Citrus Sinensis ID: 044047

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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
Protein Sequence
MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDERN
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MDEASRLLDLMIQrgvrpnafvYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLskgirptvvTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQslprvglmpnVVTYNIMIHGfcndgqmdkAHDLFLDmeakgvapncvtfntlmlgcirnneTSKVVELLHRMDERN
Flexible Loop (DISEMBL)
MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLmlgcirnnetSKVVELLHRMDERN
Low Complexity Region (SEG)
MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDERN
Disordered region (IsUnstruct)
******LLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVEL********
Disordered Region (DISOPRED)
MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDER*
Disordered Region (DISEMBL)
MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDERN
Disordered Region (DISPRO)
MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDERN
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	260	2.2.26 [Sep-21-2011]
Q9LQ14	629	Pentatricopeptide repeat-	yes	no	0.95	0.392	0.425	3e-56
Q9CAN5	614	Pentatricopeptide repeat-	no	no	0.842	0.356	0.409	1e-55
Q9LQ16	632	Pentatricopeptide repeat-	no	no	0.830	0.341	0.417	4e-55
Q9CAN0	630	Pentatricopeptide repeat-	no	no	0.826	0.341	0.413	4e-55
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.830	0.342	0.413	1e-54
Q9SXD8	634	Pentatricopeptide repeat-	no	no	0.973	0.399	0.397	3e-53
Q9SH26	577	Pentatricopeptide repeat-	no	no	0.884	0.398	0.434	7e-52
Q9C8T7	559	Pentatricopeptide repeat-	no	no	0.842	0.391	0.389	1e-51
Q9ASZ8	621	Pentatricopeptide repeat-	no	no	0.973	0.407	0.394	1e-50
Q0WKV3	637	Pentatricopeptide repeat-	no	no	0.938	0.383	0.394	5e-50

>sp|Q9LQ14|PPR96_ARATH Pentatricopeptide repeat-containing protein At1g62930, chloroplastic OS=Arabidopsis thaliana GN=At1g62930 PE=2 SV=2

 Score =  218 bits (555), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 108/254 (42%), Positives = 153/254 (60%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA +L D MI+R + P+ F YS+LI+GFC+   +D A+ +F  M    C  NVVTYNTLI
Sbjct: 343 EAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLI 402

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
            G+CK K VEE + L+ EM  +G+    VTYNTL  GLF+    + A K+F +M    V 
Sbjct: 403 KGFCKAKRVEEGMELFREMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVP 462

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
            +  TY+  +DGLCK G + +A  +F  L+  K E  I  Y+ +I+G+CK GK+E  W+L
Sbjct: 463 PDIITYSILLDGLCKYGKLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGWDL 522

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
           F SL   G+ PNV+ Y  MI GFC  G  ++A  LF +M+  G  PN  T+NTL+   +R
Sbjct: 523 FCSLSLKGVKPNVIIYTTMISGFCRKGLKEEADALFREMKEDGTLPNSGTYNTLIRARLR 582

Query: 243 NNETSKVVELLHRM 256
           + + +   EL+  M
Sbjct: 583 DGDKAASAELIKEM 596

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAN5|PPR98_ARATH Pentatricopeptide repeat-containing protein At1g63080, mitochondrial OS=Arabidopsis thaliana GN=At1g63080 PE=2 SV=1

 Score =  216 bits (551), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 104/254 (40%), Positives = 155/254 (61%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA +L D MIQR + PN   Y++LI+GFC+   +D A+++F  M    C+ +VVTYNTLI
Sbjct: 328 EAEKLFDEMIQRSIDPNIVTYNSLINGFCMHDRLDEAQQIFTLMVSKDCLPDVVTYNTLI 387

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
           NG+CK K V + + L+ +M  +G+    VTY TL HG F+    ++A  +F +M    V 
Sbjct: 388 NGFCKAKKVVDGMELFRDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQMVFKQMVSDGVH 447

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
               TYNT +DGLCKNG + +A  +F  L+  K E  I  Y+ + +G+CK GK+E  W+L
Sbjct: 448 PNIMTYNTLLDGLCKNGKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGMCKAGKVEDGWDL 507

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
           F SL   G+ P+V+ YN MI GFC  G  ++A+ LF+ M+  G  P+  T+NTL+   +R
Sbjct: 508 FCSLSLKGVKPDVIAYNTMISGFCKKGLKEEAYTLFIKMKEDGPLPDSGTYNTLIRAHLR 567

Query: 243 NNETSKVVELLHRM 256
           + + +   EL+  M
Sbjct: 568 DGDKAASAELIKEM 581

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQ16|PPR94_ARATH Pentatricopeptide repeat-containing protein At1g62910 OS=Arabidopsis thaliana GN=At1g62910 PE=2 SV=1

 Score =  214 bits (546), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 106/254 (41%), Positives = 149/254 (58%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA +L D MI+R + P+ F YS+LI+GFC+   +D A+ +F  M    C  NVVTY+TLI
Sbjct: 346 EAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYSTLI 405

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
            G+CK K VEE + L+ EM  +G+    VTY TL HG F+    ++A  +F +M    V 
Sbjct: 406 KGFCKAKRVEEGMELFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSVGVH 465

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
               TYN  +DGLCKNG + +A  +F  L+    E  I  Y+ +I+G+CK GK+E  WEL
Sbjct: 466 PNILTYNILLDGLCKNGKLAKAMVVFEYLQRSTMEPDIYTYNIMIEGMCKAGKVEDGWEL 525

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
           F +L   G+ PNV+ YN MI GFC  G  ++A  L   M+  G  PN  T+NTL+   +R
Sbjct: 526 FCNLSLKGVSPNVIAYNTMISGFCRKGSKEEADSLLKKMKEDGPLPNSGTYNTLIRARLR 585

Query: 243 NNETSKVVELLHRM 256
           + +     EL+  M
Sbjct: 586 DGDREASAELIKEM 599

Arabidopsis thaliana (taxid: 3702)

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

 Score =  214 bits (546), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 105/254 (41%), Positives = 154/254 (60%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA +L D MI+R + P+ F YS+LI+GFC+   +D A+ +F  M    C  NVVTYNTLI
Sbjct: 344 EAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLI 403

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
            G+CK K V+E + L+ EM  +G+    VTY TL HG F+  + ++A  +F +M    V 
Sbjct: 404 KGFCKAKRVDEGMELFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQMVSDGVL 463

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
            +  TY+  +DGLC NG +  A  +F  L+  K E  I  Y+ +I+G+CK GK+E  W+L
Sbjct: 464 PDIMTYSILLDGLCNNGKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGKVEDGWDL 523

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
           F SL   G+ PNVVTY  M+ GFC  G  ++A  LF +M+ +G  P+  T+NTL+   +R
Sbjct: 524 FCSLSLKGVKPNVVTYTTMMSGFCRKGLKEEADALFREMKEEGPLPDSGTYNTLIRAHLR 583

Query: 243 NNETSKVVELLHRM 256
           + + +   EL+  M
Sbjct: 584 DGDKAASAELIREM 597

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SXD1|PPR91_ARATH Pentatricopeptide repeat-containing protein At1g62670, mitochondrial OS=Arabidopsis thaliana GN=At1g62670 PE=2 SV=2

 Score =  213 bits (542), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 105/254 (41%), Positives = 152/254 (59%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA +L D M++R + P+   YS+LI+GFC+   +D A+++F  M    C  +VVTYNTLI
Sbjct: 344 EAEKLYDEMVKRSIDPSIVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLI 403

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
            G+CK K VEE + ++ EM  +G+    VTYN L  GLF+    + A ++F EM    V 
Sbjct: 404 KGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVP 463

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
               TYNT +DGLCKNG + +A  +F  L+  K E  I  Y+ +I+G+CK GK+E  W+L
Sbjct: 464 PNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDL 523

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
           F +L   G+ P+VV YN MI GFC  G  ++A  LF +M+  G  PN   +NTL+   +R
Sbjct: 524 FCNLSLKGVKPDVVAYNTMISGFCRKGSKEEADALFKEMKEDGTLPNSGCYNTLIRARLR 583

Query: 243 NNETSKVVELLHRM 256
           + +     EL+  M
Sbjct: 584 DGDREASAELIKEM 597

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SXD8|PPR90_ARATH Pentatricopeptide repeat-containing protein At1g62590 OS=Arabidopsis thaliana GN=At1g62590 PE=2 SV=1

 Score =  208 bits (530), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 101/254 (39%), Positives = 156/254 (61%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA +L D MI+R + P+ F Y++L++GFC+   +D+A+++F  M    C  +VVTYNTLI
Sbjct: 348 EAEKLYDDMIKRSIDPDIFTYNSLVNGFCMHDRLDKAKQMFEFMVSKDCFPDVVTYNTLI 407

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
            G+CK+K VE+   L+ EM  +G+    VTY TL  GLF     ++A K+F +M    V 
Sbjct: 408 KGFCKSKRVEDGTELFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDGVP 467

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
            +  TY+  +DGLC NG + +A E+F  ++  + +L I  Y+ +I+G+CK GK++  W+L
Sbjct: 468 PDIMTYSILLDGLCNNGKLEKALEVFDYMQKSEIKLDIYIYTTMIEGMCKAGKVDDGWDL 527

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
           F SL   G+ PNVVTYN MI G C+   + +A+ L   M+  G  PN  T+NTL+   +R
Sbjct: 528 FCSLSLKGVKPNVVTYNTMISGLCSKRLLQEAYALLKKMKEDGPLPNSGTYNTLIRAHLR 587

