~~l~~~~~~~~~~~~a~~~~~~~~~~--------------------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      ..+.+-|...|.++.|.-+|..+..-                    .-.-++.||-.+-.+|...+.+.-|.-.--.++-
T Consensus       148 q~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIv  227 (624)
T 3lvg_A          148 QQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVV  227 (624)
T ss_dssp             HHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC
T ss_pred             HHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhcc
Confidence            45555555555555554444333110                    0012566777777777777766655444333331


Q ss_pred             CCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHh
Q 048737          165 NEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRN  218 (274)
Q Consensus       165 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  218 (274)
                         .||  ....++..|-..|.+++-+.+++.-.... +.....|+-|.-.|++
T Consensus       228 ---had--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsK  275 (624)
T 3lvg_A          228 ---HAD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSK  275 (624)
T ss_dssp             ---CSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHS
T ss_pred             ---cHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHh
Confidence               111  22234444555555555555554443211 2334444444444443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=92.16  E-value=6.4  Score=35.40  Aligned_cols=122  Identities=9%  Similarity=0.059  Sum_probs=60.4

Q ss_pred             HHHHhcCChhhHHHHHHHHHhcCCCCChhhH--HHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHH--HHHHHHHhc
Q 048737          109 GLLCNNNDVDNVFRFFDQMVFHGAFPDSLTY--NMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCA--TAITMLLDA  184 (274)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~  184 (274)
                      ..+...|+.+-...+++.+.+.   .+....  ..+.-++...|+.+.+..+++.+.... .|....-.  ++.-+|+..
T Consensus       498 li~vGTgn~~ai~~LL~~~~e~---~~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGT  573 (963)
T 4ady_A          498 LCMLGTGKPEAIHDMFTYSQET---QHGNITRGLAVGLALINYGRQELADDLITKMLASD-ESLLRYGGAFTIALAYAGT  573 (963)
T ss_dssp             HHHTTCCCHHHHHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTS
T ss_pred             hhhcccCCHHHHHHHHHHHhcc---CcHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCC
Confidence            3344556666666666655542   122222  222233445677777777777666531 12221111  233345556


Q ss_pred             CChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          185 DEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       185 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      |+.....+++..+.+.. ..++.....+.-++...|+.+.+.+++..+.+.
T Consensus       574 Gn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~  623 (963)
T 4ady_A          574 GNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKS  623 (963)
T ss_dssp             CCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGC
T ss_pred             CCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhc
Confidence            67666666776666532 233333333333444556666666666555443

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=92.05  E-value=0.3  Score=36.55  Aligned_cols=52  Identities=17%  Similarity=0.150  Sum_probs=37.2

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhc
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKG   57 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~   57 (274)
                      .+.|++++|++....-.+.   .|.|...-..|+..+|-.|+|++|.+-++...+
T Consensus         8 l~~g~L~~al~~~~~~VR~---~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~   59 (273)
T 1zbp_A            8 LSEGQLQQALELLIEAIKA---SPKDASLRSSFIELLCIDGDFERADEQLMQSIK   59 (273)
T ss_dssp             TTTTCHHHHHHHHHHHHHT---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHHHh---CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            3567777777777666555   677777777777777777777777777766655

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=91.94  E-value=1.1  Score=33.62  Aligned_cols=117  Identities=9%  Similarity=0.023  Sum_probs=66.4

Q ss_pred             HHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCC
Q 048737           37 ITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNND  116 (274)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  116 (274)
                      ..+.+.|++++|++....-++.. +.|...-..|+..+|-.|+++.|.+-++...+......|....|..+|.+=.    
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~aE~----   79 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQ----   79 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHH----
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHHHH----
Confidence            34567778888887777776653 5566666777788888888888888777777754222233344554444311    


Q ss_pred             hhhHHHHHHHHHhcCCCC-----ChhhHHHHHHHHH--hcCCHhHHHHHHHHHHh
Q 048737          117 VDNVFRFFDQMVFHGAFP-----DSLTYNMIFECLI--KNKKVHEVENFFHEMIK  164 (274)
Q Consensus       117 ~~~a~~~~~~~~~~~~~~-----~~~~~~~li~~~~--~~~~~~~a~~~~~~~~~  164 (274)
                            .=.++...+-.|     ...-...++.+..  ..|+.++|..+-..+.+
T Consensus        80 ------~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e  128 (273)
T 1zbp_A           80 ------ARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  128 (273)
T ss_dssp             ------HHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ------HHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Confidence                  111222222122     1222334444433  35777777777776654

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.25  E-value=3.1  Score=33.74  Aligned_cols=100  Identities=8%  Similarity=-0.006  Sum_probs=70.9

Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc---CCCCChhh--HH
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH---GAFPDSLT--YN  140 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~--~~  140 (274)
                      +...+...+.+.|+++.|.+.|.++.........-...+-..++.+...+++..+...+.+....   +..|+...  ..
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            55678899999999999999999998754213344677888999999999999999999887542   22222211  11


Q ss_pred             HHHHHHHhcCCHhHHHHHHHHHHhC
Q 048737          141 MIFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus       141 ~li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                      .-...+...+++..|...|-.....
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            1122234578899988888776553

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=90.93  E-value=2.4  Score=28.04  Aligned_cols=44  Identities=18%  Similarity=0.261  Sum_probs=20.5

Q ss_pred             HHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHH
Q 048737           83 TVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMV  128 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  128 (274)
                      ..+-++.+...+  +.|++.+....+++|.+.+|+..|.++|+-.+
T Consensus        72 lrrglN~l~~~D--lVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK  115 (152)
T 2y69_E           72 LRKGMNTLVGYD--LVPEPKIIDAALRACRRLNDFASAVRILEVVK  115 (152)
T ss_dssp             HHHHHHHHTTSS--BCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccc--cCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            333444444433  44444444444555555555555555544443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=90.57  E-value=9.4  Score=34.36  Aligned_cols=181  Identities=10%  Similarity=0.003  Sum_probs=109.8

Q ss_pred             HHHHHHHHHHhcCCCCCCHH--HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHH
Q 048737           46 DEALKFLRVMKGENCFPTLK--FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRF  123 (274)
Q Consensus        46 ~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  123 (274)
                      +++.+.+..+....- +...  .-..|...+.-.|+-+....++..+.+..   ..+..-.-.+.-++.-.|+.+.+..+
T Consensus       471 eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~~e~~~~l  546 (963)
T 4ady_A          471 IEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGRQELADDL  546 (963)
T ss_dssp             HHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTCGGGGHHH
T ss_pred             HHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCChHHHHHH
Confidence            456666666654321 1111  11233344556778788888888777542   23333344444556678999999999


Q ss_pred             HHHHHhcCCCCChhhHH---HHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 048737          124 FDQMVFHGAFPDSLTYN---MIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILEN  200 (274)
Q Consensus       124 ~~~~~~~~~~~~~~~~~---~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  200 (274)
                      .+.+... ..|. .-|.   .+.-+|+..|+.....++++.+.+.. ..+......+.-++...|+.+.+.++++.+.+.
T Consensus       547 i~~L~~~-~dp~-vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~  623 (963)
T 4ady_A          547 ITKMLAS-DESL-LRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKS  623 (963)
T ss_dssp             HHHHHHC-SCHH-HHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGC
T ss_pred             HHHHHhC-CCHH-HHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhc
Confidence            9888764 1222 2232   34456778899888888999988742 222333333334455577777778887766654


Q ss_pred             CCCccHHHHHHHHHHHHhcCCc-chHHHHHHHHHh
Q 048737          201 GILPLEASANVLLVGLRNLGRL-SDVRRFAEEMLN  234 (274)
Q Consensus       201 ~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~m~~  234 (274)
                      + .|.+..-..+..+....|.. .++.+++..+..
T Consensus       624 ~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          624 H-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             S-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             C-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            4 46666666666666666664 577888888764

>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=89.57  E-value=6.9  Score=31.29  Aligned_cols=166  Identities=8%  Similarity=0.003  Sum_probs=106.3

Q ss_pred             hHHHHHHHHHhccCcHHHHHHHHHHHhcC-CCCC---CHHHHHHHHHHHHhC-CChhhHHHHHHHHHhcCCccCccHHhH
Q 048737           30 LAYETFLITLIRGKQVDEALKFLRVMKGE-NCFP---TLKFFSNALDILVKL-NDSTHTVQLWDIMVGIGFNLMPNLIMY  104 (274)
Q Consensus        30 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~  104 (274)
                      .+...|...|.+.|+.++..+++.....- +..|   .......++..+... +..+.-.++..+.++..   ..+..+|
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a---~~~~r~f   96 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWA---KQEKRTF   96 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHH---HHTTCHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH---HHHHHHH
Confidence            45667899999999999999998876542 1112   133456777777664 33444444444444432   1122233


Q ss_pred             ------HHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-----hhhHHHHHHHHHhcCCHhHHHHHHHHHHhC--CCCCCc
Q 048737          105 ------NAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD-----SLTYNMIFECLIKNKKVHEVENFFHEMIKN--EWQPTP  171 (274)
Q Consensus       105 ------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~  171 (274)
                            ..++..|...|++.+|.+++.++.+.=-..|     ...|..-++.|...+++.++...+......  .+.+++
T Consensus        97 lr~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p  176 (394)
T 3txn_A           97 LRQSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPP  176 (394)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCH
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCH
Confidence                  2578889999999999999988876421212     345667778888999999999998877543  233444


Q ss_pred             chHHHH----HHHHH-hcCChHHHHHHHHHHH
Q 048737          172 LNCATA----ITMLL-DADEPEFAIEIWNYIL  198 (274)
Q Consensus       172 ~~~~~l----~~~~~-~~~~~~~a~~~~~~~~  198 (274)
                      .....+    ...+. ..+++..|...|-+..
T Consensus       177 ~i~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          177 KVQGALDLQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHhccCHHHHHHHHHHHH
Confidence            333222    23345 7889999888776654

>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=88.52  E-value=3.8  Score=26.97  Aligned_cols=68  Identities=13%  Similarity=-0.048  Sum_probs=37.9

Q ss_pred             CCCHHHHHHHHHHHHhCCC---hhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737           61 FPTLKFFSNALDILVKLND---STHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus        61 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      .|++.+--.+.-++++..+   ...+..+++.+.+.+  .......+--|.-++.+.|++++|.+..+.+++.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~--~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC--cchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            3444444444444554443   345666666666654  1123444555556677777777777777777663

>2ion_A PDCD4, programmed cell death 4, PDCD4; alpha-helical, antitumor protein; 1.57A {Mus musculus} SCOP: a.118.1.14 PDB: 2ios_A 2iol_A

Probab=88.25  E-value=4.4  Score=27.42  Aligned_cols=62  Identities=13%  Similarity=0.294  Sum_probs=35.9

Q ss_pred             hHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCC---cchHHHHHHHHHhcCC--hHHHHHHHHHHHHCCCC
Q 048737          138 TYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT---PLNCATAITMLLDADE--PEFAIEIWNYILENGIL  203 (274)
Q Consensus       138 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~  203 (274)
                      ....++.-|...|+.++|...++++..    |.   ..+...+..++-+.++  .+.+..++..+.+.++-
T Consensus        11 ki~~lL~EY~~~~D~~EA~~cl~EL~~----p~f~~e~V~~~i~~alE~~~~~~re~~~~LL~~L~~~~~i   77 (152)
T 2ion_A           11 EIDMLLKEYLLSGDISEAEHCLKELEV----PHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTI   77 (152)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTC----GGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHhCC----CcchHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCCc
Confidence            456777888888888888888887742    21   1122233333333222  34466666666666653

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=87.66  E-value=5.9  Score=28.19  Aligned_cols=57  Identities=14%  Similarity=0.097  Sum_probs=35.9

Q ss_pred             CCChhhHHHHHHHHHhcCCccCc-cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC
Q 048737           77 LNDSTHTVQLWDIMVGIGFNLMP-NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPD  135 (274)
Q Consensus        77 ~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  135 (274)
                      .+....+..+|..|...|  +-. -...|-.....+...|++++|.++|+.-.+.+-.|-
T Consensus        92 ~~~~~~p~~if~~L~~~~--IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~  149 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKG--IGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPY  149 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHT--SSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSH
T ss_pred             ccccCCHHHHHHHHHHCC--CcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccH
Confidence            344556777777776665  322 344566666667777777777777777766666664

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=87.06  E-value=3  Score=30.16  Aligned_cols=186  Identities=7%  Similarity=0.045  Sum_probs=90.5

Q ss_pred             HHHHHhccCcHHHHHHHHHHHhcCCCCCCHH--HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHh--HHHHHHH
Q 048737           35 FLITLIRGKQVDEALKFLRVMKGENCFPTLK--FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIM--YNAVVGL  110 (274)
Q Consensus        35 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~~~l~~~  110 (274)
                      .+...+..|+.+.+..+++.+.+.|..++..  .-.+.+...+..|+.+-    ++.+.+.|  ..++...  -.+.+..
T Consensus        12 ~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~----v~~Ll~~g--~~~~~~~~~g~t~l~~   85 (241)
T 1k1a_A           12 PLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPSV----VRLLVTAG--ASPMALDRHGQTAAHL   85 (241)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHHH----HHHHHHTT--CCTTCCCTTSCCHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCcccccCCCHHHHHHHcCCHHH----HHHHHHcC--CCccccCCCCCCHHHH
Confidence            4556677788888888887766666544422  12234555556677654    44445555  3333211  1223344


Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCCC---hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcch---HHHHHHHHHhc
Q 048737          111 LCNNNDVDNVFRFFDQMVFHGAFPD---SLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLN---CATAITMLLDA  184 (274)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~  184 (274)
                      .+..|+.+-+..+++.....++.++   ....+.+.. .+..|+.+    +++.+.+.|..++...   -.+.+...+..
T Consensus        86 A~~~~~~~~~~~Ll~~~~~~~~~~~~~~~~g~t~L~~-A~~~~~~~----~~~~Ll~~g~~~~~~~~~~g~t~L~~A~~~  160 (241)
T 1k1a_A           86 ACEHRSPTCLRALLDSAAPGTLDLEARNYDGLTALHV-AVNTECQE----TVQLLLERGADIDAVDIKSGRSPLIHAVEN  160 (241)
T ss_dssp             HHHTTCHHHHHHHHHHSCTTSCCTTCCCTTSCCHHHH-HHHHTCHH----HHHHHHHTTCCTTCCCTTTCCCHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHcCCCccccccccCcCCCcHHHH-HHHcCCHH----HHHHHHHcCCCcccccccCCCcHHHHHHHc
Confidence            4556666655555554332222222   222333333 34555544    4444555555444322   23445555667


Q ss_pred             CChHHHHHHHHHHHHCCCCccH---HHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccC
Q 048737          185 DEPEFAIEIWNYILENGILPLE---ASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY  240 (274)
Q Consensus       185 ~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  240 (274)
                      |+.+-+..++    +.|..++.   ...+ .+...+..|+.+    +++.+.+.|..|+
T Consensus       161 ~~~~~v~~Ll----~~g~~~~~~~~~g~t-~L~~A~~~~~~~----~v~~Ll~~ga~~~  210 (241)
T 1k1a_A          161 NSLSMVQLLL----QHGANVNAQMYSGSS-ALHSASGRGLLP----LVRTLVRSGADSS  210 (241)
T ss_dssp             TCHHHHHHHH----HTTCCTTCBCTTSCB-HHHHHHHHTCHH----HHHHHHHTTCCTT
T ss_pred             CCHHHHHHHH----HcCCCCCCcCCCCCC-HHHHHHHcCCHH----HHHHHHhcCCCCC
Confidence            7766554444    44544432   1122 233334455544    4455555666554

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=86.98  E-value=5.7  Score=27.30  Aligned_cols=119  Identities=11%  Similarity=0.010  Sum_probs=58.8

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcC-CCCCh-------hhHHHHHHHHHhcCCHhHHHHHHHHHHhC--CCCCCcch
Q 048737          104 YNAVVGLLCNNNDVDNVFRFFDQMVFHG-AFPDS-------LTYNMIFECLIKNKKVHEVENFFHEMIKN--EWQPTPLN  173 (274)
Q Consensus       104 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-------~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~  173 (274)
                      +-.-+..+...+.++.|+-+.+.+.... ..|+.       .++..+.+++...+++..|...|++.++.  .+.-+..+
T Consensus        23 l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~  102 (167)
T 3ffl_A           23 VIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKV  102 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC------
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence            3444556666777777777766644321 12331       24556667777777777777777775432  11101111


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          174 CATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       174 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      ...+-   .....+.          .....++...---+..+|...|++++|+.+++.+..+
T Consensus       103 ~~~~~---~~ss~p~----------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A          103 RPSTG---NSASTPQ----------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             ---------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             ccccc---ccCCCcc----------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            11000   0000000          0011223344444667778888888888887766444

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus}

Probab=86.77  E-value=2.8  Score=31.57  Aligned_cols=209  Identities=11%  Similarity=0.016  Sum_probs=99.9