Query: 243 NNETSKVVELLHRM 256
           + + +   EL+  M
Sbjct: 588 DGDKAASAELIREM 601

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SH26|PP102_ARATH Pentatricopeptide repeat-containing protein At1g63400 OS=Arabidopsis thaliana GN=At1g63400 PE=2 SV=1

 Score =  204 bits (518), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 100/230 (43%), Positives = 139/230 (60%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA +L D MI+R + P+ F YS+LI+GFC+   +D A+ +F  M    C  NVVTYNTLI
Sbjct: 348 EAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLI 407

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
           NG+CK K ++E + L+ EM  +G+    VTY TL HG F+    ++A  +F +M    V 
Sbjct: 408 NGFCKAKRIDEGVELFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSDGVH 467

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
               TYNT +DGLCKNG + +A  +F  L+  K E  I  Y+ +I+G+CK GK+E  W+L
Sbjct: 468 PNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDL 527

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVT 232
           F SL   G+ P+V+ YN MI GFC  G  ++A  LF  M   G  P+  T
Sbjct: 528 FCSLSLKGVKPDVIIYNTMISGFCRKGLKEEADALFRKMREDGPLPDSGT 577

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8T7|PP101_ARATH Pentatricopeptide repeat-containing protein At1g63330 OS=Arabidopsis thaliana GN=At1g63330 PE=2 SV=2

 Score =  202 bits (515), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 99/254 (38%), Positives = 155/254 (61%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA +L D MI+R + P+ F Y++LI+GFC+   +D+A+++F  M    C  ++ TYNTLI
Sbjct: 273 EAEKLHDDMIKRSIDPDIFTYNSLINGFCMHDRLDKAKQMFEFMVSKDCFPDLDTYNTLI 332

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
            G+CK+K VE+   L+ EM  +G+    VTY TL  GLF     ++A K+F +M    V 
Sbjct: 333 KGFCKSKRVEDGTELFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDGVP 392

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
            +  TY+  +DGLC NG + +A E+F  ++  + +L I  Y+ +I+G+CK GK++  W+L
Sbjct: 393 PDIMTYSILLDGLCNNGKLEKALEVFDYMQKSEIKLDIYIYTTMIEGMCKAGKVDDGWDL 452

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
           F SL   G+ PNVVTYN MI G C+   + +A+ L   M+  G  P+  T+NTL+   +R
Sbjct: 453 FCSLSLKGVKPNVVTYNTMISGLCSKRLLQEAYALLKKMKEDGPLPDSGTYNTLIRAHLR 512

Query: 243 NNETSKVVELLHRM 256
           + + +   EL+  M
Sbjct: 513 DGDKAASAELIREM 526

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ASZ8|PPR37_ARATH Pentatricopeptide repeat-containing protein At1g12620 OS=Arabidopsis thaliana GN=At1g12620 PE=2 SV=1

 Score =  199 bits (507), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 101/256 (39%), Positives = 148/256 (57%)

Query: 1   MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNT 60
           + EA  L   MIQRG+ P+   Y++LIDGFC   ++D+A  +   M   GC  N+ T+N 
Sbjct: 333 LREAEELHKEMIQRGISPDTVTYTSLIDGFCKENQLDKANHMLDLMVSKGCGPNIRTFNI 392

Query: 61  LINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD 120
           LINGYCK   +++ L L+ +M  +G+    VTYNTL  G  E+ ++E A +LF EM    
Sbjct: 393 LINGYCKANLIDDGLELFRKMSLRGVVADTVTYNTLIQGFCELGKLEVAKELFQEMVSRR 452

Query: 121 VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAW 180
           V  +  +Y   +DGLC NG   +A E+F  +   K EL I  Y+ +I G+C   K++ AW
Sbjct: 453 VRPDIVSYKILLDGLCDNGEPEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDAW 512

Query: 181 ELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGC 240
           +LF SLP  G+ P+V TYNIMI G C  G + +A  LF  ME  G +PN  T+N L+   
Sbjct: 513 DLFCSLPLKGVKPDVKTYNIMIGGLCKKGSLSEADLLFRKMEEDGHSPNGCTYNILIRAH 572

Query: 241 IRNNETSKVVELLHRM 256
           +   + +K  +L+  +
Sbjct: 573 LGEGDATKSAKLIEEI 588

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WKV3|PPR36_ARATH Pentatricopeptide repeat-containing protein At1g12300, mitochondrial OS=Arabidopsis thaliana GN=At1g12300 PE=2 SV=1

 Score =  197 bits (502), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 101/256 (39%), Positives = 146/256 (57%)

Query: 1   MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNT 60
           + EA  L   MI RG+ P+   Y++LIDGFC    +D+A ++   M   GC  N+ T+N 
Sbjct: 349 LREAEELHKEMIHRGIAPDTITYTSLIDGFCKENHLDKANQMVDLMVSKGCDPNIRTFNI 408

Query: 61  LINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD 120
           LINGYCK   +++ L L+ +M  +G+    VTYNTL  G  E+ ++  A +LF EM    
Sbjct: 409 LINGYCKANRIDDGLELFRKMSLRGVVADTVTYNTLIQGFCELGKLNVAKELFQEMVSRK 468

Query: 121 VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAW 180
           V     TY   +DGLC NG   +A E+F  +   K EL I  Y+ +I G+C   K++ AW
Sbjct: 469 VPPNIVTYKILLDGLCDNGESEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDAW 528

Query: 181 ELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGC 240
           +LF SLP  G+ P V TYNIMI G C  G + +A  LF  ME  G AP+  T+N L+   
Sbjct: 529 DLFCSLPLKGVKPGVKTYNIMIGGLCKKGPLSEAELLFRKMEEDGHAPDGWTYNILIRAH 588

Query: 241 IRNNETSKVVELLHRM 256
           + + + +K V+L+  +
Sbjct: 589 LGDGDATKSVKLIEEL 604

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	260
359479583	627	PREDICTED: pentatricopeptide repeat-cont	0.976	0.405	0.553	2e-74
449529622	618	PREDICTED: pentatricopeptide repeat-cont	0.969	0.407	0.527	2e-73
449520325	605	PREDICTED: pentatricopeptide repeat-cont	0.969	0.416	0.519	1e-71
449462479	580	PREDICTED: pentatricopeptide repeat-cont	0.930	0.417	0.519	1e-71
449462477	597	PREDICTED: pentatricopeptide repeat-cont	0.938	0.408	0.523	1e-70
449520323	605	PREDICTED: pentatricopeptide repeat-cont	0.969	0.416	0.523	1e-70
449491568	412	PREDICTED: pentatricopeptide repeat-cont	0.988	0.623	0.503	2e-66
449444222	588	PREDICTED: pentatricopeptide repeat-cont	0.969	0.428	0.488	5e-66
449458524	481	PREDICTED: putative pentatricopeptide re	0.996	0.538	0.486	9e-64
449444228	585	PREDICTED: pentatricopeptide repeat-cont	0.961	0.427	0.476	2e-63

>gi|359479583|ref|XP_002275680.2| PREDICTED: pentatricopeptide repeat-containing protein At3g22470, mitochondrial-like [Vitis vinifera] gi|297735515|emb|CBI17955.3| unnamed protein product [Vitis vinifera]

 Score =  285 bits (728), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 144/260 (55%), Positives = 177/260 (68%)

Query: 1   MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNT 60
           M+EA+ LL LMIQRG  P+ F Y+TLIDGFCL G ID AR+LFVSM+  G   + V+YN 
Sbjct: 324 MEEANHLLKLMIQRGESPDTFTYNTLIDGFCLEGRIDDARDLFVSMESKGIETDAVSYNV 383

Query: 61  LINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD 120
           LINGYCK+  + E+  LY EM+ K I PTV+TYNTL  GLF   +V  A  LF EM+  D
Sbjct: 384 LINGYCKSGRMVEAKKLYREMMCKEIMPTVITYNTLLTGLFREGKVRDAWNLFGEMKVHD 443

Query: 121 VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAW 180
           +  E+ TYN  +DGLCKN ++ EA ELF  L     +  I+ ++CLIDGLCK  K+E A 
Sbjct: 444 LTPESCTYNILLDGLCKNNHLSEAMELFHYLENHDFQPSIQIFNCLIDGLCKARKIEIAR 503

Query: 181 ELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGC 240
           ELF  L   GL PNV+TY +MIHG C  GQ++ A DLFL ME KG APN VTFNTLM G 
Sbjct: 504 ELFNRLSHEGLEPNVITYTVMIHGLCKSGQLENAKDLFLGMEEKGCAPNLVTFNTLMRGF 563

Query: 241 IRNNETSKVVELLHRMDERN 260
            +N+E  KVVELL  M E++
Sbjct: 564 CQNDEMQKVVELLQEMAEKD 583

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449529622|ref|XP_004171797.1| PREDICTED: pentatricopeptide repeat-containing protein At3g22470, mitochondrial-like [Cucumis sativus]

 Score =  281 bits (719), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 136/258 (52%), Positives = 180/258 (69%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA +LL++MIQRG+ PN   Y++LIDGFC+ G+++ ARELF+SM   G   + ++Y TLI
Sbjct: 325 EAKKLLEVMIQRGIVPNLITYNSLIDGFCMVGDLNSARELFLSMPSKGLEPDEISYTTLI 384