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHH
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTV   84 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   84 (274)
                      ..+..+..+++..   . ++...|..-++. +...+..|+.+-+..+++    .|..++...-.+.+...+..|+.+-+.
T Consensus         9 ~~~~~~v~~lL~~---~-~~~~~d~~g~t~-L~~A~~~g~~~~v~~Ll~----~g~~~~~~~g~t~L~~A~~~g~~~~v~   79 (285)
T 3kea_A            9 TWKSKQLKSFLSS---K-DTFKADVHGHSA-SYYAIADNNVRLVCTLLN----AGALKNLLENEFPLHQAATLEDTKIVK   79 (285)
T ss_dssp             GCCHHHHHHHHHS---T-TTTCCCTTSCCH-HHHHHHTTCHHHHHHHHH----TTGGGSCCTTCCHHHHHTTSSSCHHHH
T ss_pred             hcCHHHHHHHHHh---C-CCCccCCCCCCH-HHHHHHcCCHHHHHHHHh----CCCCCCCCCCCCHHHHHHHcCCHHHHH
Confidence            4444555554432   1 333334433443 344556777765555554    343332211123445556677776554


Q ss_pred             HHHHHHHhcCCccCcc---HHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChh---hHHHHHHHHHhcCCHhHHHHH
Q 048737           85 QLWDIMVGIGFNLMPN---LIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSL---TYNMIFECLIKNKKVHEVENF  158 (274)
Q Consensus        85 ~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~li~~~~~~~~~~~a~~~  158 (274)
                      .+    .+.|  ..++   ..-++. +...+..|+.+-+..+++    .|..++..   .+.+.+...+..|+.+-    
T Consensus        80 ~L----l~~g--a~~~~~d~~g~t~-L~~A~~~g~~~~v~~Ll~----~ga~~~~~~~~g~~t~L~~A~~~~~~~~----  144 (285)
T 3kea_A           80 IL----LFSG--LDDSQFDDKGNTA-LYYAVDSGNMQTVKLFVK----KNWRLMFYGKTGWKTSFYHAVMLNDVSI----  144 (285)
T ss_dssp             HH----HHTT--CCTTCCCTTSCCH-HHHHHHTTCHHHHHHHHH----HCGGGGGCSSSGGGSHHHHHHHTTCHHH----
T ss_pred             HH----HHCC--CCCCCcCCCCCcH-HHHHHHcCCHHHHHHHHh----cCCCCCccCCCCCCCHHHHHHHcCCHHH----
Confidence            44    4445  3332   222233 334455666655444444    34444432   22344445556677653    


Q ss_pred             HHHHHhCCCCCCcc-hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCC
Q 048737          159 FHEMIKNEWQPTPL-NCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRI  237 (274)
Q Consensus       159 ~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  237 (274)
                      .+.+.+.|..+... .-.+.+...+..|+.+-+..+++.-..-.. .+....+..+...+..|+    .++++.+.+.|.
T Consensus       145 v~~Ll~~g~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~gad~n~-~~~~g~t~~L~~A~~~~~----~~~v~~Ll~~ga  219 (285)
T 3kea_A          145 VSYFLSEIPSTFDLAILLSCIHITIKNGHVDMMILLLDYMTSTNT-NNSLLFIPDIKLAIDNKD----IEMLQALFKYDI  219 (285)
T ss_dssp             HHHHHTTSCTTCCCSTHHHHHHHHHHTTCHHHHHHHHHHHHHTCT-TCCCBCCTTHHHHHHHTC----HHHHHHHTTSCB
T ss_pred             HHHHHhCCCccccccCCccHHHHHHHcChHHHHHHHHHcCCCCCc-ccCCCCChHHHHHHHcCC----HHHHHHHHHcCC
Confidence            44444554333222 344556666788888877777765443222 111112222222334454    345666677777


Q ss_pred             ccCHH
Q 048737          238 LIYDV  242 (274)
Q Consensus       238 ~~~~~  242 (274)
                      .|+..
T Consensus       220 d~~~~  224 (285)
T 3kea_A          220 NIYSA  224 (285)
T ss_dssp             CSTTT
T ss_pred             CCCCC
Confidence            66654

>2nsz_A Programmed cell death protein 4; PDCD4, tumor suppressor, translation, antitumor protein; 1.15A {Mus musculus} SCOP: a.118.1.14 PDB: 2kzt_B 2hm8_A 2ggf_A

Probab=86.63  E-value=5  Score=26.27  Aligned_cols=61  Identities=13%  Similarity=0.284  Sum_probs=31.8

Q ss_pred             hHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCC---cchHHHHHHHHHhcCC--hHHHHHHHHHHHHCCC
Q 048737          138 TYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT---PLNCATAITMLLDADE--PEFAIEIWNYILENGI  202 (274)
Q Consensus       138 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~  202 (274)
                      ....++.-|...|+.++|...++++..    |.   ......+..++-+.++  .+.+..++..+.+.|+
T Consensus         9 ki~~ll~EY~~~~D~~Ea~~cl~eL~~----p~f~~e~V~~~i~~alE~~~~~~~e~~~~LL~~L~~~~~   74 (129)
T 2nsz_A            9 EIDMLLKEYLLSGDISEAEHCLKELEV----PHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSST   74 (129)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTC----GGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhCC----CccHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCC
Confidence            345667777777777777777777641    21   1122223333333321  2445566666665554

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=86.26  E-value=4.6  Score=29.92  Aligned_cols=83  Identities=14%  Similarity=0.020  Sum_probs=37.5

Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCccHHH--HHHHHHHHHhcCCcchHHHHHHHHHh-CCCccCHHH--HHHHHHHHHhcC
Q 048737          181 LLDADEPEFAIEIWNYILENGILPLEAS--ANVLLVGLRNLGRLSDVRRFAEEMLN-RRILIYDVT--MQKLKKAFYNES  255 (274)
Q Consensus       181 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~a~~~~~~m~~-~~~~~~~~~--~~~l~~~~~~~g  255 (274)
                      .+..++.....++.+.+.+.|..++...  -.+.+...+..|+.+-    ++.+.+ .|..++...  -.+-+...++.|
T Consensus       189 a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~----v~~Ll~~~g~~~~~~~~~g~t~l~~A~~~~  264 (285)
T 1wdy_A          189 ALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVEKKHLGL----VQRLLEQEHIEINDTDSDGKTALLLAVELK  264 (285)
T ss_dssp             HHHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHHHHHTTCHHH----HHHHHHSSSCCTTCCCTTSCCHHHHHHHTT
T ss_pred             HHHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHHHHHcCCHHH----HHHHHhccCCCccccCCCCCcHHHHHHHcC
Confidence            3445555555566666666665554321  1123333445555443    333443 444433211  112233334445


Q ss_pred             hhHHHHHHHHHHHh
Q 048737          256 RSMRDRFDSLERRW  269 (274)
Q Consensus       256 ~~a~~~~~~~~~~~  269 (274)
                      ..  ++.+.+++.+
T Consensus       265 ~~--~i~~~Ll~~G  276 (285)
T 1wdy_A          265 LK--KIAELLCKRG  276 (285)
T ss_dssp             CH--HHHHHHHHHS
T ss_pred             cH--HHHHHHHHcC
Confidence            55  5555555554

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=86.07  E-value=10  Score=29.44  Aligned_cols=141  Identities=11%  Similarity=-0.017  Sum_probs=64.4

Q ss_pred             HHhcCChhhHHHH----HHHHHhcCCCCChhhHHHHHHHHHhcCCHh-HHHHHHHHHHh----CC--CCCCcchHHHHHH
Q 048737          111 LCNNNDVDNVFRF----FDQMVFHGAFPDSLTYNMIFECLIKNKKVH-EVENFFHEMIK----NE--WQPTPLNCATAIT  179 (274)
Q Consensus       111 ~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~li~~~~~~~~~~-~a~~~~~~~~~----~~--~~~~~~~~~~l~~  179 (274)
                      +.+.|+...|..+    ++-..+.++++|......++..+.....-+ .-.++++++++    .|  ..-|+.....+..
T Consensus        65 ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~  144 (336)
T 3lpz_A           65 LLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGT  144 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHH
T ss_pred             HHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHH
Confidence            3444554443333    344455566666666666666655443211 12233333321    11  1223445555666


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh-H
Q 048737          180 MLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS-M  258 (274)
Q Consensus       180 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~-a  258 (274)
                      .|.+.+++.+|+.-|-    .|-.++...+..++.-+...+..              ..++...-..++.-++-..-. |
T Consensus       145 ~~~~e~~~~~Ae~H~i----lg~~~s~~~~a~mL~ew~~~~~~--------------~e~dlfiaRaVL~yL~l~n~~~A  206 (336)
T 3lpz_A          145 LYVEEGEFEAAEKHLV----LGTKESPEVLARMEYEWYKQDES--------------HTAPLYCARAVLPYLLVANVRAA  206 (336)
T ss_dssp             HHHHTTCHHHHHHHHT----TSCTTHHHHHHHHHHHHHHTSCG--------------GGHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHccCCHHHHHHHHH----hcCCchHHHHHHHHHHHHHhcCC--------------ccHHHHHHHHHHHHHHhCCHHHH
Confidence            6666666666665441    23333334444444333333221              122333344444444433333 7


Q ss_pred             HHHHHHHHHHh
Q 048737          259 RDRFDSLERRW  269 (274)
Q Consensus       259 ~~~~~~~~~~~  269 (274)
                      ..+++...+..
T Consensus       207 ~~~~~~f~~~l  217 (336)
T 3lpz_A          207 NTAYRIFTSAL  217 (336)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77766666543

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=85.52  E-value=7.9  Score=27.55  Aligned_cols=55  Identities=20%  Similarity=0.185  Sum_probs=35.7

Q ss_pred             CChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCC
Q 048737          115 NDVDNVFRFFDQMVFHGAFPD-SLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQP  169 (274)
Q Consensus       115 ~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  169 (274)
                      +...++..+|..|...|+--. +..|......+...|++.+|.++|..-++.+-.|
T Consensus        93 ~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           93 NNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             TCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             cccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            335577777777776665433 4456666666777777777777777777665555

>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=84.47  E-value=14  Score=29.52  Aligned_cols=227  Identities=6%  Similarity=-0.066  Sum_probs=123.1

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCc--hHhHHHHHHHHHhcc-CcHHHHHHHHHHHhcCCCCCCHHHH------HHHHH
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPE--HVLAYETFLITLIRG-KQVDEALKFLRVMKGENCFPTLKFF------SNALD   72 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~~li~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~------~~l~~   72 (274)
                      |.+.|+.++..+++.....-++.-|.  ....-..++..+... +..+.-.++..+..+... -+..+|      ..++.
T Consensus        29 ~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~-~~~r~flr~~l~~kL~~  107 (394)
T 3txn_A           29 YKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAK-QEKRTFLRQSLEARLIA  107 (394)
T ss_dssp             HHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence            45677788888777766543232231  233345667676554 334444444444433110 011122      36788


Q ss_pred             HHHhCCChhhHHHHHHHHHhcCCcc---CccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc--CCCCChhhHH--H--HH
Q 048737           73 ILVKLNDSTHTVQLWDIMVGIGFNL---MPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH--GAFPDSLTYN--M--IF  143 (274)
Q Consensus        73 ~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~--~--li  143 (274)
                      .|...|++.+|.+++.++.+.-...   ..-..++-.-+..|...++..++...+......  .+.+++..-.  -  -.
T Consensus       108 l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~i~~~~G  187 (394)
T 3txn_A          108 LYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGALDLQSG  187 (394)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHHHHHHhh
Confidence            9999999999999998888642001   112455777778899999999999999877543  1323332222  1  12


Q ss_pred             HHHH-hcCCHhHHHHHHHHHHhC-C-C-CCC---cchHHHHHHHHHhcCChHHHHHHHH-HHHHCCCCccHHHHHHHHHH
Q 048737          144 ECLI-KNKKVHEVENFFHEMIKN-E-W-QPT---PLNCATAITMLLDADEPEFAIEIWN-YILENGILPLEASANVLLVG  215 (274)
Q Consensus       144 ~~~~-~~~~~~~a~~~~~~~~~~-~-~-~~~---~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~  215 (274)
                      ..+. ..+++..|...|-+..+. . . .|.   ...|..|...  -.++..+...++. .....-..|....+..++.+
T Consensus       188 i~~l~~~rdyk~A~~~F~eaf~~f~~~~~~~~~~~lkYlvL~aL--l~~~r~el~~~l~~~~~~~~~~pei~~l~~L~~a  265 (394)
T 3txn_A          188 ILHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYMLLCKI--MLGQSDDVNQLVSGKLAITYSGRDIDAMKSVAEA  265 (394)
T ss_dssp             HHHHHTTSCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH--HTTCGGGHHHHHHSHHHHTTCSHHHHHHHHHHHH
T ss_pred             HHHHHhccCHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHH--HcCCHHHHHHHhccccccccCCccHHHHHHHHHH
Confidence            2345 688999988877665422 1 0 111   1123222222  2233333323222 21111134666666777776


Q ss_pred             HHhcCCcchHHHHHHHH
Q 048737          216 LRNLGRLSDVRRFAEEM  232 (274)
Q Consensus       216 ~~~~g~~~~a~~~~~~m  232 (274)
                      | ..+++.+...+++..
T Consensus       266 ~-~~~dl~~f~~iL~~~  281 (394)
T 3txn_A          266 S-HKRSLADFQAALKEY  281 (394)
T ss_dssp             H-HTTCHHHHHHHHHHS
T ss_pred             H-HhCCHHHHHHHHHHH
Confidence            5 456676666666654

>4a1g_A Mitotic checkpoint serine/threonine-protein kinas; cell cycle, transferase, spindle assembly checkpoint, mitosi repeat, KNL1, KMN network; 2.60A {Homo sapiens} PDB: 2lah_A

Probab=84.42  E-value=2.6  Score=28.52  Aligned_cols=53  Identities=8%  Similarity=0.012  Sum_probs=44.2

Q ss_pred             HHHHHHHHhcCCCCCC-HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHH
Q 048737           48 ALKFLRVMKGENCFPT-LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLI  102 (274)
Q Consensus        48 a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  102 (274)
                      +.++|..|...|+... ...|......+-..|++.+|..+|+.-++.+  -.|-..
T Consensus        84 p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~--A~P~~r  137 (152)
T 4a1g_A           84 LHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQ--AEPREF  137 (152)
T ss_dssp             HHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--CBSHHH
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CccHHH
Confidence            7899999999887654 5667788888889999999999999999988  677644

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=84.31  E-value=6.3  Score=28.39  Aligned_cols=16  Identities=13%  Similarity=0.300  Sum_probs=7.1

Q ss_pred             ccchHHHHHHHHHHHh
Q 048737            5 EGNVVEANKTFGEMVE   20 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~   20 (274)
                      .|+.+....+++.+.+
T Consensus        19 ~g~~~~v~~Ll~~~~~   34 (241)
T 1k1a_A           19 QGNLPAVHRLVNLFQQ   34 (241)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHh
Confidence            3444444444444433

>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=84.06  E-value=14  Score=29.11  Aligned_cols=97  Identities=6%  Similarity=0.024  Sum_probs=66.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCC--cchHHHHHHHHHhCCCccCHHHHHHHHHHH
Q 048737          174 CATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGR--LSDVRRFAEEMLNRRILIYDVTMQKLKKAF  251 (274)
Q Consensus       174 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~  251 (274)
                      ...++.=|...|+.++|.+.++++..-.+ -...+...+..++-+.++  .+.+..++..+.+.|+-+.......+...+
T Consensus       220 i~~lL~EY~~s~D~~EA~~ci~EL~~p~f-hhe~V~~av~~aLE~~~~~~re~~~~LL~~L~~~glls~~q~~~Gf~~vl  298 (358)
T 3eiq_C          220 IDMLLKEYLLSGDISEAEHCLKELEVPHF-HHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGYERIY  298 (358)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHCCTTC-HHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCCHHHHHHHHHHccCCcc-hHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Confidence            56788889999999999999988864222 123445555566655433  456888888888888877666666666666


Q ss_pred             HhcChh------HHHHHHHHHHHhhh
Q 048737          252 YNESRS------MRDRFDSLERRWKT  271 (274)
Q Consensus       252 ~~~g~~------a~~~~~~~~~~~~~  271 (274)
                      ....+.      |..++.+++.+...
T Consensus       299 ~~ldDl~lDiP~A~~~la~~varai~  324 (358)
T 3eiq_C          299 NEIPDINLDVPHSYSVLERFVEECFQ  324 (358)
T ss_dssp             HHHHHHHHHCTTHHHHHHHHHHHHHH
T ss_pred             HhccHhhcccccHHHHHHHHHHHHHH
Confidence            655544      77777777766543

>2wvi_A Mitotic checkpoint serine/threonine-protein kinase BUB1 beta; tumor suppressor, TPR, apoptosis, cell division, cell cycle, kinetochore, transferase; 1.80A {Homo sapiens} PDB: 3si5_A

Probab=83.49  E-value=3.2  Score=28.51  Aligned_cols=55  Identities=7%  Similarity=0.048  Sum_probs=44.8