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
           NGYCKT  V+E++NLY+EML  G  P V TY TL  GLF+  +V  A KLF  M+   V+
Sbjct: 385 NGYCKTWKVKEAMNLYNEMLQVGKSPNVTTYGTLLKGLFQKGKVGDAKKLFGVMKTYGVS 444

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
           A +  Y  F+DGLCKN  + EA ELF  L+    +L IE YSCLIDGLCK GKLETAWEL
Sbjct: 445 ANSQIYGIFLDGLCKNDCLFEAMELFNELKSYNFKLNIENYSCLIDGLCKAGKLETAWEL 504

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
           F+ L + GL P+VVTYNIMIHGFC  GQ+D A+ LF  ME  G  P+ + +NTL+ G   
Sbjct: 505 FEKLSQEGLQPDVVTYNIMIHGFCKVGQVDNANILFEKMEENGCTPDIIAYNTLLCGFCE 564

Query: 243 NNETSKVVELLHRMDERN 260
            N+  +V++LLH+M +++
Sbjct: 565 GNKLEEVIKLLHKMVQKD 582

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449520325|ref|XP_004167184.1| PREDICTED: pentatricopeptide repeat-containing protein At3g22470, mitochondrial-like [Cucumis sativus]

 Score =  275 bits (704), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 134/258 (51%), Positives = 181/258 (70%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA +LL +MI+ G+ P+   Y++LI+GFC+ G+++ ARELFVSM   GC  +V++YN LI
Sbjct: 303 EAKKLLGVMIESGIVPDLVTYNSLIEGFCMVGDLNSARELFVSMPSKGCEPDVISYNVLI 362

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
           NGY KT  VEE++ LY+EML  G RP V+TY++L  G+F   +V+ A KLF  M+   +A
Sbjct: 363 NGYSKTLKVEEAMKLYNEMLLVGKRPNVITYDSLLKGIFLAGKVDDAKKLFSVMKAHGIA 422

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
             + TY  F+DGLCKN  + EA +LF  L+    +L IE  +CLIDGLCK GKLETAWEL
Sbjct: 423 ENSYTYGIFLDGLCKNDCLFEAMKLFTELKSSNFKLEIENLNCLIDGLCKAGKLETAWEL 482

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
           F+ L   G  PNVVTY IMIHGFC +GQ+DKA+ L   MEA G  P+ +T+NTLM G   
Sbjct: 483 FEKLSNEGHEPNVVTYTIMIHGFCREGQVDKANVLIQKMEANGCTPDIITYNTLMRGFYE 542

Query: 243 NNETSKVVELLHRMDERN 260
           +N+  +VV+LLHRM +++
Sbjct: 543 SNKLEEVVQLLHRMAQKD 560

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449462479|ref|XP_004148968.1| PREDICTED: pentatricopeptide repeat-containing protein At3g22470, mitochondrial-like [Cucumis sativus]

 Score =  275 bits (704), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 134/258 (51%), Positives = 181/258 (70%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA +LL +MI+ G+ P+   Y++LI+GFC+ G+++ ARELFVSM   GC  +V++YN LI
Sbjct: 278 EAKKLLGVMIESGIVPDLVTYNSLIEGFCMVGDLNSARELFVSMPSKGCEPDVISYNVLI 337

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
           NGY KT  VEE++ LY+EML  G RP V+TY++L  G+F   +V+ A KLF  M+   +A
Sbjct: 338 NGYSKTLKVEEAMKLYNEMLLVGKRPNVITYDSLLKGIFLAGKVDDAKKLFSVMKAHGIA 397

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
             + TY  F+DGLCKN  + EA +LF  L+    +L IE  +CLIDGLCK GKLETAWEL
Sbjct: 398 ENSYTYGIFLDGLCKNDCLFEAMKLFTELKSSNFKLEIENLNCLIDGLCKAGKLETAWEL 457

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
           F+ L   G  PNVVTY IMIHGFC +GQ+DKA+ L   MEA G  P+ +T+NTLM G   
Sbjct: 458 FEKLSNEGHEPNVVTYTIMIHGFCREGQVDKANVLIQKMEANGCTPDIITYNTLMRGFYE 517

Query: 243 NNETSKVVELLHRMDERN 260
           +N+  +VV+LLHRM +++
Sbjct: 518 SNKLEEVVQLLHRMAQKD 535

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449462477|ref|XP_004148967.1| PREDICTED: pentatricopeptide repeat-containing protein At3g22470, mitochondrial-like [Cucumis sativus]

 Score =  272 bits (695), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 135/258 (52%), Positives = 174/258 (67%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA  LL++MIQRG+ PN   Y++LI+GFCL G+++ ARELFVSM   GC  +V+ Y  LI
Sbjct: 322 EAKDLLEVMIQRGIVPNLLTYNSLIEGFCLVGDLNSARELFVSMPSKGCEPDVICYTVLI 381

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
           NGYCKT  VEE++ LY+ ML  G RP V TY  L  GLF+  +V  A KLF  M+   + 
Sbjct: 382 NGYCKTSKVEEAMKLYNGMLQVGKRPDVKTYGALLTGLFQGGKVGDAKKLFGVMKVYGIP 441

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
            +   Y  F++GLCKNG + EA ELF  L+    +L IE ++CLIDGLCK GKLETAWEL
Sbjct: 442 GDLYIYGIFLNGLCKNGCLFEAMELFNKLKSYNIKLDIECFNCLIDGLCKAGKLETAWEL 501

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
           F+ LP+  L P+VVTYNIMIH FC  GQ+ KA+ LF  ME  G  P+ +T+ TL+ G   
Sbjct: 502 FEKLPQEELQPDVVTYNIMIHEFCRGGQVVKANILFQKMEKNGCTPDKITYATLIRGFFE 561

Query: 243 NNETSKVVELLHRMDERN 260
           + +  KVVELLH M +R+
Sbjct: 562 SKKLEKVVELLHMMVQRD 579

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449520323|ref|XP_004167183.1| PREDICTED: pentatricopeptide repeat-containing protein At3g22470, mitochondrial-like [Cucumis sativus]

 Score =  271 bits (694), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 135/258 (52%), Positives = 174/258 (67%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA  LL++MIQRG+ PN   Y++LI+GFCL G+++ ARELFVSM   GC  +V+ Y  LI
Sbjct: 330 EAKDLLEVMIQRGIVPNLLTYNSLIEGFCLVGDLNSARELFVSMPSKGCEPDVICYTVLI 389

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
           NGYCKT  VEE++ LY+ ML  G RP V TY  L  GLF+  +V  A KLF  M+   + 
Sbjct: 390 NGYCKTSKVEEAMKLYNGMLQVGKRPDVKTYGALLTGLFQGGKVGDAKKLFGVMKVYGIP 449

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
            +   Y  F++GLCKNG + EA ELF  L+    +L IE ++CLIDGLCK GKLETAWEL
Sbjct: 450 GDLYIYGIFLNGLCKNGCLFEAMELFNKLKSYNIKLDIECFNCLIDGLCKAGKLETAWEL 509

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
           F+ LP+  L P+VVTYNIMIH FC  GQ+ KA+ LF  ME  G  P+ +T+ TL+ G   
Sbjct: 510 FEKLPQEELQPDVVTYNIMIHEFCRGGQVVKANILFQKMEKNGCTPDKITYATLIRGFFE 569

Query: 243 NNETSKVVELLHRMDERN 260
           + +  KVVELLH M +R+
Sbjct: 570 SKKLEKVVELLHMMVQRD 587

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449491568|ref|XP_004158939.1| PREDICTED: pentatricopeptide repeat-containing protein At3g22470, mitochondrial-like [Cucumis sativus]

 Score =  258 bits (659), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 131/260 (50%), Positives = 174/260 (66%), Gaps = 3/260 (1%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA +LL++ IQRG+  +   Y++LIDGFC  G++  AR+LF+SM   GC HN ++Y  LI
Sbjct: 150 EAKKLLEVTIQRGIILDLVTYNSLIDGFCKIGDLSSARKLFLSMPSKGCEHNEISYTILI 209

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
           NGYCK   VEE++NLY+EM   G RP V TY+TL  GL +  +V  A KLF  M+ S ++
Sbjct: 210 NGYCKIWKVEEAMNLYNEMPQVGKRPNVKTYSTLLTGLLQTGKVGDANKLFGVMKASGIS 269

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
            ++  Y  F+DGLCKNG + EA ELF  L+    +L  E+YS LIDGLCK GK+E AWE 
Sbjct: 270 VDSCIYVIFLDGLCKNGVLFEAMELFNELKSYNFKLDFESYSRLIDGLCKAGKVEIAWEF 329

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA---KGVAPNCVTFNTLMLG 239
           F+ L + GL PNVVT NIMIHGFC   Q+DKA+ LF  ME     G  P+ +T+NTL+ G
Sbjct: 330 FKQLSQEGLQPNVVTCNIMIHGFCRVEQVDKANILFEKMEKMEENGCTPDIITYNTLLRG 389

Query: 240 CIRNNETSKVVELLHRMDER 259
              +N+  +VV LLH+M +R
Sbjct: 390 FCESNKLEEVVNLLHKMFKR 409

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449444222|ref|XP_004139874.1| PREDICTED: pentatricopeptide repeat-containing protein At1g62910-like [Cucumis sativus] gi|449492651|ref|XP_004159061.1| PREDICTED: pentatricopeptide repeat-containing protein At1g62910-like [Cucumis sativus]