Q ss_pred             HHHHHHHHHhcCCCCCC-HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHh
Q 048737           47 EALKFLRVMKGENCFPT-LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIM  103 (274)
Q Consensus        47 ~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  103 (274)
                      .+.++|..|...|+... ...|......+-..|++..|..+|+.-++.+  -.|-...
T Consensus        78 ~p~~if~~L~~~~IG~~~AlfY~~wA~~lE~~~~~~~A~~Iy~~Gi~~~--A~P~~~L  133 (164)
T 2wvi_A           78 EPLDMYSYLHNQGIGVSLAQFYISWAEEYEARENFRKADAIFQEGIQQK--AEPLERL  133 (164)
T ss_dssp             CHHHHHHHHHHTTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--CBSHHHH
T ss_pred             CHHHHHHHHHHCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHH
Confidence            36788999998887654 5667778888889999999999999999988  7776543

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=82.86  E-value=6.5  Score=24.41  Aligned_cols=8  Identities=0%  Similarity=0.152  Sum_probs=3.0

Q ss_pred             cCChhhHH
Q 048737          114 NNDVDNVF  121 (274)
Q Consensus       114 ~~~~~~a~  121 (274)
                      .|++++|.
T Consensus        52 rG~Yq~Al   59 (115)
T 2uwj_G           52 QGRYQEAL   59 (115)
T ss_dssp             TTCHHHHH
T ss_pred             chhHHHHH
Confidence            33333333

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=81.82  E-value=7.2  Score=24.24  Aligned_cols=11  Identities=18%  Similarity=0.296  Sum_probs=4.2

Q ss_pred             hcCChhhHHHH
Q 048737          113 NNNDVDNVFRF  123 (274)
Q Consensus       113 ~~~~~~~a~~~  123 (274)
                      ..|++++|..+
T Consensus        52 NrG~Yq~Al~l   62 (116)
T 2p58_C           52 NRGDYASALQQ   62 (116)
T ss_dssp             HTTCHHHHHHH
T ss_pred             cchhHHHHHHh
Confidence            33334433333

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=81.54  E-value=7.4  Score=24.16  Aligned_cols=49  Identities=10%  Similarity=-0.087  Sum_probs=21.2

Q ss_pred             HHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737           74 LVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus        74 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      +.+.|++++|..+.+..      ..||...|-.|..  .+.|..+++..-+.++..+
T Consensus        49 LmNrG~Yq~Al~l~~~~------c~pdlepw~ALce--~rlGl~s~le~rL~~la~s   97 (115)
T 2uwj_G           49 LANQGRYQEALAFAHGN------PWPALEPWFALCE--WHLGLGAALDRRLAGLGGS   97 (115)
T ss_dssp             HHHTTCHHHHHGGGTTC------CCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHTC
T ss_pred             HHcchhHHHHHHhcCCC------CCchHHHHHHHHH--HhcccHHHHHHHHHHHHhC
Confidence            34445555544433322      2344444444332  3344444444444444444

>2zu6_B Programmed cell death protein 4; protein-protein complex, ATP-binding, helicase, hydrolase, initiation factor, nucleotide-binding; 2.80A {Homo sapiens} PDB: 3eij_A

Probab=81.53  E-value=16  Score=28.04  Aligned_cols=97  Identities=6%  Similarity=0.026  Sum_probs=62.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCC--cchHHHHHHHHHhCCCccCHHHHHHHHHHH
Q 048737          174 CATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGR--LSDVRRFAEEMLNRRILIYDVTMQKLKKAF  251 (274)
Q Consensus       174 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~  251 (274)
                      ...++.-|...|+.++|.+.++++..-.. -...+...+..++-+.++  .+.+..++..+.+.|+-+.......+-..+
T Consensus       169 i~~lL~EY~~~~D~~EA~~ci~EL~~p~f-~~e~V~~ai~~alE~~~~~~re~~~~LL~~L~~~~~ls~~q~~~Gf~~vl  247 (307)
T 2zu6_B          169 IDMLLKEYLLSGDISEAEHCLKELEVPHF-HHELVYEAIIMVLESTGESTFKMILDLLKSLWKSSTITVDQMKRGYERIY  247 (307)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHCCGGG-HHHHHHHHHHHHHTCCSSHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCCCcc-hHHHHHHHHHHHHccCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Confidence            55788888889999999999988853211 112344445555544433  456778888888888776665555555555


Q ss_pred             HhcChh------HHHHHHHHHHHhhh
Q 048737          252 YNESRS------MRDRFDSLERRWKT  271 (274)
Q Consensus       252 ~~~g~~------a~~~~~~~~~~~~~  271 (274)
                      ....+.      |..++..++.+...
T Consensus       248 ~~l~Dl~lDiP~A~~~la~~v~~ai~  273 (307)
T 2zu6_B          248 NEIPDINLDVPHSYSVLERFVEECFQ  273 (307)
T ss_dssp             HHHHHHHHHCTTHHHHHHHHHHHHHH
T ss_pred             HhccHhhcccccHHHHHHHHHHHHHH
Confidence            554443      77777777766543

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=80.68  E-value=8  Score=24.04  Aligned_cols=78  Identities=12%  Similarity=-0.012  Sum_probs=33.8

Q ss_pred             cHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHH
Q 048737           44 QVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRF  123 (274)
Q Consensus        44 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  123 (274)
                      ..++|..+-+.+...+.  ....-.+-+..+.+.|++++|..+.+..      ..||...|-.|..  .+.|..+++..-
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~------c~pdlepw~ALce--~rlGl~s~le~r   91 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKL------AYPDLEPWLALCE--YRLGLGSALESR   91 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTS------CCGGGHHHHHHHH--HHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC------CCchHHHHHHHHH--HhcccHHHHHHH
Confidence            34455555544444332  1111112223344555555555444333      2455555544433  344444555555


Q ss_pred             HHHHHhcC
Q 048737          124 FDQMVFHG  131 (274)
Q Consensus       124 ~~~~~~~~  131 (274)
                      +.++..+|
T Consensus        92 L~~la~sg   99 (116)
T 2p58_C           92 LNRLARSQ   99 (116)
T ss_dssp             HHHHTTCC
T ss_pred             HHHHHhCC
Confidence            54544443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	274
d1i4ja_	110	d.55.1.1 (A:) Ribosomal protein L22 {Thermus aquat	2e-05
d2gycq1	106	d.55.1.1 (Q:5-110) Ribosomal protein L22 {Escheric	2e-05
d2zjrp1	127	d.55.1.1 (P:8-134) Ribosomal protein L22 {Deinococ	0.001

>d1i4ja_ d.55.1.1 (A:) Ribosomal protein L22 {Thermus aquaticus, subsp. Thermus thermophilus [TaxId: 271]} Length = 110

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L22
superfamily: Ribosomal protein L22
family: Ribosomal protein L22
domain: Ribosomal protein L22
species: Thermus aquaticus, subsp. Thermus thermophilus [TaxId: 271]

 Score = 40.6 bits (95), Expect = 2e-05
 Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 1/62 (1%)

Query: 39 LIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH-TVQLWDIMVGIGFNL 97
          LIRGK ++EA   LR       +   K   +A    V  +D+    + +    V  G  +
Sbjct: 23 LIRGKSLEEARNILRYTNKRGAYFVAKVLESAAANAVNNHDALEDRLYVKAAYVDEGPAV 82

Query: 98 MP 99
          +P
Sbjct: 83 LP 84

>d2gycq1 d.55.1.1 (Q:5-110) Ribosomal protein L22 {Escherichia coli [TaxId: 562]} Length = 106

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L22
superfamily: Ribosomal protein L22
family: Ribosomal protein L22
domain: Ribosomal protein L22
species: Escherichia coli [TaxId: 562]

 Score = 40.1 bits (94), Expect = 2e-05
 Identities = 11/41 (26%), Positives = 17/41 (41%)

Query: 39 LIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLND 79
          LIRGK+V +AL  L     +      K   +A+      + 
Sbjct: 19 LIRGKKVSQALDILTYTNKKAAVLVKKVLESAIANAEHNDG 59

>d2zjrp1 d.55.1.1 (P:8-134) Ribosomal protein L22 {Deinococcus radiodurans [TaxId: 1299]} Length = 127

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L22
superfamily: Ribosomal protein L22
family: Ribosomal protein L22
domain: Ribosomal protein L22
species: Deinococcus radiodurans [TaxId: 1299]

 Score = 35.9 bits (83), Expect = 0.001
 Identities = 11/40 (27%), Positives = 18/40 (45%)

Query: 39 LIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLN 78
          +IRGK V +A   LR +      P  K  ++A    +  +
Sbjct: 37 VIRGKSVQDAEDLLRFIPRSASEPVAKVLNSAKANALHND 76

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	274
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.86
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.81
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.78
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.7
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.57
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.56
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.55
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.45
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.43
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.41
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.33
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.31
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.25
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.09
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.08
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.04
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.98
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.98
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.97
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.89
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.88
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.86
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.84
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.81
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.78
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.75
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.68
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.63
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.59
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.5
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.48
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.48
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.48
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.47
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.46
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.44
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.42
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.42
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.4
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.32
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.31
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.3
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.3
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.29
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.24
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.17
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.16
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.09
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.79
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.77
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.75
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.75
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.52
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.45
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.43
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.28
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.9
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.01
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.16
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	94.01
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.05
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.14
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	89.02
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	81.34
d1mzba_	134	Ferric uptake regulation protein, FUR {Pseudomonas	80.2

>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=99.86  E-value=7.4e-19  Score=139.24  Aligned_cols=258  Identities=11%  Similarity=0.072  Sum_probs=183.8

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   82 (274)
                      .+.|++++|++.|+++.+.   .|+++.++..+...+.+.|++++|+..|++..+.. +-+..++..+..++...|++++
T Consensus        10 ~~~G~~~~A~~~~~~~l~~---~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~   85 (388)
T d1w3ba_          10 YQAGDFEAAERHCMQLWRQ---EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccccc
Confidence            4578888888888888776   77778888888888888888888888888887643 3356677777777777777777


Q ss_pred             HHHHHHHHHhcCC-------------------------------------------------------------------
Q 048737           83 TVQLWDIMVGIGF-------------------------------------------------------------------   95 (274)
Q Consensus        83 a~~~~~~~~~~~~-------------------------------------------------------------------   95 (274)
                      |...+....+...                                                                   
T Consensus        86 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (388)
T d1w3ba_          86 AIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ  165 (388)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccC
Confidence            7776666554320                                                                   


Q ss_pred             -------------------------------cc-CccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 048737           96 -------------------------------NL-MPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIF  143 (274)
Q Consensus        96 -------------------------------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  143 (274)
                                                     .. +.+..++..+...+...|++++|...+++..... +.+...+..+.
T Consensus       166 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  244 (388)
T d1w3ba_         166 PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLA  244 (388)
T ss_dssp             TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHH
Confidence                                           00 1123445555566666666666666666665543 23456666677


Q ss_pred             HHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcc
Q 048737          144 ECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLS  223 (274)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  223 (274)
                      ..+.+.|++++|...|++..+.. +-+..++..+...+...|++++|...++...... +.+...+..+...+...|+++
T Consensus       245 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  322 (388)
T d1w3ba_         245 CVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIE  322 (388)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHH
Confidence            77777888888888888777643 2235567777788888888888888888777654 356677788888888889999


Q ss_pred             hHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          224 DVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       224 ~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                      +|...|++..+.. +-+..++..+..++.+.|+.  |.+.++++++.
T Consensus       323 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  368 (388)
T d1w3ba_         323 EAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999988887653 22566788888888888887  88888877653

>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=99.81  E-value=9e-17  Score=127.03  Aligned_cols=241  Identities=11%  Similarity=0.107  Sum_probs=204.0

Q ss_pred             ccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHH
Q 048737            5 EGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTV   84 (274)
Q Consensus         5 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   84 (274)
                      .+....+...+......   .|.+...+..+...+...|++++|...+++..+.. +-+...+..+...+...|++++|.
T Consensus       148 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~  223 (388)
T d1w3ba_         148 LGRLEEAKACYLKAIET---QPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAV  223 (388)
T ss_dssp             TSCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHH
T ss_pred             cchhhhhHHHHHHhhcc---CcchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHH
Confidence            34556666777766555   77788899999999999999999999999988753 345778899999999999999999


Q ss_pred             HHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737           85 QLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      ..+++.....   +.+...+..+..++.+.|++++|...|++..+... -+..+|..+...+...|++++|...++....
T Consensus       224 ~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  299 (388)
T d1w3ba_         224 AAYLRALSLS---PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEKGSVAEAEDCYNTALR  299 (388)
T ss_dssp             HHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHhHHHh---hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHhhhc
Confidence            9999999876   56778888999999999999999999999988532 3578899999999999999999999999887


Q ss_pred             CCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHH
Q 048737          165 NEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTM  244 (274)
Q Consensus       165 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  244 (274)
                      .. +.+...+..+...+...|++++|...+++..+... -+..++..+..+|...|++++|...|++..+.. +-+...|
T Consensus       300 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~  376 (388)
T d1w3ba_         300 LC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFP-EFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAY  376 (388)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC-TTCHHHH
T ss_pred             cC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHH
Confidence            53 45667888999999999999999999999887542 356788889999999999999999999998763 2256788


Q ss_pred             HHHHHHHHhcCh
Q 048737          245 QKLKKAFYNESR  256 (274)
Q Consensus       245 ~~l~~~~~~~g~  256 (274)
                      ..+..++.+.||
T Consensus       377 ~~lg~~~~~~~D  388 (388)
T d1w3ba_         377 SNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHTCC
T ss_pred             HHHHHHHHHcCC
Confidence            888888887764

>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=99.78  E-value=1.8e-16  Score=122.94  Aligned_cols=223  Identities=16%  Similarity=0.061  Sum_probs=182.5

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|++++|+..|+++.+.   .|.++.+|..+..++...|++++|+..|.+..+.. +-+...+..+..++...|+++
T Consensus        29 ~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~  104 (323)
T d1fcha_          29 RLQEGDLPNAVLLFEAAVQQ---DPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQR  104 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHS---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccccc
Confidence            45789999999999999876   89889999999999999999999999999998753 345788888999999999999


Q ss_pred             hHHHHHHHHHhcCCccCccH-H---------------hHHHHHHHHHhcCChhhHHHHHHHHHhcCC-CCChhhHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNL-I---------------MYNAVVGLLCNNNDVDNVFRFFDQMVFHGA-FPDSLTYNMIFE  144 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~-~---------------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~  144 (274)
                      .|.+.++++....    |+. .               .....+..+...+.+++|...|.+..+... .++..++..+..
T Consensus       105 ~A~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~  180 (323)
T d1fcha_         105 QACEILRDWLRYT----PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGV  180 (323)
T ss_dssp             HHHHHHHHHHHTS----TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHH
T ss_pred             ccccchhhHHHhc----cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            9999999998754    211 1               111222334455678889999988776432 235677888889


Q ss_pred             HHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcch
Q 048737          145 CLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSD  224 (274)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  224 (274)
                      .+...|++++|...+++..... +-+...|..+..++...|++++|.+.+++..+... -+..+|..+..+|.+.|++++
T Consensus       181 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~  258 (323)
T d1fcha_         181 LFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQP-GYIRSRYNLGISCINLGAHRE  258 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhh-ccHHHHHHHHHHHHHCCCHHH
Confidence            9999999999999999988753 23467888999999999999999999999988642 356788899999999999999


Q ss_pred             HHHHHHHHHh
Q 048737          225 VRRFAEEMLN  234 (274)
Q Consensus       225 a~~~~~~m~~  234 (274)
                      |+..|++.++
T Consensus       259 A~~~~~~al~  268 (323)
T d1fcha_         259 AVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999876

>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=99.70  E-value=1e-14  Score=112.89  Aligned_cols=230  Identities=10%  Similarity=-0.009  Sum_probs=185.1

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHH
Q 048737           33 ETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLC  112 (274)
Q Consensus        33 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  112 (274)
                      -.....+.+.|++++|+..|+++.+.. +-+..+|..+..++...|+++.|...|+++.+..   +-+...|..+..+|.
T Consensus        23 ~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~la~~~~   98 (323)
T d1fcha_          23 FEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK---PDNQTALMALAVSFT   98 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc---ccccccccccccccc
Confidence            346778899999999999999999864 4468899999999999999999999999999875   556888999999999


Q ss_pred             hcCChhhHHHHHHHHHhcCCCCChhh----------------HHHHHHHHHhcCCHhHHHHHHHHHHhCC-CCCCcchHH
Q 048737          113 NNNDVDNVFRFFDQMVFHGAFPDSLT----------------YNMIFECLIKNKKVHEVENFFHEMIKNE-WQPTPLNCA  175 (274)
Q Consensus       113 ~~~~~~~a~~~~~~~~~~~~~~~~~~----------------~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~  175 (274)
                      ..|++++|.+.+++.....  |+...                ....+..+...+.+.++...+.+..+.. ..++...+.
T Consensus        99 ~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~  176 (323)
T d1fcha_          99 NESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQC  176 (323)
T ss_dssp             HTTCHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHH
T ss_pred             ccccccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccch
Confidence            9999999999999987642  32111                1122233445566788888888877642 223456778