 Score =  256 bits (655), Expect = 5e-66,   Method: Compositional matrix adjust.
 Identities = 126/258 (48%), Positives = 173/258 (67%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           +A +LL++MIQ G+ PN F Y++LI GFCL G+++ A+ELFVSM   G   +V++YN LI
Sbjct: 290 KAKKLLEMMIQIGIVPNLFTYTSLIKGFCLVGDLNSAKELFVSMPSKGYEPDVISYNMLI 349

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
           NGYCKT  VEE++ L++EML  G+ P V T   L   LF   +V+ A +LF  ++   + 
Sbjct: 350 NGYCKTLKVEEAMKLFNEMLHVGMWPDVKTSGVLLKALFLAGKVDDAKELFRVIKPYAMP 409

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
            +      F+DGLCKNGYI EA +LF  L     +L IE + CLIDGLCK GKLETAWEL
Sbjct: 410 KDLCICCIFLDGLCKNGYIFEAMKLFNELESYNMKLDIETFGCLIDGLCKAGKLETAWEL 469

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
           F+ L   G+ P+ + Y+ MIHGFC  GQ+DKA+ LF  ME  G +P+ +T++ LM G   
Sbjct: 470 FEKLYEEGIQPDAMAYSSMIHGFCKKGQVDKANILFQKMEENGCSPDLITYSILMRGFYE 529

Query: 243 NNETSKVVELLHRMDERN 260
           +N+  KVV+LLHRM E++
Sbjct: 530 SNKLEKVVQLLHRMIEKD 547

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449458524|ref|XP_004146997.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g12700, mitochondrial-like [Cucumis sativus]

 Score =  249 bits (636), Expect = 9e-64,   Method: Compositional matrix adjust.
 Identities = 129/265 (48%), Positives = 173/265 (65%), Gaps = 6/265 (2%)

Query: 1   MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEI---DRARELFVSMDINGCMHNVVT 57
           ++E+ RL + M+ +GV+PN   ++ LID  C  G+I     AR+LF+SM   GC HN ++
Sbjct: 214 LEESKRLFNEMVDQGVQPNLVQFNVLIDILCKEGKIGDLSSARKLFLSMPSKGCEHNEIS 273

Query: 58  YNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQ 117
           Y  LINGYCK   VEE++NLY+EM   G RP V TY+TL  GL +  +V  A KLF  M+
Sbjct: 274 YTILINGYCKIWKVEEAMNLYNEMPQVGKRPNVKTYSTLLTGLLQTGKVGDANKLFGVMK 333

Query: 118 HSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLE 177
            S ++ ++  Y  F+DGLCKNG + EA ELF  L+    +L  E+YS LIDGLCK GK+E
Sbjct: 334 ASGISVDSCIYVIFLDGLCKNGVLFEAMELFNELKSYNFKLDFESYSRLIDGLCKAGKVE 393

Query: 178 TAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA---KGVAPNCVTFN 234
            AWE F+ L + GL PNVVT NIMIHGFC   Q+DKA+ LF  ME     G  P+ +T+N
Sbjct: 394 IAWEFFKQLSQEGLQPNVVTCNIMIHGFCRVEQVDKANILFEKMEKMEENGCTPDIITYN 453

Query: 235 TLMLGCIRNNETSKVVELLHRMDER 259
           TL+ G   +N+  +VV LLH+M +R
Sbjct: 454 TLLRGFCESNKLEEVVNLLHKMFKR 478

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449444228|ref|XP_004139877.1| PREDICTED: pentatricopeptide repeat-containing protein At1g62910-like [Cucumis sativus] gi|449492643|ref|XP_004159059.1| PREDICTED: pentatricopeptide repeat-containing protein At1g62910-like [Cucumis sativus]

 Score =  248 bits (632), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 123/258 (47%), Positives = 175/258 (67%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA + L+ M+ RG+ P+ F +++LI+GFCL G++D A+ELF+SM   G   +V++Y  LI
Sbjct: 290 EAKKFLETMMLRGIVPDLFTFTSLIEGFCLVGDLDSAKELFLSMPSKGYEPDVISYTVLI 349

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
            GYCKT +VEE++ LY+EML  G  P + T+  L  GLF   +V  A KLF  ++   V 
Sbjct: 350 YGYCKTFNVEEAMKLYNEMLRVGKWPDMKTFCVLLKGLFLAGKVGDAKKLFGVVKPHAVP 409

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
                 + F+DGLCKNG + EA ELF  L+    +L IE+++CLIDGLCK  KLETAWEL
Sbjct: 410 KNLYICSVFLDGLCKNGCLFEAMELFNELKSYNMKLDIESFNCLIDGLCKARKLETAWEL 469

Query: 183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
           F+ L + GL P+VVTY IMI+GFC +GQ+D A+ LF  ME  G  PN +T++ L+ G  +
Sbjct: 470 FEKLSQEGLQPDVVTYCIMINGFCKNGQVDNANILFQMMEENGCTPNLLTYSALLHGFYK 529

Query: 243 NNETSKVVELLHRMDERN 260
           NN+  +VV+LLH+M +++
Sbjct: 530 NNKLEEVVKLLHKMIQKD 547

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	260
TAIR|locus:2015228	614	AT1G63080 [Arabidopsis thalian	0.976	0.413	0.409	3.8e-53
TAIR|locus:2015494	629	RPF3 "RNA processing factor 3"	0.976	0.403	0.425	3.8e-53
TAIR|locus:2015208	630	AT1G63130 [Arabidopsis thalian	0.976	0.403	0.413	1e-52
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.976	0.403	0.413	7.2e-52
TAIR|locus:2203916	634	AT1G62590 [Arabidopsis thalian	0.976	0.400	0.397	1.3e-50
TAIR|locus:2031301	577	AT1G63400 [Arabidopsis thalian	0.884	0.398	0.434	1.2e-49
TAIR|locus:2195047	621	AT1G12620 [Arabidopsis thalian	0.976	0.409	0.397	2.9e-48
TAIR|locus:2034760	637	AT1G12300 [Arabidopsis thalian	0.976	0.398	0.397	6e-48
TAIR|locus:2015218	590	AT1G63070 [Arabidopsis thalian	0.976	0.430	0.384	2.6e-47
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.976	0.410	0.389	3.3e-47

TAIR|locus:2015228 AT1G63080 [Arabidopsis thaliana (taxid:3702)]

 Score = 550 (198.7 bits), Expect = 3.8e-53, P = 3.8e-53
 Identities = 104/254 (40%), Positives = 155/254 (61%)

Query:     3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
             EA +L D MIQR + PN   Y++LI+GFC+   +D A+++F  M    C+ +VVTYNTLI
Sbjct:   328 EAEKLFDEMIQRSIDPNIVTYNSLINGFCMHDRLDEAQQIFTLMVSKDCLPDVVTYNTLI 387

Query:    63 NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
             NG+CK K V + + L+ +M  +G+    VTY TL HG F+    ++A  +F +M    V 
Sbjct:   388 NGFCKAKKVVDGMELFRDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQMVFKQMVSDGVH 447

Query:   123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
                 TYNT +DGLCKNG + +A  +F  L+  K E  I  Y+ + +G+CK GK+E  W+L
Sbjct:   448 PNIMTYNTLLDGLCKNGKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGMCKAGKVEDGWDL 507

Query:   183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
             F SL   G+ P+V+ YN MI GFC  G  ++A+ LF+ M+  G  P+  T+NTL+   +R
Sbjct:   508 FCSLSLKGVKPDVIAYNTMISGFCKKGLKEEAYTLFIKMKEDGPLPDSGTYNTLIRAHLR 567

Query:   243 NNETSKVVELLHRM 256
             + + +   EL+  M
Sbjct:   568 DGDKAASAELIKEM 581

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2015494 RPF3 "RNA processing factor 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 550 (198.7 bits), Expect = 3.8e-53, P = 3.8e-53
 Identities = 108/254 (42%), Positives = 153/254 (60%)

Query:     3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
             EA +L D MI+R + P+ F YS+LI+GFC+   +D A+ +F  M    C  NVVTYNTLI
Sbjct:   343 EAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLI 402

Query:    63 NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
              G+CK K VEE + L+ EM  +G+    VTYNTL  GLF+    + A K+F +M    V 
Sbjct:   403 KGFCKAKRVEEGMELFREMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVP 462

Query:   123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
              +  TY+  +DGLCK G + +A  +F  L+  K E  I  Y+ +I+G+CK GK+E  W+L
Sbjct:   463 PDIITYSILLDGLCKYGKLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGWDL 522

Query:   183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
             F SL   G+ PNV+ Y  MI GFC  G  ++A  LF +M+  G  PN  T+NTL+   +R
Sbjct:   523 FCSLSLKGVKPNVIIYTTMISGFCRKGLKEEADALFREMKEDGTLPNSGTYNTLIRARLR 582

Query:   243 NNETSKVVELLHRM 256
             + + +   EL+  M
Sbjct:   583 DGDKAASAELIKEM 596

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006397 "mRNA processing" evidence=IMP

TAIR|locus:2015208 AT1G63130 [Arabidopsis thaliana (taxid:3702)]

 Score = 546 (197.3 bits), Expect = 1.0e-52, P = 1.0e-52
 Identities = 105/254 (41%), Positives = 154/254 (60%)

Query:     3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
             EA +L D MI+R + P+ F YS+LI+GFC+   +D A+ +F  M    C  NVVTYNTLI
Sbjct:   344 EAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLI 403

Query:    63 NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
              G+CK K V+E + L+ EM  +G+    VTY TL HG F+  + ++A  +F +M    V 
Sbjct:   404 KGFCKAKRVDEGMELFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQMVSDGVL 463

Query:   123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
              +  TY+  +DGLC NG +  A  +F  L+  K E  I  Y+ +I+G+CK GK+E  W+L
Sbjct:   464 PDIMTYSILLDGLCNNGKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGKVEDGWDL 523

Query:   183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
             F SL   G+ PNVVTY  M+ GFC  G  ++A  LF +M+ +G  P+  T+NTL+   +R
Sbjct:   524 FCSLSLKGVKPNVVTYTTMMSGFCRKGLKEEADALFREMKEEGPLPDSGTYNTLIRAHLR 583

Query:   243 NNETSKVVELLHRM 256
             + + +   EL+  M
Sbjct:   584 DGDKAASAELIREM 597

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2026192 RPF2 "rna processing factor 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 538 (194.4 bits), Expect = 7.2e-52, P = 7.2e-52
 Identities = 105/254 (41%), Positives = 152/254 (59%)

Query:     3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
             EA +L D M++R + P+   YS+LI+GFC+   +D A+++F  M    C  +VVTYNTLI
Sbjct:   344 EAEKLYDEMVKRSIDPSIVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLI 403

Query:    63 NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
              G+CK K VEE + ++ EM  +G+    VTYN L  GLF+    + A ++F EM    V 
Sbjct:   404 KGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVP 463

Query:   123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
                 TYNT +DGLCKNG + +A  +F  L+  K E  I  Y+ +I+G+CK GK+E  W+L
Sbjct:   464 PNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDL 523

Query:   183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
             F +L   G+ P+VV YN MI GFC  G  ++A  LF +M+  G  PN   +NTL+   +R
Sbjct:   524 FCNLSLKGVKPDVVAYNTMISGFCRKGSKEEADALFKEMKEDGTLPNSGCYNTLIRARLR 583

Query:   243 NNETSKVVELLHRM 256
             + +     EL+  M
Sbjct:   584 DGDREASAELIKEM 597

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0000966 "RNA 5'-end processing" evidence=IMP

GO:0003723 "RNA binding" evidence=IDA

TAIR|locus:2203916 AT1G62590 [Arabidopsis thaliana (taxid:3702)]

 Score = 526 (190.2 bits), Expect = 1.3e-50, P = 1.3e-50
 Identities = 101/254 (39%), Positives = 156/254 (61%)

Query:     3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
             EA +L D MI+R + P+ F Y++L++GFC+   +D+A+++F  M    C  +VVTYNTLI
Sbjct:   348 EAEKLYDDMIKRSIDPDIFTYNSLVNGFCMHDRLDKAKQMFEFMVSKDCFPDVVTYNTLI 407

Query:    63 NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
              G+CK+K VE+   L+ EM  +G+    VTY TL  GLF     ++A K+F +M    V 
Sbjct:   408 KGFCKSKRVEDGTELFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDGVP 467

Query:   123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
              +  TY+  +DGLC NG + +A E+F  ++  + +L I  Y+ +I+G+CK GK++  W+L
Sbjct:   468 PDIMTYSILLDGLCNNGKLEKALEVFDYMQKSEIKLDIYIYTTMIEGMCKAGKVDDGWDL 527

Query:   183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
             F SL   G+ PNVVTYN MI G C+   + +A+ L   M+  G  PN  T+NTL+   +R
Sbjct:   528 FCSLSLKGVKPNVVTYNTMISGLCSKRLLQEAYALLKKMKEDGPLPNSGTYNTLIRAHLR 587

Query:   243 NNETSKVVELLHRM 256
             + + +   EL+  M
Sbjct:   588 DGDKAASAELIREM 601

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 517 (187.1 bits), Expect = 1.2e-49, P = 1.2e-49
 Identities = 100/230 (43%), Positives = 139/230 (60%)

Query:     3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
             EA +L D MI+R + P+ F YS+LI+GFC+   +D A+ +F  M    C  NVVTYNTLI
Sbjct:   348 EAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLI 407

Query:    63 NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
             NG+CK K ++E + L+ EM  +G+    VTY TL HG F+    ++A  +F +M    V 
Sbjct:   408 NGFCKAKRIDEGVELFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSDGVH 467

Query:   123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
                 TYNT +DGLCKNG + +A  +F  L+  K E  I  Y+ +I+G+CK GK+E  W+L
Sbjct:   468 PNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDL 527

Query:   183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVT 232
             F SL   G+ P+V+ YN MI GFC  G  ++A  LF  M   G  P+  T
Sbjct:   528 FCSLSLKGVKPDVIIYNTMISGFCRKGLKEEADALFRKMREDGPLPDSGT 577

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2195047 AT1G12620 [Arabidopsis thaliana (taxid:3702)]

 Score = 504 (182.5 bits), Expect = 2.9e-48, P = 2.9e-48
 Identities = 101/254 (39%), Positives = 147/254 (57%)

Query:     3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
             EA  L   MIQRG+ P+   Y++LIDGFC   ++D+A  +   M   GC  N+ T+N LI
Sbjct:   335 EAEELHKEMIQRGISPDTVTYTSLIDGFCKENQLDKANHMLDLMVSKGCGPNIRTFNILI 394

Query:    63 NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
             NGYCK   +++ L L+ +M  +G+    VTYNTL  G  E+ ++E A +LF EM    V 
Sbjct:   395 NGYCKANLIDDGLELFRKMSLRGVVADTVTYNTLIQGFCELGKLEVAKELFQEMVSRRVR 454

Query:   123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
              +  +Y   +DGLC NG   +A E+F  +   K EL I  Y+ +I G+C   K++ AW+L
Sbjct:   455 PDIVSYKILLDGLCDNGEPEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDAWDL 514

Query:   183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
             F SLP  G+ P+V TYNIMI G C  G + +A  LF  ME  G +PN  T+N L+   + 
Sbjct:   515 FCSLPLKGVKPDVKTYNIMIGGLCKKGSLSEADLLFRKMEEDGHSPNGCTYNILIRAHLG 574

Query:   243 NNETSKVVELLHRM 256
               + +K  +L+  +
Sbjct:   575 EGDATKSAKLIEEI 588

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2034760 AT1G12300 [Arabidopsis thaliana (taxid:3702)]

 Score = 501 (181.4 bits), Expect = 6.0e-48, P = 6.0e-48
 Identities = 101/254 (39%), Positives = 145/254 (57%)

Query:     3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
             EA  L   MI RG+ P+   Y++LIDGFC    +D+A ++   M   GC  N+ T+N LI
Sbjct:   351 EAEELHKEMIHRGIAPDTITYTSLIDGFCKENHLDKANQMVDLMVSKGCDPNIRTFNILI 410

Query:    63 NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
             NGYCK   +++ L L+ +M  +G+    VTYNTL  G  E+ ++  A +LF EM    V 
Sbjct:   411 NGYCKANRIDDGLELFRKMSLRGVVADTVTYNTLIQGFCELGKLNVAKELFQEMVSRKVP 470

Query:   123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
                 TY   +DGLC NG   +A E+F  +   K EL I  Y+ +I G+C   K++ AW+L
Sbjct:   471 PNIVTYKILLDGLCDNGESEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDAWDL 530

Query:   183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
             F SLP  G+ P V TYNIMI G C  G + +A  LF  ME  G AP+  T+N L+   + 
Sbjct:   531 FCSLPLKGVKPGVKTYNIMIGGLCKKGPLSEAELLFRKMEEDGHAPDGWTYNILIRAHLG 590

Query:   243 NNETSKVVELLHRM 256
             + + +K V+L+  +
Sbjct:   591 DGDATKSVKLIEEL 604

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2015218 AT1G63070 [Arabidopsis thaliana (taxid:3702)]

 Score = 495 (179.3 bits), Expect = 2.6e-47, P = 2.6e-47
 Identities = 98/255 (38%), Positives = 148/255 (58%)

Query:     3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSM-DINGCMHNVVTYNTL 61
             +ASRLL  M+++ + P+   ++ LID F   G++  A +L+  M     C  +VV YNTL
Sbjct:   303 DASRLLSDMLEKNINPDLVFFNALIDAFVKEGKLVEAEKLYDEMVKSKHCFPDVVAYNTL 362

Query:    62 INGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDV 121
             I G+CK K VEE + ++ EM  +G+    VTY TL HG F+    ++A  +F +M    V
Sbjct:   363 IKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSDGV 422

Query:   122 AAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWE 181
               +  TYN  +DGLC NG +  A  +F  ++    +L I  Y+ +I+ LCK GK+E  W+
Sbjct:   423 HPDIMTYNILLDGLCNNGNVETALVVFEYMQKRDMKLDIVTYTTMIEALCKAGKVEDGWD 482

Query:   182 LFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCI 241
             LF SL   G+ PNVVTY  M+ GFC  G  ++A  LF++M+  G  PN  T+NTL+   +
Sbjct:   483 LFCSLSLKGVKPNVVTYTTMMSGFCRKGLKEEADALFVEMKEDGPLPNSGTYNTLIRARL 542

Query:   242 RNNETSKVVELLHRM 256
             R+ + +   EL+  M
Sbjct:   543 RDGDEAASAELIKEM 557

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 494 (179.0 bits), Expect = 3.3e-47, P = 3.3e-47
 Identities = 99/254 (38%), Positives = 145/254 (57%)