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcC
Q 048737          176 TAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNES  255 (274)
Q Consensus       176 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g  255 (274)
                      .+...+...|++++|...+++...... -+...|..+...|...|++++|.+.|++..+.. +-+...+..+..+|.+.|
T Consensus       177 ~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g  254 (323)
T d1fcha_         177 GLGVLFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLG  254 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHhhhhccccccccccc-ccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCC
Confidence            888999999999999999999987653 456788899999999999999999999998763 235678889999999999


Q ss_pred             hh--HHHHHHHHHHHhh
Q 048737          256 RS--MRDRFDSLERRWK  270 (274)
Q Consensus       256 ~~--a~~~~~~~~~~~~  270 (274)
                      +.  |.+.|+++++...
T Consensus       255 ~~~~A~~~~~~al~l~p  271 (323)
T d1fcha_         255 AHREAVEHFLEALNMQR  271 (323)
T ss_dssp             CHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCC
Confidence            88  9999999887543

>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=99.57  E-value=1.8e-12  Score=99.53  Aligned_cols=222  Identities=11%  Similarity=0.046  Sum_probs=171.3

Q ss_pred             chHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhcc--------------CcHHHHHHHHHHHhcCCCCCCHHHHHHHHH
Q 048737            7 NVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRG--------------KQVDEALKFLRVMKGENCFPTLKFFSNALD   72 (274)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   72 (274)
                      ..+++..+|+++...   .|.++..|..-+..+...              +..++|..+|++..+...+-+...+...+.
T Consensus        31 ~~~Rv~~vyerAl~~---~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~  107 (308)
T d2onda1          31 ITKRVMFAYEQCLLV---LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYAD  107 (308)
T ss_dssp             HHHHHHHHHHHHHHH---HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            356678889988776   565677787766655433              345788999999887644556677888888


Q ss_pred             HHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH-HHhcCC
Q 048737           73 ILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFEC-LIKNKK  151 (274)
Q Consensus        73 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~~~  151 (274)
                      ...+.|+++.|..+|+++++..  ......+|...+....+.|+.+.|.++|+++.+.+. .+...|...... +...|+
T Consensus       108 ~~~~~~~~~~a~~i~~~~l~~~--~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~-~~~~~~~~~a~~e~~~~~~  184 (308)
T d2onda1         108 YEESRMKYEKVHSIYNRLLAIE--DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKD  184 (308)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSS--SSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCC
T ss_pred             HHHhcccHHHHHHHHHHHHHHh--cCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhccC
Confidence            8999999999999999998865  222355789999999999999999999999988643 244444444433 345689


Q ss_pred             HhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCcc--HHHHHHHHHHHHhcCCcchHHHH
Q 048737          152 VHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENG-ILPL--EASANVLLVGLRNLGRLSDVRRF  228 (274)
Q Consensus       152 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~g~~~~a~~~  228 (274)
                      .+.|..+|+.+.+.. +.+...|...++.+...|+++.|+.+|++..... ..|.  ...|...+..-...|+.+.+..+
T Consensus       185 ~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~  263 (308)
T d2onda1         185 KSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKV  263 (308)
T ss_dssp             HHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999998752 3456788999999999999999999999988754 3343  45788888888889999999999


Q ss_pred             HHHHHhC
Q 048737          229 AEEMLNR  235 (274)
Q Consensus       229 ~~~m~~~  235 (274)
                      ++++.+.
T Consensus       264 ~~r~~~~  270 (308)
T d2onda1         264 EKRRFTA  270 (308)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988653

>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=99.56  E-value=3.2e-12  Score=98.29  Aligned_cols=221  Identities=12%  Similarity=0.074  Sum_probs=151.9

Q ss_pred             CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCC-ChhhHHHHHHHHHhcCCccCccHHh
Q 048737           25 NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLN-DSTHTVQLWDIMVGIGFNLMPNLIM  103 (274)
Q Consensus        25 ~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~  103 (274)
                      .|+...+|+.+...+.+.+.+++|+++++++++.+ |-+...|+....++...| ++++|...++.+++..   +-+..+
T Consensus        39 ~p~~~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~---p~~~~a  114 (315)
T d2h6fa1          39 SDKFRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ---PKNYQV  114 (315)
T ss_dssp             CHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC---TTCHHH
T ss_pred             CHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH---HhhhhH
Confidence            45556677777777888888888888888888753 345667777777777765 4788888888888765   556778


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHh
Q 048737          104 YNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLD  183 (274)
Q Consensus       104 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  183 (274)
                      |+.+..++.+.|++++|++.++++.+... .+...|..+...+...|++++|+..++++++.. +.+...|+.+...+.+
T Consensus       115 ~~~~~~~~~~l~~~~eAl~~~~kal~~dp-~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~  192 (315)
T d2h6fa1         115 WHHRRVLVEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISN  192 (315)
T ss_dssp             HHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHhhccHHHHHHHHhhhhhhhh-cchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHH
Confidence            88888888888888888888888877532 357788888888888888888888888887753 2345567666666655


Q ss_pred             cCC------hHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCc-cCHHHHHHHHHHHHh
Q 048737          184 ADE------PEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRIL-IYDVTMQKLKKAFYN  253 (274)
Q Consensus       184 ~~~------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~l~~~~~~  253 (274)
                      .+.      +++|...+.+..+... .+...|+.+...+.. ...+++.+.++...+.... .+...+..+...+..
T Consensus       193 ~~~~~~~~~~~~ai~~~~~al~~~P-~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         193 TTGYNDRAVLEREVQYTLEMIKLVP-HNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             TTCSCSHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             ccccchhhhhHHhHHHHHHHHHhCC-CchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence            554      4677777777776542 355666665554433 4456777777766554322 234455555665544

>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=99.55  E-value=3.5e-12  Score=98.12  Aligned_cols=219  Identities=11%  Similarity=0.096  Sum_probs=171.1

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccC-cHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGK-QVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      .+.+++++|+++++++.+.   .|.+..+|+....++...| ++++|+..++...+.. +-+..+|..+...+.+.|+++
T Consensus        54 ~~~e~~~~Al~~~~~ai~l---nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~~~l~~~~  129 (315)
T d2h6fa1          54 QRDERSERAFKLTRDAIEL---NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLRDPS  129 (315)
T ss_dssp             HHTCCCHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCT
T ss_pred             HhCCchHHHHHHHHHHHHH---CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHHHhhccHH
Confidence            4568899999999999776   9999999999999988876 5899999999998753 456889999999999999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC------HhHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKK------VHEV  155 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~------~~~a  155 (274)
                      +|...++++++..   +.+..+|..+..++.+.|++++|++.++++.+..+ -+...|+.+...+.+.+.      +++|
T Consensus       130 eAl~~~~kal~~d---p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p-~n~~a~~~r~~~l~~~~~~~~~~~~~~a  205 (315)
T d2h6fa1         130 QELEFIADILNQD---AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDRAVLERE  205 (315)
T ss_dssp             THHHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSHHHHHHH
T ss_pred             HHHHHHhhhhhhh---hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC-ccHHHHHHHHHHHHHccccchhhhhHHh
Confidence            9999999999976   67799999999999999999999999999998643 367788888777776665      5788


Q ss_pred             HHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-ccHHHHHHHHHHHHhc--CCcchHHHHHHH
Q 048737          156 ENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGIL-PLEASANVLLVGLRNL--GRLSDVRRFAEE  231 (274)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~--g~~~~a~~~~~~  231 (274)
                      +..+.+.++.. +.+...|..+...+. ....+++...++...+.... .+...+..+...|...  ++.+.+...+++
T Consensus       206 i~~~~~al~~~-P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~k  282 (315)
T d2h6fa1         206 VQYTLEMIKLV-PHNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNK  282 (315)
T ss_dssp             HHHHHHHHHHS-TTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHH
T ss_pred             HHHHHHHHHhC-CCchHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            88888888753 334566666665544 44567888888888764432 2345566666666443  454555544444

>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=99.45  E-value=5.7e-11  Score=90.96  Aligned_cols=221  Identities=10%  Similarity=0.055  Sum_probs=166.4

Q ss_pred             HHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh--------------CCChhhHHHHHHHHHhcCCccCccHHhHHHHHHH
Q 048737           45 VDEALKFLRVMKGENCFPTLKFFSNALDILVK--------------LNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGL  110 (274)
Q Consensus        45 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~  110 (274)
                      .+++..+|+++... ++-++..|..-+..+..              .+..+.|..+|++.++..  .+.+...|...+..
T Consensus        32 ~~Rv~~vyerAl~~-~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~--~p~~~~l~~~ya~~  108 (308)
T d2onda1          32 TKRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTL--LKKNMLLYFAYADY  108 (308)
T ss_dssp             HHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTT--TTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHc--CCCCHHHHHHHHHH
Confidence            35566777777764 34456666555443322              234578899999998765  45567788999999


Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHH-HHhcCChHH
Q 048737          111 LCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITM-LLDADEPEF  189 (274)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~  189 (274)
                      ..+.|+++.|..+|+++.+.........|...+..+.+.|+++.|.++|.++++.+ +.+...|...... +...|+.+.
T Consensus       109 ~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~  187 (308)
T d2onda1         109 EESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             HHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhccCHHH
Confidence            99999999999999999886433335578999999999999999999999998764 2344445444433 344689999


Q ss_pred             HHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCC-CccC--HHHHHHHHHHHHhcChh--HHHHHHH
Q 048737          190 AIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRR-ILIY--DVTMQKLKKAFYNESRS--MRDRFDS  264 (274)
Q Consensus       190 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~-~~~~--~~~~~~l~~~~~~~g~~--a~~~~~~  264 (274)
                      |..+|+.+.+.. +.+...|..++..+...|+++.|..+|++..+.. ..|.  ...|...+.--...|+.  ++.+.++
T Consensus       188 a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r  266 (308)
T d2onda1         188 AFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999999863 3567889999999999999999999999988764 3443  35677777777778888  8888887


Q ss_pred             HHHHhh
Q 048737          265 LERRWK  270 (274)
Q Consensus       265 ~~~~~~  270 (274)
                      +.+..+
T Consensus       267 ~~~~~~  272 (308)
T d2onda1         267 RFTAFR  272 (308)
T ss_dssp             HHHHTT
T ss_pred             HHHHCc
Confidence            776654

>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=99.43  E-value=5.6e-12  Score=94.02  Aligned_cols=223  Identities=7%  Similarity=-0.114  Sum_probs=154.7

Q ss_pred             cccchHHHHHHHHHHHhccCC-CCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhh
Q 048737            4 KEGNVVEANKTFGEMVERFEW-NPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~-~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   82 (274)
                      ..++.+.|+.-++++..+... .|....+|..+...|.+.|++++|+..|++.++.. +-++.+|..+..++.+.|++++
T Consensus        11 ~~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~   89 (259)
T d1xnfa_          11 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   89 (259)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHH
Confidence            455677788888887764222 23345678888999999999999999999999853 4568899999999999999999


Q ss_pred             HHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHH
Q 048737           83 TVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEM  162 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (274)
                      |...|+++.+..   +.+..++..+..+|...|++++|...|++..+... .+......+..++.+.+..+....+....
T Consensus        90 A~~~~~~al~~~---p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (259)
T d1xnfa_          90 AYEAFDSVLELD---PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHF  165 (259)
T ss_dssp             HHHHHHHHHHHC---TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             hhhhhhHHHHHH---hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHh
Confidence            999999999976   55677899999999999999999999999987632 24444444445555666555555555555


Q ss_pred             HhCCCCCCcchHHHHHHHHHhcCCh----HHHHHHHHHHHHCCCCcc-HHHHHHHHHHHHhcCCcchHHHHHHHHHhCC
Q 048737          163 IKNEWQPTPLNCATAITMLLDADEP----EFAIEIWNYILENGILPL-EASANVLLVGLRNLGRLSDVRRFAEEMLNRR  236 (274)
Q Consensus       163 ~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  236 (274)
                      ....  ++...++ ++..+......    +.+...+.....  ..|+ ..+|..+...|...|++++|.+.|+..+..+
T Consensus       166 ~~~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         166 EKSD--KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTS--LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             HHSC--CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHH--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             hccc--hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhh--cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            5432  2222222 22222222111    112221111111  1122 3467778889999999999999999998764

>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=99.41  E-value=1.8e-10  Score=89.23  Aligned_cols=265  Identities=10%  Similarity=0.051  Sum_probs=190.0

Q ss_pred             ccccchHHHHHHHHHHHhccCCCCch-----HhHHHHHHHHHhccCcHHHHHHHHHHHhcCC-CCCC----HHHHHHHHH
Q 048737            3 EKEGNVVEANKTFGEMVERFEWNPEH-----VLAYETFLITLIRGKQVDEALKFLRVMKGEN-CFPT----LKFFSNALD   72 (274)
Q Consensus         3 ~~~g~~~~a~~~~~~~~~~~~~~p~~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~----~~~~~~l~~   72 (274)
                      ...|++++|+++|++..+.   .|++     ..++..+...+...|++++|+..|++..+.. ..++    ...+..+..
T Consensus        23 ~~~g~~~~A~~~~~~aL~~---~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   99 (366)
T d1hz4a_          23 INDGNPDEAERLAKLALEE---LPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE   99 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHT---CCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHhh---CcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHH
Confidence            4679999999999998765   4433     3467788899999999999999999886521 1122    235566777


Q ss_pred             HHHhCCChhhHHHHHHHHHhc----CCccCc-cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcC----CCCChhhHHHHH
Q 048737           73 ILVKLNDSTHTVQLWDIMVGI----GFNLMP-NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHG----AFPDSLTYNMIF  143 (274)
Q Consensus        73 ~~~~~~~~~~a~~~~~~~~~~----~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~li  143 (274)
                      .+...|++..+...+......    +....+ ....+..+...+...|+++.+...+.......    ......++....
T Consensus       100 ~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (366)
T d1hz4a_         100 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  179 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHH
Confidence            888999999999999887642    100112 23456667788999999999999998876542    222345566667


Q ss_pred             HHHHhcCCHhHHHHHHHHHHhC--CCCCC----cchHHHHHHHHHhcCChHHHHHHHHHHHHCCCC---ccHHHHHHHHH
Q 048737          144 ECLIKNKKVHEVENFFHEMIKN--EWQPT----PLNCATAITMLLDADEPEFAIEIWNYILENGIL---PLEASANVLLV  214 (274)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~  214 (274)
                      ..+...+++..+...+......  .....    ...+..+...+...|+++.|...+.........   .....+..+..
T Consensus       180 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~  259 (366)
T d1hz4a_         180 QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIAR  259 (366)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHH
Confidence            7788889999998888776542  11111    124556677788899999999999887654322   22345666788


Q ss_pred             HHHhcCCcchHHHHHHHHHh----CCCccC-HHHHHHHHHHHHhcChh--HHHHHHHHHHHhh
Q 048737          215 GLRNLGRLSDVRRFAEEMLN----RRILIY-DVTMQKLKKAFYNESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       215 ~~~~~g~~~~a~~~~~~m~~----~~~~~~-~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~  270 (274)
                      ++...|++++|...+++...    .+..|+ ...+..+...+...|+.  |.+.+++.++...
T Consensus       260 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~  322 (366)
T d1hz4a_         260 AQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLAN  322 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhh
Confidence            89999999999999998764    344443 35677788889999988  8888888776543

>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=99.33  E-value=1.5e-11  Score=91.65  Aligned_cols=188  Identities=9%  Similarity=-0.045  Sum_probs=133.5

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|++++|++.|++..+.   .|+++.+|+.+..++.+.|++++|++.|++..+.. +-+..++..+..++...|+++
T Consensus        47 y~~~g~~~~A~~~~~~al~l---~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~  122 (259)
T d1xnfa_          47 YDSLGLRALARNDFSQALAI---RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDK  122 (259)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHH
T ss_pred             HHHCCCHHHHHHHHHHhhcc---CCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHHHHhhHH
Confidence            56789999999999999775   89999999999999999999999999999999853 345778889999999999999


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH----hHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKV----HEVEN  157 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~----~~a~~  157 (274)
                      .|...|+...+..   +.+......+..++.+.+..+.+..+.......  .++...++ ++..+......    +.+..
T Consensus       123 ~A~~~~~~al~~~---p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  196 (259)
T d1xnfa_         123 LAQDDLLAFYQDD---PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS--DKEQWGWN-IVEFYLGNISEQTLMERLKA  196 (259)
T ss_dssp             HHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS--CCCSTHHH-HHHHHTTSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhc---cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc--chhhhhhh-HHHHHHHHHHHHHHHHHHHH
Confidence            9999999999875   445555555555666666666666666665553  22222222 22222222111    11111


Q ss_pred             HHHHHHhCCCCCC-cchHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 048737          158 FFHEMIKNEWQPT-PLNCATAITMLLDADEPEFAIEIWNYILENG  201 (274)
Q Consensus       158 ~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  201 (274)
                      .+.....  ..|+ ..+|..+...+...|++++|...|++..+..
T Consensus       197 ~~~~~~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         197 DATDNTS--LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             HCCSHHH--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHhhh--cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            1111111  1122 2456778899999999999999999998755

>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=99.31  E-value=4.6e-12  Score=98.30  Aligned_cols=232  Identities=8%  Similarity=-0.021  Sum_probs=177.5

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccC--cHHHHHHHHHHHhcCCCCCCHHHHH-HHHHHHHhCCCh
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGK--QVDEALKFLRVMKGENCFPTLKFFS-NALDILVKLNDS   80 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~   80 (274)
                      ..|++++|+..|+...+.   .|++...|..+..++...+  ++++|+..+.++.+.. +++...+. .....+...+.+
T Consensus        85 ~~~~~~~al~~~~~~l~~---~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~  160 (334)
T d1dcea1          85 SAALVKAELGFLESCLRV---NPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAP  160 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCH
T ss_pred             HHHHHHHHHHHHHHHHHh---CCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhcccc
Confidence            356788999999999776   8889999998888877665  4899999999998853 34555554 445677778999


Q ss_pred             hhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHH
Q 048737           81 THTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFH  160 (274)
Q Consensus        81 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (274)
                      +.|...++.+++..   +-+...|+.+..++.+.|++++|...+++..+.  .|+   .......+...+..+++...+.
T Consensus       161 ~~Al~~~~~~i~~~---p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~  232 (334)
T d1dcea1         161 AEELAFTDSLITRN---FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYH  232 (334)
T ss_dssp             HHHHHHHHTTTTTT---CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHH
T ss_pred             HHHHHHHHHHHHcC---CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHH
Confidence            99999999999986   667889999999999999999987777655542  122   1223344566677888888888


Q ss_pred             HHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccC
Q 048737          161 EMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIY  240 (274)
Q Consensus       161 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  240 (274)
                      ...... +++...+..+...+...++.++|...+.+..+..+ -+..++..+...|...|++++|.+.+++..+.  .|+
T Consensus       233 ~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~  308 (334)
T d1dcea1         233 RWLLGR-AEPLFRCELSVEKSTVLQSELESCKELQELEPENK-WCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPM  308 (334)
T ss_dssp             HHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCH-HHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGG
T ss_pred             HHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCc-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--Ccc
Confidence            887754 45566777778888888999999999988877552 45677888889999999999999999999886  454


Q ss_pred             HH-HHHHHHHHH
Q 048737          241 DV-TMQKLKKAF  251 (274)
Q Consensus       241 ~~-~~~~l~~~~  251 (274)
                      .. -|..|...+
T Consensus       309 ~~~y~~~L~~~~  320 (334)
T d1dcea1         309 RAAYLDDLRSKF  320 (334)
T ss_dssp             GHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHH
Confidence            33 344443333

>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=99.25  E-value=4.3e-11  Score=92.73  Aligned_cols=246  Identities=10%  Similarity=-0.017  Sum_probs=178.7

Q ss_pred             hHHHHHHHHHHHhccCCCCchHhHHHHHHHHHh----------ccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhC
Q 048737            8 VVEANKTFGEMVERFEWNPEHVLAYETFLITLI----------RGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKL   77 (274)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~----------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   77 (274)
                      .++|+++++++.+.   .|++..+|+..-..+.          ..|++++|+.+++...+.. +-+...|..+..++...
T Consensus        45 ~~~al~~~~~~l~~---~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~  120 (334)
T d1dcea1          45 DESVLELTSQILGA---NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (334)
T ss_dssp             SHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             cHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHh
Confidence            47899999998776   8878777765443322          3355788999999988753 44566777776666665


Q ss_pred             C--ChhhHHHHHHHHHhcCCccCccHHhHH-HHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhH
Q 048737           78 N--DSTHTVQLWDIMVGIGFNLMPNLIMYN-AVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHE  154 (274)
Q Consensus        78 ~--~~~~a~~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  154 (274)
                      +  +++.|...++.+.+..   +++...+. .....+...+.+++|+..+++.....+ -+...|+.+...+...|++++
T Consensus       121 ~~~~~~~a~~~~~~al~~~---~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~~  196 (334)
T d1dcea1         121 PEPNWARELELCARFLEAD---ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPD  196 (334)
T ss_dssp             SSCCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCC
T ss_pred             ccccHHHHHHHHHHHHhhC---chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHHH
Confidence            5  4789999999998875   45566654 444677788999999999999888643 367888889999999999887


Q ss_pred             HHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHh
Q 048737          155 VENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLN  234 (274)
Q Consensus       155 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  234 (274)
                      |...+....+.  .|+   ...+...+...+..+.+...+........ ++...+..+...+...|+.++|...+.+..+
T Consensus       197 A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  270 (334)
T d1dcea1         197 SGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRA-EPLFRCELSVEKSTVLQSELESCKELQELEP  270 (334)
T ss_dssp             SSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCC-CCSSSCCCCHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCc-chhhHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            76555443331  111   12234445666777888888888777553 4555666777788888999999999998887


Q ss_pred             CCCccCHHHHHHHHHHHHhcChh--HHHHHHHHHHH
Q 048737          235 RRILIYDVTMQKLKKAFYNESRS--MRDRFDSLERR  268 (274)
Q Consensus       235 ~~~~~~~~~~~~l~~~~~~~g~~--a~~~~~~~~~~  268 (274)
                      .+. -+...+..+..++.+.|+.  |.+.++++++.
T Consensus       271 ~~p-~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         271 ENK-WCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             TCH-HHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             hCc-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            642 2557778888899999988  99999888764

>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=99.09  E-value=9.4e-08  Score=73.42  Aligned_cols=242  Identities=11%  Similarity=-0.016  Sum_probs=171.7

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC-----HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCc---cCcc
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT-----LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFN---LMPN  100 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~  100 (274)
                      +.........+...|++++|++++++..+.. +.+     ...+..+..++...|++++|...|++..+....   ....
T Consensus        12 ae~~~lrA~~~~~~g~~~~A~~~~~~aL~~~-~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   90 (366)
T d1hz4a_          12 AEFNALRAQVAINDGNPDEAERLAKLALEEL-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYA   90 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHH
Confidence            3455556777889999999999999988753 222     245677788999999999999999998764210   1112


Q ss_pred             HHhHHHHHHHHHhcCChhhHHHHHHHHHhc----CCCCC---hhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCC----CC
Q 048737          101 LIMYNAVVGLLCNNNDVDNVFRFFDQMVFH----GAFPD---SLTYNMIFECLIKNKKVHEVENFFHEMIKNEW----QP  169 (274)
Q Consensus       101 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~----~~  169 (274)
                      ...+..+...+...|++..+...+.+....    +..+.   ...+..+...+...|+++.+...+........    ..
T Consensus        91 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  170 (366)
T d1hz4a_          91 LWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQ  170 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhh
Confidence            445677778899999999999999876532    11111   23556677888999999999999988876421    11


Q ss_pred             CcchHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCc--cHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCC---ccC
Q 048737          170 TPLNCATAITMLLDADEPEFAIEIWNYILEN----GILP--LEASANVLLVGLRNLGRLSDVRRFAEEMLNRRI---LIY  240 (274)
Q Consensus       170 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~---~~~  240 (274)
                      ....+......+...+++..+...+.+....    +..+  ....+..+...+...|++++|...++...+...   ...
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  250 (366)
T d1hz4a_         171 QLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFL  250 (366)
T ss_dssp             GHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGG
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHH
Confidence            2234556667778889999998888776542    2111  123456667778899999999999998765432   223


Q ss_pred             HHHHHHHHHHHHhcChh--HHHHHHHHHHHhhh
Q 048737          241 DVTMQKLKKAFYNESRS--MRDRFDSLERRWKT  271 (274)
Q Consensus       241 ~~~~~~l~~~~~~~g~~--a~~~~~~~~~~~~~  271 (274)
                      ...+..+..++...|+.  |...++.++...+.
T Consensus       251 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  283 (366)
T d1hz4a_         251 QGQWRNIARAQILLGEFEPAEIVLEELNENARS  283 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhh
Confidence            45566678889999987  88888888765543

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.08  E-value=1.4e-08  Score=71.67  Aligned_cols=127  Identities=10%  Similarity=-0.003  Sum_probs=96.3

Q ss_pred             hHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHH
Q 048737           30 LAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVG  109 (274)
Q Consensus        30 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~  109 (274)
                      ..|+. ...+...|+++.|++.|.++    .+|++.+|..+..++...|++++|...|++.++..   +.+...|..+..
T Consensus         7 ~l~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld---p~~~~a~~~~g~   78 (192)
T d1hh8a_           7 SLWNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD---KHLAVAYFQRGM   78 (192)
T ss_dssp             HHHHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHH
T ss_pred             HHHHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh---hhhhhhHHHHHH
Confidence            34553 56678889999999998764    35678888889999999999999999999999876   567888999999


Q ss_pred             HHHhcCChhhHHHHHHHHHhcCCCCC----------------hhhHHHHHHHHHhcCCHhHHHHHHHHHHhC
Q 048737          110 LLCNNNDVDNVFRFFDQMVFHGAFPD----------------SLTYNMIFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus       110 ~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                      +|.+.|++++|.+.|++..... +++                ..++..+..++.+.|++++|.+.+....+.
T Consensus        79 ~~~~~g~~~~A~~~~~kAl~~~-~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          79 LYYQTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhccHHHHHHHHHHHHHhC-ccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            9999999999999998876531 111                133445566667777777777777766654

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.04  E-value=2.5e-09  Score=69.22  Aligned_cols=92  Identities=14%  Similarity=-0.004  Sum_probs=59.6

Q ss_pred             HHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhc
Q 048737           35 FLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNN  114 (274)
Q Consensus        35 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  114 (274)
                      -...+.+.|++++|+..|++.++.. +-+...|..+..++...|++++|...++..++.+   +.+...|..+..++...
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~~g~~~~~~   84 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK---PDWGKGYSRKAAALEFL   84 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc---cchhhHHHHHHHHHHHc
Confidence            4555666666677776666666542 3455566666666666677777777776666654   45566666666666777


Q ss_pred             CChhhHHHHHHHHHhc
Q 048737          115 NDVDNVFRFFDQMVFH  130 (274)
Q Consensus       115 ~~~~~a~~~~~~~~~~  130 (274)
                      |++++|+..|++..+.
T Consensus        85 ~~~~~A~~~~~~a~~~  100 (117)
T d1elwa_          85 NRFEEAKRTYEEGLKH  100 (117)
T ss_dssp             TCHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHHh
Confidence            7777777777666653

>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=98.98  E-value=9.9e-08  Score=67.22  Aligned_cols=126  Identities=9%  Similarity=-0.051  Sum_probs=92.3

Q ss_pred             HHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC
Q 048737           71 LDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNK  150 (274)
Q Consensus        71 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  150 (274)
                      ...+...|+++.|.+.|+++      .+|+..+|..+..+|...|++++|++.|++..+... -+...|..+..+|.+.|
T Consensus        12 g~~~~~~~d~~~Al~~~~~i------~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp-~~~~a~~~~g~~~~~~g   84 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV------QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLYYQTE   84 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS------SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHhc------CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhh-hhhhhHHHHHHHHHhhc
Confidence            44566788899998888754      256777888888889999999999999998887642 35778888888888999


Q ss_pred             CHhHHHHHHHHHHhCCCCCC----------------cchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCc
Q 048737          151 KVHEVENFFHEMIKNEWQPT----------------PLNCATAITMLLDADEPEFAIEIWNYILENGILP  204 (274)
Q Consensus       151 ~~~~a~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  204 (274)
                      ++++|...|++.+... +++                ..++..+..++.+.|++++|.+.+....+....|
T Consensus        85 ~~~~A~~~~~kAl~~~-~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          85 KYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             CHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             cHHHHHHHHHHHHHhC-ccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            9999988888876531 111                1234456667777778888777777766655444

>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=98.98  E-value=2.6e-08  Score=75.16  Aligned_cols=205  Identities=9%  Similarity=-0.051  Sum_probs=133.1

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcC----CCCC-CHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCC---ccCcc
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGE----NCFP-TLKFFSNALDILVKLNDSTHTVQLWDIMVGIGF---NLMPN  100 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~  100 (274)
                      ...|......|...|++++|.+.|.+..+.    +-++ -..+|..+..+|.+.|++++|...+++..+...   +....
T Consensus        37 a~~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~  116 (290)
T d1qqea_          37 ADLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRG  116 (290)
T ss_dssp             HHHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhH
Confidence            335777888888889999999999887652    1111 135788888899999999999999888765320   01122


Q ss_pred             HHhHHHHHHHHHh-cCChhhHHHHHHHHHhc----CCCC-ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCc---
Q 048737          101 LIMYNAVVGLLCN-NNDVDNVFRFFDQMVFH----GAFP-DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTP---  171 (274)
Q Consensus       101 ~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~---  171 (274)
                      ..++..+...|.. .|++++|.+.|++..+.    +.++ -..++..+...+...|++++|...|++..........   
T Consensus       117 ~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~  196 (290)
T d1qqea_         117 ANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQW  196 (290)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGG
T ss_pred             HHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhh
Confidence            4556666666644 68999999999876542    1111 1355777888899999999999999988765321111   


Q ss_pred             ---chHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-cc---HHHHHHHHHHHHhc--CCcchHHHHHHHHH
Q 048737          172 ---LNCATAITMLLDADEPEFAIEIWNYILENGIL-PL---EASANVLLVGLRNL--GRLSDVRRFAEEML  233 (274)
Q Consensus       172 ---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~~l~~~~~~~--g~~~~a~~~~~~m~  233 (274)
                         ..+...+.++...|+++.|...+++..+.... ++   ......++.++...  +.+++|..-|+.+.
T Consensus       197 ~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         197 SLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             hHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence               12334455667789999999998888765321 11   22345556655442  34666666665443

>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=98.97  E-value=6.6e-09  Score=71.12  Aligned_cols=122  Identities=12%  Similarity=0.072  Sum_probs=87.5

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHH
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGL  110 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~  110 (274)
                      .+......|.+.|++++|+..|++..+.. +-+...|..+..++...|+++.|...|+++++..   +.+..+|..+..+
T Consensus        12 ~l~~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~---p~~~~a~~~~g~~   87 (159)
T d1a17a_          12 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD---KKYIKGYYRRAAS   87 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc---ccchHHHHHHHHH
Confidence            34556667788888888888888888754 4567778888888888888888888888888865   5566788888888


Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCCC-hhhHHHHHHH--HHhcCCHhHHHHH
Q 048737          111 LCNNNDVDNVFRFFDQMVFHGAFPD-SLTYNMIFEC--LIKNKKVHEVENF  158 (274)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~--~~~~~~~~~a~~~  158 (274)
                      +...|++++|...+++.....  |+ ...+..+..+  ....+.++++...
T Consensus        88 ~~~~g~~~eA~~~~~~a~~~~--p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          88 NMALGKFRAALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            888888888888888887753  43 4444443333  2333445555544

>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=98.89  E-value=3.2e-08  Score=74.67  Aligned_cols=197  Identities=8%  Similarity=0.001  Sum_probs=131.7

Q ss_pred             cccccchHHHHHHHHHHHhc---cCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcC----CC-CCCHHHHHHHHHH
Q 048737            2 WEKEGNVVEANKTFGEMVER---FEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGE----NC-FPTLKFFSNALDI   73 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~---~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~   73 (274)
                      |...|++++|.+.|.+..+-   .+-.|+...+|..+..+|.+.|++++|++.+++..+.    |. .....++..+...
T Consensus        47 y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~  126 (290)
T d1qqea_          47 YRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEI  126 (290)
T ss_dssp             HHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHh
Confidence            44678899999999887552   1223334568999999999999999999999987652    11 1113455666666


Q ss_pred             HHh-CCChhhHHHHHHHHHhcCCc--cCc-cHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCCh------hhHHHHH
Q 048737           74 LVK-LNDSTHTVQLWDIMVGIGFN--LMP-NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDS------LTYNMIF  143 (274)
Q Consensus        74 ~~~-~~~~~~a~~~~~~~~~~~~~--~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~li  143 (274)
                      |.. .|+++.|...|++..+....  .++ ...++..+...+...|++++|...|++..........      ..+...+
T Consensus       127 ~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (290)
T d1qqea_         127 LENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKG  206 (290)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHH
Confidence            644 69999999999988753100  111 2456888999999999999999999998775322111      2234555


Q ss_pred             HHHHhcCCHhHHHHHHHHHHhCCCC-CCc---chHHHHHHHHHh--cCChHHHHHHHHHHH
Q 048737          144 ECLIKNKKVHEVENFFHEMIKNEWQ-PTP---LNCATAITMLLD--ADEPEFAIEIWNYIL  198 (274)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~~~~~-~~~---~~~~~l~~~~~~--~~~~~~a~~~~~~~~  198 (274)
                      ..+...|+++.|...+++..+.... ++.   .....++.++..  .+.+++|...|+.+.
T Consensus       207 ~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         207 LCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            5677889999999999998765311 121   234455565544  234666766665433

>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=98.88  E-value=5.7e-08  Score=62.58  Aligned_cols=92  Identities=11%  Similarity=0.091  Sum_probs=63.3

Q ss_pred             HHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 048737           70 ALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKN  149 (274)
Q Consensus        70 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  149 (274)
                      -...+.+.|++++|...|+++++..   |.+...|..+..+|...|++++|+..+.+..+... .+...|..+..++...
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~---p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~g~~~~~~   84 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD---PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAALEFL   84 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC---CcchhhhhcccccccccccccccchhhhhHHHhcc-chhhHHHHHHHHHHHc
Confidence            3455667777777777777777664   55666677777777777777777777777766532 3566677777777777