Query:     3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
             EA  L + MI RG+ P+   Y++LIDGFC    +  A ++F  M   GC  ++VTY+ LI
Sbjct:   333 EAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILI 392

Query:    63 NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
             N YCK K V++ + L+ E+ SKG+ P  +TYNTL  G  +  ++  A +LF EM    V 
Sbjct:   393 NSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQSGKLNAAKELFQEMVSRGVP 452

Query:   123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL 182
                 TY   +DGLC NG + +A E+F  ++  +  LGI  Y+ +I G+C   K++ AW L
Sbjct:   453 PSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAWSL 512

Query:   183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR 242
             F SL   G+ P+VVTYN+MI G C  G + +A  LF  M+  G  P+  T+N L+   + 
Sbjct:   513 FCSLSDKGVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDGCTPDDFTYNILIRAHLG 572

Query:   243 NNETSKVVELLHRM 256
              +     VEL+  M
Sbjct:   573 GSGLISSVELIEEM 586

GO:0003674 "molecular_function" evidence=ND

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

Your Input: GSVIVG00023872001 SubName- Full=Chromosome chr7 scaffold_31, whole genome shotgun sequence; (660 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	260
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-27
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	9e-22
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-21
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-21
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-20
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-19
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-17
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-15
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-15
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-14
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-13
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-13
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-12
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-12
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-11
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-11
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-10
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-09
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	7e-09
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-09
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-08
pfam01535	31	pfam01535, PPR, PPR repeat	9e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-07
pfam01535	31	pfam01535, PPR, PPR repeat	3e-07
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-06
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	3e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	2e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.002
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.002
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.002
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
pfam01535	31	pfam01535, PPR, PPR repeat	0.002

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

 Score =  109 bits (274), Expect = 4e-27
 Identities = 54/240 (22%), Positives = 109/240 (45%), Gaps = 6/240 (2%)

Query: 10  LMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNV----VTYNTLINGY 65
           +M  + V+P+  V++ LI     +G +DRA ++   M      H +    +T   L+   
Sbjct: 532 IMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAET--HPIDPDHITVGALMKAC 589

Query: 66  CKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAET 125
                V+ +  +Y  +    I+ T   Y    +   +    + AL ++D+M+   V  + 
Sbjct: 590 ANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDE 649

Query: 126 STYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQS 185
             ++  +D     G + +A E+ +  R    +LG  +YS L+         + A EL++ 
Sbjct: 650 VFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYED 709

Query: 186 LPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNE 245
           +  + L P V T N +I   C   Q+ KA ++  +M+  G+ PN +T++ L++   R ++
Sbjct: 710 IKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDD 769

Length = 1060

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

 Score = 93.8 bits (233), Expect = 9e-22
 Identities = 64/262 (24%), Positives = 120/262 (45%), Gaps = 20/262 (7%)

Query: 2   DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTL 61
           D A R+L L+ + G++ +  +Y+TLI     +G++D   E+F  M   G   NV T+  L
Sbjct: 454 DGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGAL 513

Query: 62  INGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDV 121
           I+G  +   V ++   Y  M SK ++P  V +N L     +   V+ A  +  EM+    
Sbjct: 514 IDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMK---- 569

Query: 122 AAETS-------TYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGI----EAYSCLIDGL 170
            AET        T    +      G +  A E+++ +     E  I    E Y+  ++  
Sbjct: 570 -AETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIH----EYNIKGTPEVYTIAVNSC 624

Query: 171 CKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNC 230
            + G  + A  ++  + + G+ P+ V ++ ++    + G +DKA ++  D   +G+    
Sbjct: 625 SQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGT 684

Query: 231 VTFNTLMLGCIRNNETSKVVEL 252
           V++++LM  C       K +EL
Sbjct: 685 VSYSSLMGACSNAKNWKKALEL 706

Length = 1060

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

 Score = 93.0 bits (231), Expect = 2e-21
 Identities = 50/232 (21%), Positives = 102/232 (43%)

Query: 16  VRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESL 75
           + P+      L+      G++DRA+E++  +           Y   +N   +  D + +L
Sbjct: 575 IDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFAL 634

Query: 76  NLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGL 135
           ++Y +M  KG++P  V ++ L         ++ A ++  + +   +   T +Y++ +   
Sbjct: 635 SIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGAC 694

Query: 136 CKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNV 195
                  +A EL+  ++ +K    +   + LI  LC+  +L  A E+   + R+GL PN 
Sbjct: 695 SNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNT 754

Query: 196 VTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETS 247
           +TY+I++         D   DL    +  G+ PN V    +   C+R  E +
Sbjct: 755 ITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKA 806

Length = 1060

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

 Score = 91.1 bits (226), Expect = 9e-21
 Identities = 68/293 (23%), Positives = 126/293 (43%), Gaps = 47/293 (16%)

Query: 1   MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNT 60
             EA ++   M  +    +A  ++ +I G+   G  D+A E +  M+ +    + +T  +
Sbjct: 339 WGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIAS 394

Query: 61  LINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD 120
           +++      D++  + L+     KG+   VV  N L     +   ++ AL++F  +   D
Sbjct: 395 VLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKD 454

Query: 121 VAAETSTYNTFIDGLCKNGYIVEAAELFRTLR---------------------------- 152
           V + TS     I GL  N    EA   FR +                             
Sbjct: 455 VISWTS----IIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKE 510

Query: 153 ----VLKCELGIEAY--SCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFC 206
               VL+  +G + +  + L+D   + G++  AW  F S  +     +VV++NI++ G+ 
Sbjct: 511 IHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEK-----DVVSWNILLTGYV 565

Query: 207 NDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDER 259
             G+   A +LF  M   GV P+ VTF +L+  C R+   ++ +E  H M+E+
Sbjct: 566 AHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEK 618

Length = 857

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

 Score = 89.9 bits (223), Expect = 2e-20
 Identities = 65/239 (27%), Positives = 112/239 (46%), Gaps = 10/239 (4%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA  L   M + G       +  ++      G     ++L   +   G + +      LI
Sbjct: 207 EAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALI 266

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIH-QVEHALKLFDEMQHSDV 121
           + Y K  D+E++  ++  M  K    T V +N++  G + +H   E AL L+ EM+ S V
Sbjct: 267 DMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAG-YALHGYSEEALCLYYEMRDSGV 321

Query: 122 AAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWE 181
           + +  T++  I    +   +  A +    L      L I A + L+D   K G++E A  
Sbjct: 322 SIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARN 381

Query: 182 LFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGC 240
           +F  +PR     N++++N +I G+ N G+  KA ++F  M A+GVAPN VTF  ++  C
Sbjct: 382 VFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSAC 436

Length = 697

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

 Score = 77.4 bits (192), Expect = 6e-19
 Identities = 28/47 (59%), Positives = 36/47 (76%)

Query: 54  NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGL 100
           +VVTYNTLI+GYCK   VEE+L L++EM  +GI+P V TY+ L  GL
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 74.0 bits (183), Expect = 1e-17
 Identities = 20/48 (41%), Positives = 34/48 (70%)

Query: 193 PNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGC 240
           P+VVTYN +I G+C  G++++A  LF +M+ +G+ PN  T++ L+ G 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 78.4 bits (193), Expect = 2e-16
 Identities = 45/171 (26%), Positives = 81/171 (47%), Gaps = 1/171 (0%)

Query: 2   DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTL 61
           D A  + D M ++GV+P+   +S L+D     G++D+A E+       G     V+Y++L
Sbjct: 631 DFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSL 690

Query: 62  INGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDV 121
           +      K+ +++L LY ++ S  +RPTV T N L   L E +Q+  AL++  EM+   +
Sbjct: 691 MGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGL 750

Query: 122 AAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCK 172
              T TY+  +    +        +L    +    +  +    C+  GLC 
Sbjct: 751 CPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLCL 800

Length = 1060

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

 Score = 67.8 bits (167), Expect = 2e-15
 Identities = 23/46 (50%), Positives = 31/46 (67%)

Query: 162 AYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCN 207
            Y+ LIDG CK GK+E A +LF  + + G+ PNV TY+I+I G C 
Sbjct: 5   TYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 74.9 bits (184), Expect = 3e-15
 Identities = 54/252 (21%), Positives = 110/252 (43%), Gaps = 10/252 (3%)

Query: 11  MIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKD 70
           M+  GV  N   +  LIDG    G++ +A   +  M       + V +N LI+   ++  
Sbjct: 498 MVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGA 557

Query: 71  VEESLNLYSEML--SKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTY 128
           V+ + ++ +EM   +  I P  +T   L        QV+ A +++  +   ++      Y
Sbjct: 558 VDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVY 617

Query: 129 NTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEA----YSCLIDGLCKIGKLETAWELFQ 184
              ++   + G    A  ++  ++    + G++     +S L+D     G L+ A+E+ Q
Sbjct: 618 TIAVNSCSQKGDWDFALSIYDDMK----KKGVKPDEVFFSALVDVAGHAGDLDKAFEILQ 673

Query: 185 SLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNN 244
              + G+    V+Y+ ++    N     KA +L+ D+++  + P   T N L+      N
Sbjct: 674 DARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGN 733

Query: 245 ETSKVVELLHRM 256
           +  K +E+L  M
Sbjct: 734 QLPKALEVLSEM 745

Length = 1060

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

 Score = 65.9 bits (162), Expect = 1e-14
 Identities = 23/50 (46%), Positives = 32/50 (64%)