Q ss_pred             CCHhHHHHHHHHHHhC
Q 048737          150 KKVHEVENFFHEMIKN  165 (274)
Q Consensus       150 ~~~~~a~~~~~~~~~~  165 (274)
                      |++++|+..|++..+.
T Consensus        85 ~~~~~A~~~~~~a~~~  100 (117)
T d1elwa_          85 NRFEEAKRTYEEGLKH  100 (117)
T ss_dssp             TCHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHHh
Confidence            7777777777777653

>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=98.86  E-value=4e-08  Score=69.65  Aligned_cols=97  Identities=5%  Similarity=-0.036  Sum_probs=49.1

Q ss_pred             CCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC-ChhhHH
Q 048737           62 PTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP-DSLTYN  140 (274)
Q Consensus        62 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~  140 (274)
                      |+...+......+.+.|+++.|...|++++...   |.+...|+.+..+|.+.|++++|+..|++..+.  .| +..+|.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~---p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~   76 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN---PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHF   76 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHH
Confidence            344444444555555555555555555555443   334445555555555555555555555555442  22 244455


Q ss_pred             HHHHHHHhcCCHhHHHHHHHHHH
Q 048737          141 MIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus       141 ~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                      .+..+|...|++++|+..|++..
T Consensus        77 ~lg~~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          77 FLGQCQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHH
Confidence            55555555555555555555444

>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=98.84  E-value=1.1e-07  Score=64.90  Aligned_cols=120  Identities=10%  Similarity=0.004  Sum_probs=87.4

Q ss_pred             HHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 048737           68 SNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLI  147 (274)
Q Consensus        68 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  147 (274)
                      ......|.+.|++++|...|+++++..   +.+...|..+..+|...|++++|...|++.++.. +-+..+|..+..+|.
T Consensus        14 ~~~gn~~~~~~~y~~A~~~~~~al~~~---p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~   89 (159)
T d1a17a_          14 KTQANDYFKAKDYENAIKFYSQAIELN---PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   89 (159)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHhhhccccc---hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHH
Confidence            334567778889999999999888875   5677888888888888899999999998888753 235678888888888


Q ss_pred             hcCCHhHHHHHHHHHHhCCCCCC-cchHHHHHHH--HHhcCChHHHHHH
Q 048737          148 KNKKVHEVENFFHEMIKNEWQPT-PLNCATAITM--LLDADEPEFAIEI  193 (274)
Q Consensus       148 ~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~--~~~~~~~~~a~~~  193 (274)
                      ..|++++|...+++....  .|+ ...+..+..+  ....+.++++...
T Consensus        90 ~~g~~~eA~~~~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          90 ALGKFRAALRDYETVVKV--KPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            899999998888888874  344 3333333333  2334455556544

>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=98.81  E-value=4.5e-08  Score=69.38  Aligned_cols=99  Identities=8%  Similarity=-0.025  Sum_probs=83.8

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHH
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      ++..+......+.+.|++++|+..|.+.++.. +-++..|..+..+|.+.|+++.|...|+.+++..   |-+..+|..+
T Consensus         3 ~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~---p~~~~a~~~l   78 (201)
T d2c2la1           3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD---GQSVKAHFFL   78 (201)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC---TTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC---CCcHHHHHHH
Confidence            66677778889999999999999999888753 5567888889999999999999999999998865   4467788889


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhc
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      ..+|.+.|++++|+..|++..+.
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            99999999999999999887653

>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=98.78  E-value=4.6e-08  Score=63.39  Aligned_cols=99  Identities=9%  Similarity=0.077  Sum_probs=63.2

Q ss_pred             HHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCC---hhhHHHHHHHHHhcCCCCC-hhhHHHHH
Q 048737           68 SNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNND---VDNVFRFFDQMVFHGAFPD-SLTYNMIF  143 (274)
Q Consensus        68 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~li  143 (274)
                      ..+++.+...+++++|++.|++....+   +.+..++..+..++.+.++   +++|+.+|+++...+..|+ ..+|..+.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~---p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg   79 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG---SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLA   79 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS---CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC---CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHH
Confidence            345666667777777777777777765   5566677777777766443   3457777777665443333 23566667


Q ss_pred             HHHHhcCCHhHHHHHHHHHHhCCCCCCc
Q 048737          144 ECLIKNKKVHEVENFFHEMIKNEWQPTP  171 (274)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~  171 (274)
                      .+|.+.|++++|.+.|+++++.  .|+.
T Consensus        80 ~~y~~~g~~~~A~~~~~~aL~~--~P~~  105 (122)
T d1nzna_          80 VGNYRLKEYEKALKYVRGLLQT--EPQN  105 (122)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHhhhHHHHHHHHHHHHh--CcCC
Confidence            7777777777777777777663  3543

>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=98.75  E-value=2.1e-08  Score=64.19  Aligned_cols=93  Identities=4%  Similarity=-0.051  Sum_probs=81.2

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHH
Q 048737           32 YETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLL  111 (274)
Q Consensus        32 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~  111 (274)
                      +..+...+.+.|++++|+..|++..+.. +-+...|..+..++.+.|++++|...|++.++..   |.+..+|..+..+|
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~---p~~~~a~~~la~~y   94 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD---PKDIAVHAALAVSH   94 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc---cccccchHHHHHHH
Confidence            3446778899999999999999998854 3468899999999999999999999999999976   66788999999999


Q ss_pred             HhcCChhhHHHHHHHHH
Q 048737          112 CNNNDVDNVFRFFDQMV  128 (274)
Q Consensus       112 ~~~~~~~~a~~~~~~~~  128 (274)
                      ...|++++|.+.+++.+
T Consensus        95 ~~~g~~~~A~~~l~~~l  111 (112)
T d1hxia_          95 TNEHNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHh
Confidence            99999999999998864

>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=98.68  E-value=9e-08  Score=61.07  Aligned_cols=91  Identities=4%  Similarity=-0.051  Sum_probs=78.2

Q ss_pred             HHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 048737           69 NALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK  148 (274)
Q Consensus        69 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (274)
                      .+...+.+.|++++|...|+++++..   |-+..+|..+..++.+.|++++|+..|++..+.. +.+..+|..+...|..
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~---p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~   96 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKE---PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   96 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccc---cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHH
Confidence            45667788999999999999999875   5578899999999999999999999999988863 2358889999999999


Q ss_pred             cCCHhHHHHHHHHHH
Q 048737          149 NKKVHEVENFFHEMI  163 (274)
Q Consensus       149 ~~~~~~a~~~~~~~~  163 (274)
                      .|++++|.+.+++.+
T Consensus        97 ~g~~~~A~~~l~~~l  111 (112)
T d1hxia_          97 EHNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHh
Confidence            999999999998754

>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=98.63  E-value=2.1e-07  Score=60.14  Aligned_cols=92  Identities=9%  Similarity=-0.028  Sum_probs=39.2

Q ss_pred             HHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCh---hhHHHHHHHHHhcCCccCcc-HHhHHHHHHH
Q 048737           35 FLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDS---THTVQLWDIMVGIGFNLMPN-LIMYNAVVGL  110 (274)
Q Consensus        35 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~-~~~~~~l~~~  110 (274)
                      +++.+...+++++|.+.|++....+ +.++.++..+..++.+.++.   ++|..+++++...+  ..|+ ..+|..+..+
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~--~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG--SKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS--CHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcc--CCchHHHHHHHHHHH
Confidence            3444444444444444444444432 23344444444444433222   23444444444432  1111 1234444444


Q ss_pred             HHhcCChhhHHHHHHHHHh
Q 048737          111 LCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~  129 (274)
                      |.+.|++++|++.|+++++
T Consensus        82 y~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHH
Confidence            4445555555555544444

>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=98.59  E-value=4e-05  Score=56.22  Aligned_cols=213  Identities=10%  Similarity=0.028  Sum_probs=112.5

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhc----cCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh---
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIR----GKQVDEALKFLRVMKGENCFPTLKFFSNALDILVK---   76 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---   76 (274)
                      +.|++++|++.|++..+. |    +..++..|...|..    ..+...|...+......+   ++.....+...+..   
T Consensus        14 ~~~d~~~A~~~~~kAa~~-g----~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~~~~~~~~~   85 (265)
T d1ouva_          14 KEKDFTQAKKYFEKACDL-K----ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQG   85 (265)
T ss_dssp             HTTCHHHHHHHHHHHHHT-T----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSS
T ss_pred             HCCCHHHHHHHHHHHHHC-C----CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhccccccccccc
Confidence            456777777777766553 2    44455556655554    456667777766666544   23333333333332   


Q ss_pred             -CCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHH----hcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh---
Q 048737           77 -LNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLC----NNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK---  148 (274)
Q Consensus        77 -~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~---  148 (274)
                       ..+.+.|...+++..+.|   .+.  ....+...+.    .......+...+......   .+...+..+...|..   
T Consensus        86 ~~~~~~~a~~~~~~a~~~g---~~~--a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~  157 (265)
T d1ouva_          86 VSQNTNKALQYYSKACDLK---YAE--GCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLYDAGRG  157 (265)
T ss_dssp             SCCCHHHHHHHHHHHHHTT---CHH--HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSS
T ss_pred             cchhhHHHHHHHhhhhhhh---hhh--HHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhhhccCCC
Confidence             345566666777666655   121  1222222222    123344555555554442   345556666666554   


Q ss_pred             -cCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHh----c
Q 048737          149 -NKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLD----ADEPEFAIEIWNYILENGILPLEASANVLLVGLRN----L  219 (274)
Q Consensus       149 -~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~  219 (274)
                       ..+...+...+....+.|   +......+...|..    ..+++.|...|.+..+.|.   +..+..|...|..    .
T Consensus       158 ~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~---~~a~~~LG~~y~~G~g~~  231 (265)
T d1ouva_         158 TPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN---GGGCFNLGAMQYNGEGVT  231 (265)
T ss_dssp             SCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHTTSSSS
T ss_pred             cccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhcccC---HHHHHHHHHHHHcCCCCc
Confidence             334555666666665543   34444445444443    4567777777777666653   2344445554543    2


Q ss_pred             CCcchHHHHHHHHHhCCCc
Q 048737          220 GRLSDVRRFAEEMLNRRIL  238 (274)
Q Consensus       220 g~~~~a~~~~~~m~~~~~~  238 (274)
                      .+.++|.+.|++..+.|..
T Consensus       232 ~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         232 RNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             CCSTTHHHHHHHHHHHTCH
T ss_pred             cCHHHHHHHHHHHHHCcCH
Confidence            3566777777776666543

>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=98.50  E-value=4e-06  Score=57.50  Aligned_cols=109  Identities=6%  Similarity=-0.083  Sum_probs=56.5

Q ss_pred             hHHHHHHHHHhccCcHHHHHHHHHHHhcCC-CCCCHHHHHHHHHHHHhCCChhhH-HHHHHHHHhcCCccCccHHhHHHH
Q 048737           30 LAYETFLITLIRGKQVDEALKFLRVMKGEN-CFPTLKFFSNALDILVKLNDSTHT-VQLWDIMVGIGFNLMPNLIMYNAV  107 (274)
Q Consensus        30 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~~~~~~~~~~~~~~~~l  107 (274)
                      ..+......+.+.|++++|+..|.+.++.. ..+.                .... .....         ..-..+|+.+
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~----------------~~~~~~~~~~---------~~~~~~~~nl   68 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESS----------------FSNEEAQKAQ---------ALRLASHLNL   68 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCC----------------CCSHHHHHHH---------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccc----------------cchHHHhhhc---------hhHHHHHHHH
Confidence            355566778888899999999888776521 0000                0000 00000         0012234445


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737          108 VGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       108 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      ..+|.+.|++++|+..++..++..+ .++.+|..+..+|...|++++|...|+...+
T Consensus        69 a~~y~k~~~~~~A~~~~~~al~~~p-~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          69 AMCHLKLQAFSAAIESCNKALELDS-NNEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhcccccchhhhhhhccc-cchhhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            5555555555555555555554321 1455555555555555555555555555554

>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=98.48  E-value=8.3e-06  Score=55.84  Aligned_cols=112  Identities=11%  Similarity=-0.052  Sum_probs=67.3

Q ss_pred             HhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHH
Q 048737          102 IMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITML  181 (274)
Q Consensus       102 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  181 (274)
                      ..+......+.+.|++++|+..|.+....-  |....            ....-......+.       ..+|+.+..+|
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~--~~~~~------------~~~~~~~~~~~~~-------~~~~~nla~~y   72 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESS------------FSNEEAQKAQALR-------LASHLNLAMCH   72 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCC------------CCSHHHHHHHHHH-------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHh--hhccc------------cchHHHhhhchhH-------HHHHHHHHHHH
Confidence            344555567777788888888877766531  11000            0000000000000       12455667777


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhC
Q 048737          182 LDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNR  235 (274)
Q Consensus       182 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  235 (274)
                      .+.|++++|...+++.++..+ .++..|..+..+|...|++++|...|++..+.
T Consensus        73 ~k~~~~~~A~~~~~~al~~~p-~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          73 LKLQAFSAAIESCNKALELDS-NNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             Hhhhhcccccchhhhhhhccc-cchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            777888888888877777652 36667777777788888888888888877765

>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=98.48  E-value=1.7e-06  Score=56.43  Aligned_cols=55  Identities=9%  Similarity=0.126  Sum_probs=23.8

Q ss_pred             HHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHH
Q 048737           71 LDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMV  128 (274)
Q Consensus        71 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  128 (274)
                      ...+.+.|++++|...|++.++.+   |.+..++..+..+|.+.|++++|+..+++++
T Consensus        11 G~~~~~~~~y~~Ai~~y~~al~~~---p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al   65 (128)
T d1elra_          11 GNDAYKKKDFDTALKHYDKAKELD---PTNMTYITNQAAVYFEKGDYNKCRELCEKAI   65 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC---cccHHHHHhHHHHHHHcCchHHHHHHHHHHH
Confidence            334444444444444444444433   2334444444444444444444444444433

>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=98.48  E-value=1e-06  Score=60.46  Aligned_cols=63  Identities=11%  Similarity=-0.083  Sum_probs=35.5

Q ss_pred             HHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737           65 KFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus        65 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      ..+..+..++.+.|++++|...++++++..   +.+..+|..+..+|.+.|++++|+..|++..+.
T Consensus        78 ~~~~nla~~~~~~~~~~~Ai~~~~~al~~~---p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          78 SCVLNIGACKLKMSDWQGAVDSCLEALEID---PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccchhhhhhhhhhhhh---hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            344445555555666666666666655543   344555555556666666666666666655553

>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=98.47  E-value=2.9e-07  Score=61.54  Aligned_cols=43  Identities=9%  Similarity=0.021  Sum_probs=32.9

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHH
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDE   47 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~   47 (274)
                      |-+.+.+++|++.|+...+.   .|.++.++..+..++...+++..
T Consensus         7 ~~r~~~fe~A~~~~e~al~~---~P~~~~~~~~~g~~l~~~~~~~~   49 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKS---NPLDADNLTRWGGVLLELSQFHS   49 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHccHHHHHHHHHHHHhh---CCcchHHHHHHHHHHHHhhhhhh
Confidence            44667888999999988776   88888888888888876555433

>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=98.46  E-value=1.8e-07  Score=75.99  Aligned_cols=120  Identities=6%  Similarity=-0.009  Sum_probs=72.2

Q ss_pred             CccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHH
Q 048737           98 MPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATA  177 (274)
Q Consensus        98 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  177 (274)
                      +++...+..+...+.+.|+.+.|...+......  . ...++..+...+...+++++|...|.+..+.. +-+...|+.|
T Consensus       117 ~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~-~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~L  192 (497)
T d1ya0a1         117 LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--I-CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQL  192 (497)
T ss_dssp             --------------------------CCHHHHH--H-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHH
T ss_pred             hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--C-HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHH
Confidence            345666777888888888888888888776542  1 13567778888889999999999999988753 3345789999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCc
Q 048737          178 ITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRL  222 (274)
Q Consensus       178 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  222 (274)
                      ...+...|+..+|...|.+...... |-..++..|...+.+..+.
T Consensus       193 g~~~~~~~~~~~A~~~y~ral~~~~-~~~~a~~nL~~~~~~~~~~  236 (497)
T d1ya0a1         193 AILASSKGDHLTTIFYYCRSIAVKF-PFPAASTNLQKALSKALES  236 (497)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHSSSB-CCHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCC-CCHHHHHHHHHHHHHhhhh
Confidence            9999999999999999988887653 6778888888877665443

>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=98.44  E-value=0.00011  Score=53.84  Aligned_cols=223  Identities=5%  Similarity=-0.032  Sum_probs=155.1

Q ss_pred             hHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh----CCChhhHHHHHHHHHhcCCccCccHHh
Q 048737           28 HVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVK----LNDSTHTVQLWDIMVGIGFNLMPNLIM  103 (274)
Q Consensus        28 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  103 (274)
                      |+..+..|...+.+.+++++|+++|++..+.|   +...+..|...|..    ..+...|...+......+     +...
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~-----~~~a   72 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN-----YSNG   72 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-----CHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc-----ccch
Confidence            35677888888899999999999999998876   56666677777766    668899999999998876     3334


Q ss_pred             HHHHHHHHHh----cCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCCHhHHHHHHHHHHhCCCCCCcchHH
Q 048737          104 YNAVVGLLCN----NNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK----NKKVHEVENFFHEMIKNEWQPTPLNCA  175 (274)
Q Consensus       104 ~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  175 (274)
                      ...+...+..    ..+.+.|...++...+.|.   ......+...+..    ......+...+......   .+...+.
T Consensus        73 ~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~  146 (265)
T d1ouva_          73 CHLLGNLYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCT  146 (265)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHH
T ss_pred             hhccccccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhh
Confidence            4444444443    4677889999998887653   2223333333332    34566777777776663   4566777


Q ss_pred             HHHHHHHh----cCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHh----cCCcchHHHHHHHHHhCCCccCHHHHHHH
Q 048737          176 TAITMLLD----ADEPEFAIEIWNYILENGILPLEASANVLLVGLRN----LGRLSDVRRFAEEMLNRRILIYDVTMQKL  247 (274)
Q Consensus       176 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  247 (274)
                      .|...+..    ..+...+...++...+.|.   ......+-..|..    ..++++|...|....+.|   ++..+..|
T Consensus       147 ~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~---~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~L  220 (265)
T d1ouva_         147 ILGSLYDAGRGTPKDLKKALASYDKACDLKD---SPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNL  220 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             hhhhhhccCCCcccccccchhhhhccccccc---cccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHH
Confidence            78777775    4567778888888777653   3455555555554    568999999999999887   34556666


Q ss_pred             HHHHHh----cChh--HHHHHHHHHHHhh
Q 048737          248 KKAFYN----ESRS--MRDRFDSLERRWK  270 (274)
Q Consensus       248 ~~~~~~----~g~~--a~~~~~~~~~~~~  270 (274)
                      ...|..    ..+.  |.+.|++..+.+-
T Consensus       221 G~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         221 GAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             HHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            666654    1133  9999988877653

>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=98.42  E-value=1.6e-06  Score=70.26  Aligned_cols=110  Identities=10%  Similarity=-0.031  Sum_probs=49.1

Q ss_pred             HHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048737           67 FSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECL  146 (274)
Q Consensus        67 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  146 (274)
                      +..+...+.+.|+.+.|...+.......    | ..++..+...+...+++++|...|++..+.. +-+...|+.+...+
T Consensus       123 ~~~lg~~~~~~~~~~~A~~~~~~al~~~----~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~  196 (497)
T d1ya0a1         123 SSQLGIISNKQTHTSAIVKPQSSSCSYI----C-QHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILA  196 (497)
T ss_dssp             --------------------CCHHHHHH----H-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHH
T ss_pred             HHHhHHHHHhCCCHHHHHHHHHHHhCCC----H-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHH
Confidence            3344444444455555554444443321    1 2345555666666666666666666665542 12345666666666


Q ss_pred             HhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHh
Q 048737          147 IKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLD  183 (274)
Q Consensus       147 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  183 (274)
                      ...|+..+|...|.+.+... +|...++..|...+.+
T Consensus       197 ~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         197 SSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHH
Confidence            66666666666666665543 3445555555555443

>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=98.42  E-value=2.5e-06  Score=55.53  Aligned_cols=97  Identities=14%  Similarity=0.230  Sum_probs=74.3

Q ss_pred             hHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCcc-------HH
Q 048737           30 LAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPN-------LI  102 (274)
Q Consensus        30 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~  102 (274)
                      ..+..+...+.+.|++++|+..|.+.++.+ +.+...+..+..+|.+.|+++.|...++++++..   +.+       ..
T Consensus         5 ~~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~---~~~~~~~~~~a~   80 (128)
T d1elra_           5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG---RENREDYRQIAK   80 (128)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH---HHSTTCHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhC---cccHHHHHHHHH
Confidence            455667888888999999999999888763 4567888888899999999999999999888743   112       23


Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737          103 MYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus       103 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      +|..+...+...+++++|++.|++....
T Consensus        81 ~~~~lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          81 AYARIGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            5666667777778888888888876653

>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=98.40  E-value=1e-05  Score=54.36  Aligned_cols=113  Identities=6%  Similarity=-0.070  Sum_probs=64.7

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHH
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVV  108 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~  108 (274)
                      ...+..-...+.+.|++.+|+..|.+....-  +.             ....... .......      .....+|+.+.
T Consensus        17 a~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~--~~-------------~~~~~~~-~~~~~~~------~~~~~~~~Nla   74 (153)
T d2fbna1          17 AFDIKEEGNEFFKKNEINEAIVKYKEALDFF--IH-------------TEEWDDQ-ILLDKKK------NIEISCNLNLA   74 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TT-------------CTTCCCH-HHHHHHH------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cc-------------hhhhhhH-HHHHhhh------hHHHHHHhhHH
Confidence            3455566777888899999999998877531  10             0000000 0000000      11234556666


Q ss_pred             HHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh
Q 048737          109 GLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      .+|.+.|++++|++.+++.++.. +.+..+|..+..++...|++++|...|++..+
T Consensus        75 ~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          75 TCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666666666543 22456666666666666666666666666665

>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=98.32  E-value=2.7e-05  Score=52.15  Aligned_cols=123  Identities=11%  Similarity=-0.087  Sum_probs=83.3

Q ss_pred             HHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048737           67 FSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECL  146 (274)
Q Consensus        67 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  146 (274)
                      +..-...+.+.|++..|...|.+++..-    +....            ..+....  ....    .....+|+.+..+|
T Consensus        20 ~~~~G~~~f~~~~y~~A~~~Y~~al~~~----~~~~~------------~~~~~~~--~~~~----~~~~~~~~Nla~~~   77 (153)
T d2fbna1          20 IKEEGNEFFKKNEINEAIVKYKEALDFF----IHTEE------------WDDQILL--DKKK----NIEISCNLNLATCY   77 (153)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTT----TTCTT------------CCCHHHH--HHHH----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC----cchhh------------hhhHHHH--Hhhh----hHHHHHHhhHHHHH
Confidence            3344556677888888888888777532    11000            0000000  0000    01235788899999


Q ss_pred             HhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHH
Q 048737          147 IKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLL  213 (274)
Q Consensus       147 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  213 (274)
                      .+.|++++|+..+...++.. +.+..+|..+..++...|+++.|...|++..+..+ -+..+...+-
T Consensus        78 ~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P-~n~~~~~~l~  142 (153)
T d2fbna1          78 NKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP-NNLDIRNSYE  142 (153)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHHHH
T ss_pred             HHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHH
Confidence            99999999999999998854 44678999999999999999999999999998653 2344444443

>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=98.31  E-value=1.1e-05  Score=55.03  Aligned_cols=62  Identities=18%  Similarity=0.090  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737           66 FFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus        66 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      .|+.+..+|.+.|++++|...++..++..   |.+..+|..+..++...|++++|...|++....
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            45556666667777777777777777654   556666777777777777777777777776664

>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=98.30  E-value=1.2e-05  Score=55.50  Aligned_cols=125  Identities=10%  Similarity=0.066  Sum_probs=83.2

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHH
Q 048737           32 YETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLL  111 (274)
Q Consensus        32 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~  111 (274)
                      ...........|++++|.+.|.+....-  +...        +......+.+...-..+..      .....+..+..++
T Consensus        14 ~~~~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~--------l~~~~~~~w~~~~r~~l~~------~~~~a~~~la~~~   77 (179)
T d2ff4a2          14 EKTAGVHAAAAGRFEQASRHLSAALREW--RGPV--------LDDLRDFQFVEPFATALVE------DKVLAHTAKAEAE   77 (179)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTC--CSST--------TGGGTTSTTHHHHHHHHHH------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhC--cccc--------cccCcchHHHHHHHHHHHH------HHHHHHHHHHHHH
Confidence            3444567788999999999999988731  1110        0011111122222222221      2345677788888


Q ss_pred             HhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHh-----CCCCCCcch
Q 048737          112 CNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIK-----NEWQPTPLN  173 (274)
Q Consensus       112 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  173 (274)
                      .+.|++++|+..++++..... -+...|..++.+|...|+..+|++.|+++.+     .|+.|+..+
T Consensus        78 ~~~g~~~~Al~~~~~al~~~P-~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          78 IACGRASAVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHCCCchHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            888888888888888887643 3678888888888888888888888888743     488887654

>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=98.30  E-value=4.3e-07  Score=67.02  Aligned_cols=120  Identities=17%  Similarity=0.070  Sum_probs=70.5

Q ss_pred             cccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCC-HHHHHHHHHHHHhCCChhh
Q 048737            4 KEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPT-LKFFSNALDILVKLNDSTH   82 (274)
Q Consensus         4 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~   82 (274)
                      +.|++++|+..+++..+.   .|.|...+..+...++..|++++|.+.|+...+.  .|+ ...+..+...+...+..+.
T Consensus         8 ~~G~l~eAl~~l~~al~~---~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKA---SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHT---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHH
Confidence            568888888888888766   7878888888888888888888888888887764  343 3333333333322222211


Q ss_pred             HHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737           83 TVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus        83 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      +..-.......+  -+++...+......+.+.|+.++|.+.++++.+.
T Consensus        83 a~~~~~~~~~~~--~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          83 FAQGAATAKVLG--ENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HTTSCCCEECCC--SCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhccc--CchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            111111101111  1223334444555666777788887777777654

>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=98.29  E-value=6.8e-06  Score=56.20  Aligned_cols=129  Identities=6%  Similarity=-0.113  Sum_probs=88.3

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHH
Q 048737           32 YETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLL  111 (274)
Q Consensus        32 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~  111 (274)
                      +......+.+.|++++|+..|.+.++.            .........       .......   -+.....|..+..+|
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~~-------~~~~~~~---~~~~~~~~~nla~~~   87 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAAE-------DADGAKL---QPVALSCVLNIGACK   87 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHSC-------HHHHGGG---HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhhh-------hHHHHHh---ChhhHHHHHHHHHHH
Confidence            344556677788888888888776531            000000000       0111111   134567788899999


Q ss_pred             HhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCC-cchHHHHHHHHHhcC
Q 048737          112 CNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPT-PLNCATAITMLLDAD  185 (274)
Q Consensus       112 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~  185 (274)
                      .+.|++++|+..+++.++... .+..+|..+..+|...|++++|+..|.+.++.  .|+ ......+..+..+..
T Consensus        88 ~~~~~~~~Ai~~~~~al~~~p-~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n~~~~~~l~~~~~~l~  159 (169)
T d1ihga1          88 LKMSDWQGAVDSCLEALEIDP-SNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQKIK  159 (169)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             Hhhcccchhhhhhhhhhhhhh-hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHH
Confidence            999999999999999998643 36889999999999999999999999999985  454 445555555444333

>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=98.24  E-value=9.1e-05  Score=50.32  Aligned_cols=145  Identities=7%  Similarity=-0.044  Sum_probs=94.8

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHH
Q 048737           29 VLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVV  108 (274)
Q Consensus        29 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~  108 (274)
                      ...+......+.+.|++++|+..|.+....               +-..-.......  ....      .....+|+.+.
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~---------------~~~~~~~~~~~~--~~~~------~~~~~~~~Nla   71 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSW---------------LEMEYGLSEKES--KASE------SFLLAAFLNLA   71 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------HTTCCSCCHHHH--HHHH------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH---------------HHHhhccchhhh--hhcc------hhHHHHHHhHH
Confidence            345666777788888888888888765531               000001100000  0000      11245677888


Q ss_pred             HHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCc-chHHHHHHHHHhcCCh
Q 048737          109 GLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTP-LNCATAITMLLDADEP  187 (274)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~  187 (274)
                      .+|.+.|++++|+..+++..... +.+..+|..+..+|...|++++|...|.+..+.  .|+. .....+-.+....+..
T Consensus        72 ~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~~~~l~~~~~~~~~~  148 (168)
T d1kt1a1          72 MCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQIFMCQKKAKEH  148 (168)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHhH
Confidence            99999999999999999998864 347889999999999999999999999999985  4554 4444444444444433


Q ss_pred             H-HHHHHHHHHHH
Q 048737          188 E-FAIEIWNYILE  199 (274)
Q Consensus       188 ~-~a~~~~~~~~~  199 (274)
                      . ....++..|.+
T Consensus       149 ~e~~kk~~~~~f~  161 (168)
T d1kt1a1         149 NERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            3 34455555543

>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=98.17  E-value=3.6e-06  Score=61.97  Aligned_cols=123  Identities=10%  Similarity=-0.008  Sum_probs=71.0

Q ss_pred             HhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChh
Q 048737           39 LIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVD  118 (274)
Q Consensus        39 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  118 (274)
                      ..+.|++++|+..+++.++.. +-|...+..+...++..|++++|.+.++...+..   +-+...+..+...+...+..+
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~---P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF---PEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---GGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHhccccH
Confidence            456677888888887777753 5566777777788888888888888888777754   333444444444443333333


Q ss_pred             hHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhC
Q 048737          119 NVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKN  165 (274)
Q Consensus       119 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (274)
                      ++..-.......+.+++...+......+...|+.++|...++++.+.
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            22221111111111222333444455566777777777777776653

>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=98.16  E-value=4.1e-05  Score=52.65  Aligned_cols=123  Identities=10%  Similarity=-0.056  Sum_probs=79.7

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCC
Q 048737          107 VVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADE  186 (274)
Q Consensus       107 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  186 (274)
                      ........|++++|...|.+.+..-  +....        .......-+...-..+..    .....+..+...+...|+
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~l--------~~~~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREW--RGPVL--------DDLRDFQFVEPFATALVE----DKVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTC--CSSTT--------GGGTTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC--ccccc--------ccCcchHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCC
Confidence            3356777888999998888887641  11100        000000001111111111    012356677888888899


Q ss_pred             hHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHh-----CCCccCHHHH
Q 048737          187 PEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLN-----RRILIYDVTM  244 (274)
Q Consensus       187 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~~  244 (274)
                      +++|...++++.+... -+...|..++.+|...|+.++|++.|+++.+     .|+.|...+-
T Consensus        83 ~~~Al~~~~~al~~~P-~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~  144 (179)
T d2ff4a2          83 ASAVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  144 (179)
T ss_dssp             HHHHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             chHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHH
Confidence            9999999988888653 5778888899999999999999988888743     5888887653

>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=98.09  E-value=1.5e-05  Score=52.98  Aligned_cols=66  Identities=8%  Similarity=-0.094  Sum_probs=28.4

Q ss_pred             ChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhc----------CChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 048737           79 DSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNN----------NDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIK  148 (274)
Q Consensus        79 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (274)
                      .+++|...|+...+..   |.+..++..+..++...          +.+++|+..|++..+..+ .+..+|..+..+|..
T Consensus        12 ~fe~A~~~~e~al~~~---P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P-~~~~a~~~lG~~y~~   87 (145)
T d1zu2a1          12 LFEQIRQDAENTYKSN---PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP-KKDEAVWCIGNAYTS   87 (145)
T ss_dssp             HHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhhC---CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcc-hhhHHHhhHHHHHHH
Confidence            3445555555554443   33344444444444322          223445555555444321 134444444444443

>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=97.79  E-value=0.0036  Score=47.10  Aligned_cols=183  Identities=8%  Similarity=0.072  Sum_probs=112.4

Q ss_pred             CCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC-----
Q 048737           60 CFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFP-----  134 (274)
Q Consensus        60 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----  134 (274)
                      ...++.....++..|-..|.++....+++......   .++...++.++.+|++.+ .++..+.+...... ..+     
T Consensus        95 ~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~---~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~~-y~~~k~~~  169 (336)
T d1b89a_          95 IVVHADELEELINYYQDRGYFEELITMLEAALGLE---RAHMGMFTELAILYSKFK-PQKMREHLELFWSR-VNIPKVLR  169 (336)
T ss_dssp             TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST---TCCHHHHHHHHHHHHTTC-HHHHHHHHHHHSTT-SCHHHHHH
T ss_pred             hhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC---ccchHHHHHHHHHHHHhC-hHHHHHHHHhcccc-CCHHHHHH
Confidence            44566677788888888899999888888876543   567778888888888864 34444444333110 111     


Q ss_pred             ---ChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccH-----
Q 048737          135 ---DSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEPEFAIEIWNYILENGILPLE-----  206 (274)
Q Consensus       135 ---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----  206 (274)
                         ....|..++-.|.+.|+++.|..++   .+  ..++..-...++..+.+..+++...++.....+..  |+.     
T Consensus       170 ~c~~~~l~~elv~Ly~~~~~~~~A~~~~---i~--~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~~--p~~i~~lL  242 (336)
T d1b89a_         170 AAEQAHLWAELVFLYDKYEEYDNAIITM---MN--HPTDAWKEGQFKDIITKVANVELYYRAIQFYLEFK--PLLLNDLL  242 (336)
T ss_dssp             HHHTTTCHHHHHHHHHHTTCHHHHHHHH---HH--STTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHHC--GGGHHHHH
T ss_pred             HHHHcCChHHHHHHHHhcCCHHHHHHHH---HH--cchhhhhHHHHHHHHHccCChHHHHHHHHHHHHcC--HHHHHHHH
Confidence               1122344555555555555544333   22  23455556667777777888777777666655532  321     