Query: 18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCK 67
          P+   Y+TLIDG+C  G+++ A +LF  M   G   NV TY+ LI+G CK
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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 69.5 bits (170), Expect = 2e-13
 Identities = 70/292 (23%), Positives = 111/292 (38%), Gaps = 53/292 (18%)

Query: 5   SRLLDLMIQRGVR-PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLIN 63
           SR L      GVR  NA      +  F   GE+  A  +F  M       ++ ++N L+ 
Sbjct: 110 SRALSSHPSLGVRLGNAM-----LSMFVRFGELVHAWYVFGKMP----ERDLFSWNVLVG 160

Query: 64  GYCKTKDVEESLNLYSEMLSKGIRPTVVTY------------------------------ 93
           GY K    +E+L LY  ML  G+RP V T+                              
Sbjct: 161 GYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFEL 220

Query: 94  -----NTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELF 148
                N L     +   V  A  +FD M   D      ++N  I G  +NG  +E  ELF
Sbjct: 221 DVDVVNALITMYVKCGDVVSARLVFDRMPRRDCI----SWNAMISGYFENGECLEGLELF 276

Query: 149 RTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCND 208
            T+R L  +  +   + +I     +G      E+   + + G   +V   N +I  + + 
Sbjct: 277 FTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSL 336

Query: 209 GQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDERN 260
           G   +A  +F  ME K      V++  ++ G  +N    K +E    M++ N
Sbjct: 337 GSWGEAEKVFSRMETKDA----VSWTAMISGYEKNGLPDKALETYALMEQDN 384

Length = 857

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

 Score = 68.0 bits (166), Expect = 6e-13
 Identities = 61/252 (24%), Positives = 95/252 (37%), Gaps = 44/252 (17%)

Query: 27  IDGFCLTGEIDRARELFVSMDINGCMH-NVVTYNTLINGYCKTKDVEESLNLYSEMLSKG 85
           I+     G    A ELF  ++          TY+ L+      K +     +Y  + S G
Sbjct: 94  IEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSG 153

Query: 86  IRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAA 145
             P     N +     +   +  A +LFDEM   ++A    ++ T I GL   G   EA 
Sbjct: 154 FEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLA----SWGTIIGGLVDAGNYREAF 209

Query: 146 ELFR----------------TLR-----------------VLKCELGIEAY-SC-LIDGL 170
            LFR                 LR                 VLK  +  + + SC LID  
Sbjct: 210 ALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMY 269

Query: 171 CKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNC 230
            K G +E A  +F  +P        V +N M+ G+   G  ++A  L+ +M   GV+ + 
Sbjct: 270 SKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQ 325

Query: 231 VTFNTLMLGCIR 242
            TF+ ++    R
Sbjct: 326 FTFSIMIRIFSR 337

Length = 697

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

 Score = 65.7 bits (160), Expect = 4e-12
 Identities = 52/207 (25%), Positives = 95/207 (45%), Gaps = 23/207 (11%)

Query: 68  TKDVEESLNLYSEMLSKG-IRPTVVTYNTLFH-GLFEIHQVEHALKLFDEMQHSDVAAET 125
            +   E ++ Y+ +L  G I+  +     +   GL ++ ++ HA K F   +      E 
Sbjct: 367 KRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHA-KFFKACKKQRAVKEA 425

Query: 126 ------------STYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEA----YSCLIDG 169
                       ST+N  +  +C +   ++ A   R LR+++ E G++A    Y+ LI  
Sbjct: 426 FRFAKLIRNPTLSTFNMLMS-VCASSQDIDGA--LRVLRLVQ-EAGLKADCKLYTTLIST 481

Query: 170 LCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPN 229
             K GK++  +E+F  +   G+  NV T+  +I G    GQ+ KA   +  M +K V P+
Sbjct: 482 CAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPD 541

Query: 230 CVTFNTLMLGCIRNNETSKVVELLHRM 256
            V FN L+  C ++    +  ++L  M
Sbjct: 542 RVVFNALISACGQSGAVDRAFDVLAEM 568

Length = 1060

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

 Score = 65.3 bits (159), Expect = 5e-12
 Identities = 55/244 (22%), Positives = 98/244 (40%), Gaps = 20/244 (8%)

Query: 3   EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLI 62
           EA R   L+      P    ++ L+     + +ID A  +   +   G   +   Y TLI
Sbjct: 424 EAFRFAKLIRN----PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLI 479

Query: 63  NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA 122
           +   K+  V+    ++ EM++ G+   V T+  L  G     QV  A   +  M+  +V 
Sbjct: 480 STCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVK 539

Query: 123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEA---------YSCLIDGLCKI 173
            +   +N  I    ++G +       R   VL  E+  E             L+      
Sbjct: 540 PDRVVFNALISACGQSGAVD------RAFDVL-AEMKAETHPIDPDHITVGALMKACANA 592

Query: 174 GKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTF 233
           G+++ A E++Q +    +      Y I ++     G  D A  ++ DM+ KGV P+ V F
Sbjct: 593 GQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFF 652

Query: 234 NTLM 237
           + L+
Sbjct: 653 SALV 656

Length = 1060

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

 Score = 63.7 bits (155), Expect = 1e-11
 Identities = 45/198 (22%), Positives = 87/198 (43%), Gaps = 7/198 (3%)

Query: 66  CKT-KDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAE 124
           CK  + V+E+      + +    PT+ T+N L         ++ AL++   +Q + + A+
Sbjct: 416 CKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKAD 471

Query: 125 TSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQ 184
              Y T I    K+G +    E+F  +     E  +  +  LIDG  + G++  A+  + 
Sbjct: 472 CKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYG 531

Query: 185 SLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDM--EAKGVAPNCVTFNTLMLGCIR 242
            +    + P+ V +N +I      G +D+A D+  +M  E   + P+ +T   LM  C  
Sbjct: 532 IMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACAN 591

Query: 243 NNETSKVVELLHRMDERN 260
             +  +  E+   + E N
Sbjct: 592 AGQVDRAKEVYQMIHEYN 609

Length = 1060

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

 Score = 63.0 bits (153), Expect = 3e-11
 Identities = 31/137 (22%), Positives = 55/137 (40%), Gaps = 1/137 (0%)

Query: 1   MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNT 60
           +D+A  +L    ++G++     YS+L+          +A EL+  +        V T N 
Sbjct: 665 LDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNA 724

Query: 61  LINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD 120
           LI   C+   + ++L + SEM   G+ P  +TY+ L          +  L L  + +   
Sbjct: 725 LITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDG 784

Query: 121 VAAETSTYNTFIDGLCK 137
           +          I GLC 
Sbjct: 785 IKPNLVMCRC-ITGLCL 800

Length = 1060

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

 Score = 61.8 bits (150), Expect = 6e-11
 Identities = 57/288 (19%), Positives = 108/288 (37%), Gaps = 47/288 (16%)

Query: 4   ASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLIN 63
              +   +   G  P+ ++ + ++      G +  AR LF  M       N+ ++ T+I 
Sbjct: 142 VKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMP----ERNLASWGTIIG 197

Query: 64  GYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH------------------------- 98
           G     +  E+  L+ EM   G      T+  +                           
Sbjct: 198 GLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVG 257

Query: 99  ------GLFEIHQ----VEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELF 148
                  L +++     +E A  +FD M      A    +N+ + G   +GY  EA  L+
Sbjct: 258 DTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVA----WNSMLAGYALHGYSEEALCLY 313

Query: 149 RTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCND 208
             +R     +    +S +I    ++  LE A +    L R G   ++V    ++  +   
Sbjct: 314 YEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKW 373

Query: 209 GQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRM 256
           G+M+ A ++F  M  K    N +++N L+ G   +   +K VE+  RM
Sbjct: 374 GRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERM 417

Length = 697

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

 Score = 55.0 bits (134), Expect = 1e-10
 Identities = 17/33 (51%), Positives = 24/33 (72%)

Query: 190 GLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDME 222
           GL P+VVTYN +I G C  G++D+A +L  +ME
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 56.8 bits (137), Expect = 3e-09
 Identities = 59/259 (22%), Positives = 108/259 (41%), Gaps = 9/259 (3%)

Query: 1   MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNT 60
            DEA  L   M+  GVRP+ + +  ++       ++ R RE+   +   G   +V   N 
Sbjct: 168 FDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNA 227

Query: 61  LINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD 120
           LI  Y K  DV  +  ++  M  +      +++N +  G FE  +    L+LF  M+   
Sbjct: 228 LITMYVKCGDVVSARLVFDRMPRRDC----ISWNAMISGYFENGECLEGLELFFTMRELS 283

Query: 121 VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAW 180
           V  +  T  + I      G      E+   +      + +   + LI     +G    A 
Sbjct: 284 VDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAE 343

Query: 181 ELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGC 240
           ++F  +       + V++  MI G+  +G  DKA + +  ME   V+P+ +T  +++  C
Sbjct: 344 KVFSRMET----KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSAC 399

Query: 241 IRNNETSKVVELLHRMDER 259
               +    V+ LH + ER
Sbjct: 400 ACLGDLDVGVK-LHELAER 417

Length = 857

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

 Score = 55.6 bits (134), Expect = 7e-09
 Identities = 58/260 (22%), Positives = 111/260 (42%), Gaps = 16/260 (6%)

Query: 2   DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTL 61
           +EA  L   M   GV  + F +S +I  F     ++ A++    +   G   ++V    L
Sbjct: 307 EEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTAL 366