Q ss_pred             ------HHHHHHHHHHHhcCCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcChh
Q 048737          207 ------ASANVLLVGLRNLGRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNESRS  257 (274)
Q Consensus       207 ------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g~~  257 (274)
                            ..-..++..+.+.++......+++...+.|   +....+++.+.|...++.
T Consensus       243 ~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~  296 (336)
T d1b89a_         243 MVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDY  296 (336)
T ss_dssp             HHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCH
T ss_pred             HHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchh
Confidence                  112334555566677777777777766655   346788899999988875

>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=97.77  E-value=0.0038  Score=46.97  Aligned_cols=201  Identities=8%  Similarity=0.003  Sum_probs=119.7

Q ss_pred             cccccchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChh
Q 048737            2 WEKEGNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDST   81 (274)
Q Consensus         2 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   81 (274)
                      |.+.|.++.|..+|..+.           -|..++..+.+.++++.|.+.+.+.      -+..+|..+...|.+.....
T Consensus        24 c~~~~lye~A~~lY~~~~-----------d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~~~e~~   86 (336)
T d1b89a_          24 CYDEKMYDAAKLLYNNVS-----------NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFR   86 (336)
T ss_dssp             -----CTTTHHHHHHHTT-----------CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHCCCHHHHHHHHHhCC-----------CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHhCcHHH
Confidence            446778888888886552           2456778888889999888887654      25678888888888776654


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHH
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHE  161 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (274)
                      .+     ++....  ...+......++..|-..|.+++...+++..... -.++...++.++..|++.+ .++..+.+..
T Consensus        87 la-----~i~~~~--~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-~~kl~e~l~~  157 (336)
T d1b89a_          87 LA-----QMCGLH--IVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-PQKMREHLEL  157 (336)
T ss_dssp             HH-----HHTTTT--TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-HHHHHHHHHH
T ss_pred             HH-----HHHHHH--hhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-hHHHHHHHHh
Confidence            43     222222  3345555677889999999999999999987643 3457778888999888754 4454444433


Q ss_pred             HHhCCCCC--------CcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 048737          162 MIKNEWQP--------TPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEML  233 (274)
Q Consensus       162 ~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  233 (274)
                      ... ...+        ....|.-++..|.+.|+++.|..+.   .+  ..++..-....+..+.+..+.+...++.....
T Consensus       158 ~s~-~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~---i~--~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL  231 (336)
T d1b89a_         158 FWS-RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM---MN--HPTDAWKEGQFKDIITKVANVELYYRAIQFYL  231 (336)
T ss_dssp             HST-TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH---HH--STTTTCCHHHHHHHHHHCSSTHHHHHHHHHHH
T ss_pred             ccc-cCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHH---HH--cchhhhhHHHHHHHHHccCChHHHHHHHHHHH
Confidence            311 1111        1112445555556666666555433   12  12333333445555566666655555555444


Q ss_pred             h
Q 048737          234 N  234 (274)
Q Consensus       234 ~  234 (274)
                      +
T Consensus       232 ~  232 (336)
T d1b89a_         232 E  232 (336)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=97.75  E-value=0.00024  Score=47.43  Aligned_cols=100  Identities=15%  Similarity=0.020  Sum_probs=53.6

Q ss_pred             HhHHHHH--HHHHhccCcHHHHHHHHHHHhcCC-CCCC----------HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCC
Q 048737           29 VLAYETF--LITLIRGKQVDEALKFLRVMKGEN-CFPT----------LKFFSNALDILVKLNDSTHTVQLWDIMVGIGF   95 (274)
Q Consensus        29 ~~~~~~l--i~~~~~~~~~~~a~~~~~~~~~~~-~~~~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   95 (274)
                      ..+|..+  ...+.+.|++++|+..|++.++.. -.|+          ...|+.+..+|.+.|+++.|...+++.++...
T Consensus         7 a~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~   86 (156)
T d2hr2a1           7 VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   86 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccc
Confidence            3455555  445566678888888887776521 0111          23455666666666666666666666553210


Q ss_pred             ---ccCc-----cHHhHHHHHHHHHhcCChhhHHHHHHHHH
Q 048737           96 ---NLMP-----NLIMYNAVVGLLCNNNDVDNVFRFFDQMV  128 (274)
Q Consensus        96 ---~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  128 (274)
                         ...+     ...+++.+..+|...|++++|+..|++..
T Consensus        87 ~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          87 RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence               0001     11234445555555666666666555543

>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=97.75  E-value=0.00045  Score=46.07  Aligned_cols=93  Identities=10%  Similarity=0.010  Sum_probs=52.3

Q ss_pred             HHHHHhCCChhhHHHHHHHHHhcCCccCc---------cHHhHHHHHHHHHhcCChhhHHHHHHHHHhc-----CCCCC-
Q 048737           71 LDILVKLNDSTHTVQLWDIMVGIGFNLMP---------NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH-----GAFPD-  135 (274)
Q Consensus        71 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~-  135 (274)
                      ...+...|++++|...|++.++...+.+.         ....|+.+..+|.+.|++++|...+++.+..     ...++ 
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            44555667788888888777753211110         1345666777777777777777666665431     01111 


Q ss_pred             ----hhhHHHHHHHHHhcCCHhHHHHHHHHHH
Q 048737          136 ----SLTYNMIFECLIKNKKVHEVENFFHEMI  163 (274)
Q Consensus       136 ----~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (274)
                          ...++.+..+|...|++++|...|++..
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence                1234455556666666666666666554

>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=97.52  E-value=0.00061  Score=41.11  Aligned_cols=74  Identities=3%  Similarity=-0.107  Sum_probs=45.5

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHhcCC-----CCCC-HHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhH
Q 048737           31 AYETFLITLIRGKQVDEALKFLRVMKGEN-----CFPT-LKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMY  104 (274)
Q Consensus        31 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~-----~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  104 (274)
                      .+..+...+.+.|++++|+..|++..+..     ..++ ..++..|..++.+.|++++|...++++++..   |-+..++
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~---P~~~~a~   83 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD---PEHQRAN   83 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC---cCCHHHH
Confidence            34456777777777777777777665421     1111 3566667777777777777777777777654   3334444


Q ss_pred             HHH
Q 048737          105 NAV  107 (274)
Q Consensus       105 ~~l  107 (274)
                      +.+
T Consensus        84 ~Nl   86 (95)
T d1tjca_          84 GNL   86 (95)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=97.45  E-value=0.00061  Score=41.14  Aligned_cols=66  Identities=8%  Similarity=-0.076  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHHhCCChhhHHHHHHHHHhcCC---ccCc-cHHhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 048737           65 KFFSNALDILVKLNDSTHTVQLWDIMVGIGF---NLMP-NLIMYNAVVGLLCNNNDVDNVFRFFDQMVFH  130 (274)
Q Consensus        65 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  130 (274)
                      ..+-.+...+.+.|+++.|...|++..+...   ...+ ...+++.+..++.+.|++++|+..++++++.
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3444566677777777777777777665320   0011 2455666777777777777777777777664

>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=97.43  E-value=0.0051  Score=39.43  Aligned_cols=111  Identities=9%  Similarity=0.026  Sum_probs=56.2

Q ss_pred             cchHHHHHHHHHHHhccCCCCchHhHHHHHHHHHhccCcHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh----CCChh
Q 048737            6 GNVVEANKTFGEMVERFEWNPEHVLAYETFLITLIRGKQVDEALKFLRVMKGENCFPTLKFFSNALDILVK----LNDST   81 (274)
Q Consensus         6 g~~~~a~~~~~~~~~~~~~~p~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~   81 (274)
                      .++++|++.|.+..+. |    ++.+...|.  .....+.++|++++++..+.|   ++.....|...|..    ..+.+
T Consensus         7 kd~~~A~~~~~kaa~~-g----~~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~   76 (133)
T d1klxa_           7 KDLKKAIQYYVKACEL-N----EMFGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLR   76 (133)
T ss_dssp             HHHHHHHHHHHHHHHT-T----CTTHHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             cCHHHHHHHHHHHHHC-C----Chhhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhH
Confidence            4667777777776553 3    222333333  233445666666666665554   33444444444432    34455


Q ss_pred             hHHHHHHHHHhcCCccCccHHhHHHHHHHHHh----cCChhhHHHHHHHHHhcC
Q 048737           82 HTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCN----NNDVDNVFRFFDQMVFHG  131 (274)
Q Consensus        82 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  131 (274)
                      .|.++|++..+.|     ++.....|...|..    ..+.++|.+.|++..+.|
T Consensus        77 ~A~~~~~~aa~~g-----~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          77 KAAQYYSKACGLN-----DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHTT-----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhhhhccC-----cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            6666666666655     22333334444433    234555555555555544

>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=97.28  E-value=0.0078  Score=38.50  Aligned_cols=110  Identities=7%  Similarity=-0.034  Sum_probs=50.8

Q ss_pred             cHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCChhhHHHHHHHHHhcCCccCccHHhHHHHHHHHHh----cCChhh
Q 048737           44 QVDEALKFLRVMKGENCFPTLKFFSNALDILVKLNDSTHTVQLWDIMVGIGFNLMPNLIMYNAVVGLLCN----NNDVDN  119 (274)
Q Consensus        44 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~  119 (274)
                      ++++|+++|++..+.|..   .....|.  .....+.++|.+++++..+.|     +...+..|...|..    ..+.++
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~g-----~~~a~~~Lg~~y~~g~~~~~d~~~   77 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACELN-----SGNGCRFLGDFYENGKYVKKDLRK   77 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHTT-----CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhccc-----chhhhhhHHHhhhhccccchhhHH
Confidence            556666666666655421   1122222  123345566666666666555     23333444444432    234555


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCCHhHHHHHHHHHHhCC
Q 048737          120 VFRFFDQMVFHGAFPDSLTYNMIFECLIK----NKKVHEVENFFHEMIKNE  166 (274)
Q Consensus       120 a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~  166 (274)
                      |.++|++..+.|   ++.....|...|..    ..+.++|.++|++..+.|
T Consensus        78 A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          78 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            555555555543   22333333333332    234445555555444443

>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=95.90  E-value=0.088  Score=32.78  Aligned_cols=65  Identities=11%  Similarity=0.034  Sum_probs=38.5

Q ss_pred             HhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCC
Q 048737          102 IMYNAVVGLLCNNNDVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEW  167 (274)
Q Consensus       102 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  167 (274)
                      .-++..++...+.|+-+.-.+++..+.+. -+|++.....+..+|.+.|...++-+++.+.-+.|+
T Consensus        87 e~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          87 EHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            44455556666666666666666665543 345566666666666666666666666666655554

>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=95.01  E-value=0.2  Score=31.18  Aligned_cols=68  Identities=18%  Similarity=0.105  Sum_probs=48.5

Q ss_pred             CcchHHHHHHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHHhCCCc
Q 048737          170 TPLNCATAITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEMLNRRIL  238 (274)
Q Consensus       170 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  238 (274)
                      +...+...++.....|.-+.-.++++.+.+.+ +|++...-.+..+|.+.|...++-+++.+..+.|+.
T Consensus        85 ~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          85 LNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            34455566677777788887788877766644 466677777778888888888888888888877764

>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=94.16  E-value=0.33  Score=30.07  Aligned_cols=24  Identities=4%  Similarity=0.038  Sum_probs=10.7

Q ss_pred             HHHHHHHhcCCHhHHHHHHHHHHh
Q 048737          141 MIFECLIKNKKVHEVENFFHEMIK  164 (274)
Q Consensus       141 ~li~~~~~~~~~~~a~~~~~~~~~  164 (274)
                      .+.-+|.+.|++++|.+.++.+++
T Consensus        78 ~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          78 YLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHc
Confidence            333344444444444444444444

>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=94.01  E-value=0.28  Score=28.76  Aligned_cols=32  Identities=19%  Similarity=0.289  Sum_probs=14.6

Q ss_pred             cCccHHhHHHHHHHHHhcCChhhHHHHHHHHH
Q 048737           97 LMPNLIMYNAVVGLLCNNNDVDNVFRFFDQMV  128 (274)
Q Consensus        97 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  128 (274)
                      +.|++.+..+.+++|.|.+++..|.++|+..+
T Consensus        37 lVPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          37 LVPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             BCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            44444444444444444444444444444433

>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=93.05  E-value=0.54  Score=29.05  Aligned_cols=47  Identities=6%  Similarity=-0.089  Sum_probs=25.6

Q ss_pred             hhhHHHHHHHHHhcCCccCcc-HHhHHHHHHHHHhcCChhhHHHHHHHHHh
Q 048737           80 STHTVQLWDIMVGIGFNLMPN-LIMYNAVVGLLCNNNDVDNVFRFFDQMVF  129 (274)
Q Consensus        80 ~~~a~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  129 (274)
                      ++.+..+++.+.+.+   +.+ ...+-.|.-+|.+.|++++|.+.++.+++
T Consensus        54 ~~~gI~lLe~~~~~~---p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          54 ERLGVKILTDIYKEA---ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHHHHHHC---GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC---chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            345566666665543   222 23444555556666666666666666655

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=92.14  E-value=0.6  Score=27.35  Aligned_cols=62  Identities=8%  Similarity=0.049  Sum_probs=38.8

Q ss_pred             ChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHH
Q 048737          116 DVDNVFRFFDQMVFHGAFPDSLTYNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAI  178 (274)
Q Consensus       116 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  178 (274)
                      |.-++.+-++.+......|++....+.+++|.+.+++.-|.++++..+.+. .++...|..++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHH
Confidence            445566666666666667777777777777777777777777776665431 23344555443

>d2nsza1 a.118.1.14 (A:322-450) Programmed cell death 4, PDCD4 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Programmed cell death 4, PDCD4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.02  E-value=1.6  Score=27.07  Aligned_cols=63  Identities=11%  Similarity=0.280  Sum_probs=31.4

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCh--HHHHHHHHHHHHCCC
Q 048737          139 YNMIFECLIKNKKVHEVENFFHEMIKNEWQPTPLNCATAITMLLDADEP--EFAIEIWNYILENGI  202 (274)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~  202 (274)
                      ...++.-|...++.++|...++++...... ....+..+..+.-+.+.-  +.+..++..+...|+
T Consensus        10 ~~~ll~EY~~~~D~~Ea~~~l~eL~~p~~~-~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~   74 (129)
T d2nsza1          10 IDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSST   74 (129)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHTCGGGH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCchhh-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCC
Confidence            456677777777777777777766321100 112222223333333332  224556666666654

>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=81.34  E-value=9.4  Score=29.04  Aligned_cols=53  Identities=9%  Similarity=-0.085  Sum_probs=41.2

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCccHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 048737          178 ITMLLDADEPEFAIEIWNYILENGILPLEASANVLLVGLRNLGRLSDVRRFAEEML  233 (274)
Q Consensus       178 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  233 (274)
                      +..+...|....|...|..+... .  +......+.....+.|.++.|+.......
T Consensus       388 a~~L~~~g~~~~A~~e~~~l~~~-~--~~~~~~~la~lA~~~g~~~~aI~a~~~~~  440 (450)
T d1qsaa1         388 VRELMYWNLDNTARSEWANLVKS-K--SKTEQAQLARYAFNNQWWDLSVQATIAGK  440 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTT-C--CHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HHHHHHcCCchHHHHHHHHHHhC-C--CHHHHHHHHHHHHHCCChhHHHHHHHHHH
Confidence            56677889999999999888753 2  34466677788899999999998776653

>d1mzba_ a.4.5.42 (A:) Ferric uptake regulation protein, FUR {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: FUR-like
domain: Ferric uptake regulation protein, FUR
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=80.20  E-value=4.7  Score=24.89  Aligned_cols=58  Identities=10%  Similarity=0.041  Sum_probs=29.9

Q ss_pred             HHHCCCCccHHHHHHHHHHHHhc-CCcchHHHHHHHHHhCCCccCHHHHHHHHHHHHhcC
Q 048737          197 ILENGILPLEASANVLLVGLRNL-GRLSDVRRFAEEMLNRRILIYDVTMQKLKKAFYNES  255 (274)
Q Consensus       197 ~~~~~~~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~~~~~~~~~~~~l~~~~~~~g  255 (274)
                      +.+.|++++. .-..++..+... +..-.|.++++.+.+.+..++..|....+..+...|
T Consensus         7 Lr~~GlR~T~-qR~~Il~~L~~~~~~h~sa~ei~~~l~~~~~~i~~aTVYR~L~~l~e~g   65 (134)
T d1mzba_           7 LRKAGLKVTL-PRVKILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAG   65 (134)
T ss_dssp             HHHTTCCCCH-HHHHHHHHHHCC-CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHT
T ss_pred             HHHcCCCCCH-HHHHHHHHHHhCCCCCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHhcc
Confidence            4455555543 333444444444 335556666666666655555555555455554444