Query: 62  INGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDV 121
           ++ Y K   +E++ N++  M  K +    +++N L  G     +   A+++F+ M    V
Sbjct: 367 VDLYSKWGRMEDARNVFDRMPRKNL----ISWNALIAGYGNHGRGTKAVEMFERMIAEGV 422

Query: 122 AAETSTYNTFIDGLCKNGYIVEAAELFRTL-RVLKCELGIEAYSCLIDGLCKIGKLETAW 180
           A    T+   +     +G   +  E+F+++    + +     Y+C+I+ L + G L+ A+
Sbjct: 423 APNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAY 482

Query: 181 ELFQSLPRVGLMPNVVTYNIM-----IHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNT 235
            + +  P     P V  +  +     IH     G++  A +    M  + +    V  N 
Sbjct: 483 AMIRRAP---FKPTVNMWAALLTACRIHKNLELGRL--AAEKLYGMGPEKLNNYVVLLN- 536

Query: 236 LMLGCIRNNETSKVVELLHR 255
           L     R  E +KVVE L R
Sbjct: 537 LYNSSGRQAEAAKVVETLKR 556

Length = 697

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

 Score = 50.0 bits (121), Expect = 7e-09
 Identities = 16/33 (48%), Positives = 22/33 (66%)

Query: 49 NGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM 81
           G   +VVTYNTLI+G C+   V+E++ L  EM
Sbjct: 1  KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 54.1 bits (130), Expect = 2e-08
 Identities = 39/149 (26%), Positives = 66/149 (44%), Gaps = 8/149 (5%)

Query: 94  NTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRV 153
           N+    L    Q+E ALKL + MQ   V  +   Y      LC+    VE      + R 
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFR-LCEWKRAVEEGSRVCS-RA 112

Query: 154 LK--CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQM 211
           L     LG+   + ++    + G+L  AW +F  +P      ++ ++N+++ G+   G  
Sbjct: 113 LSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPE----RDLFSWNVLVGGYAKAGYF 168

Query: 212 DKAHDLFLDMEAKGVAPNCVTFNTLMLGC 240
           D+A  L+  M   GV P+  TF  ++  C
Sbjct: 169 DEALCLYHRMLWAGVRPDVYTFPCVLRTC 197

Length = 857

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

 Score = 48.6 bits (117), Expect = 2e-08
 Identities = 21/35 (60%), Positives = 25/35 (71%)

Query: 56 VTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTV 90
          VTYNTLI+G CK   VEE+L L+ EM  +GI P V
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

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

 Score = 48.1 bits (116), Expect = 3e-08
 Identities = 15/33 (45%), Positives = 21/33 (63%)

Query: 14 RGVRPNAFVYSTLIDGFCLTGEIDRARELFVSM 46
          +G++P+   Y+TLIDG C  G +D A EL   M
Sbjct: 1  KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 48.2 bits (116), Expect = 3e-08
 Identities = 14/35 (40%), Positives = 25/35 (71%)

Query: 196 VTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNC 230
           VTYN +I G C  G++++A +LF +M+ +G+ P+ 
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

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

 Score = 46.7 bits (112), Expect = 9e-08
 Identities = 18/31 (58%), Positives = 24/31 (77%)

Query: 56 VTYNTLINGYCKTKDVEESLNLYSEMLSKGI 86
          VTYN+LI+GYCK   +EE+L L+ EM  KG+
Sbjct: 1  VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 46.2 bits (111), Expect = 2e-07
 Identities = 15/31 (48%), Positives = 23/31 (74%)

Query: 1  MDEASRLLDLMIQRGVRPNAFVYSTLIDGFC 31
          ++EA +L + M +RG++PN + YS LIDG C
Sbjct: 19 VEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 45.1 bits (108), Expect = 3e-07
 Identities = 15/31 (48%), Positives = 24/31 (77%)

Query: 196 VTYNIMIHGFCNDGQMDKAHDLFLDMEAKGV 226
           VTYN +I G+C  G++++A +LF +M+ KGV
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 49.5 bits (118), Expect = 8e-07
 Identities = 29/133 (21%), Positives = 60/133 (45%), Gaps = 12/133 (9%)

Query: 59  NTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQH 118
           N L++ Y +   +  + N ++          VV++N L  G     +   A++LF+ M  
Sbjct: 528 NALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVE 582

Query: 119 SDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGI----EAYSCLIDGLCKIG 174
           S V  +  T+ + +    ++G + +  E F ++     +  I    + Y+C++D L + G
Sbjct: 583 SGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEE---KYSITPNLKHYACVVDLLGRAG 639

Query: 175 KLETAWELFQSLP 187
           KL  A+     +P
Sbjct: 640 KLTEAYNFINKMP 652

Length = 857

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

 Score = 43.9 bits (105), Expect = 1e-06
 Identities = 18/34 (52%), Positives = 25/34 (73%)

Query: 84  KGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQ 117
           KG++P VVTYNTL  GL    +V+ A++L DEM+
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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 42.6 bits (101), Expect = 3e-06
 Identities = 11/34 (32%), Positives = 19/34 (55%)

Query: 55 VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRP 88
          + TYN L+    K  D + +L +  EM + G++P
Sbjct: 1  LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 40.4 bits (96), Expect = 2e-05
 Identities = 14/23 (60%), Positives = 16/23 (69%)

Query: 127 TYNTFIDGLCKNGYIVEAAELFR 149
           TYNT IDGLC+ G + EA EL  
Sbjct: 9   TYNTLIDGLCRAGRVDEAVELLD 31

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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 40.2 bits (95), Expect = 2e-05
 Identities = 10/34 (29%), Positives = 17/34 (50%)

Query: 195 VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAP 228
           + TYN ++      G  D A  +  +M+A G+ P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 37.1 bits (87), Expect = 3e-04
 Identities = 17/34 (50%), Positives = 24/34 (70%)

Query: 162 AYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNV 195
            Y+ LIDGLCK G++E A ELF+ +   G+ P+V
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

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

 Score = 36.3 bits (85), Expect = 6e-04
 Identities = 16/31 (51%), Positives = 21/31 (67%)

Query: 91  VTYNTLFHGLFEIHQVEHALKLFDEMQHSDV 121
           VTYNTL  GL +  +VE AL+LF EM+   +
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGI 31

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

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

 Score = 35.8 bits (84), Expect = 0.001
 Identities = 10/33 (30%), Positives = 20/33 (60%)

Query: 228 PNCVTFNTLMLGCIRNNETSKVVELLHRMDERN 260
           P+ VT+NTL+ G  +  +  + ++L + M +R 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRG 33

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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 35.5 bits (83), Expect = 0.001
 Identities = 17/34 (50%), Positives = 22/34 (64%)

Query: 127 TYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGI 160
           TYNT IDGLCK G + EA ELF+ ++    E  +
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

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

 Score = 34.6 bits (81), Expect = 0.002
 Identities = 11/21 (52%), Positives = 16/21 (76%)

Query: 163 YSCLIDGLCKIGKLETAWELF 183
           Y+ LIDGLC+ G+++ A EL 
Sbjct: 10  YNTLIDGLCRAGRVDEAVELL 30

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

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

 Score = 34.6 bits (81), Expect = 0.002
 Identities = 15/33 (45%), Positives = 20/33 (60%)

Query: 224 KGVAPNCVTFNTLMLGCIRNNETSKVVELLHRM 256
           KG+ P+ VT+NTL+ G  R     + VELL  M
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 34.7 bits (81), Expect = 0.002
 Identities = 14/31 (45%), Positives = 17/31 (54%)

Query: 21 FVYSTLIDGFCLTGEIDRARELFVSMDINGC 51
            Y+TLIDG C  G ++ A ELF  M   G 
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGI 31

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|144943 pfam01535, PPR, PPR repeat

 Score = 35.1 bits (82), Expect = 0.002
 Identities = 13/31 (41%), Positives = 18/31 (58%)

Query: 126 STYNTFIDGLCKNGYIVEAAELFRTLRVLKC 156
            TYN+ I G CK G + EA ELF+ ++    
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 34.7 bits (81), Expect = 0.002
 Identities = 12/31 (38%), Positives = 18/31 (58%)

Query: 21 FVYSTLIDGFCLTGEIDRARELFVSMDINGC 51
            Y++LI G+C  G+++ A ELF  M   G 
Sbjct: 1  VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 34.7 bits (81), Expect = 0.002
 Identities = 14/31 (45%), Positives = 20/31 (64%)

Query: 91  VTYNTLFHGLFEIHQVEHALKLFDEMQHSDV 121
           VTYN+L  G  +  ++E AL+LF EM+   V
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	260
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	99.93
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.9
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.9
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.87
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.87
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.86
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.83
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.83
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.8
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.77
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.77
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.76
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.76
PRK12370	553	invasion protein regulator; Provisional	99.76
KOG1126	638	consensus DNA-binding cell division cycle control	99.75
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.75
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.73
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.73
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.73
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.73
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.72
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.7
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.7
PRK12370	553	invasion protein regulator; Provisional	99.7
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.69
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.68
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.68
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.68
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.67
KOG1129	478	consensus TPR repeat-containing protein [General f	99.66
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.66
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.64
PRK14574	822	hmsH outer membrane protein; Provisional	99.63
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.62
PRK14574	822	hmsH outer membrane protein; Provisional	99.62
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.59
KOG1126	638	consensus DNA-binding cell division cycle control	99.59
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.56
PRK11189	296	lipoprotein NlpI; Provisional	99.56
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.55
KOG2003	840	consensus TPR repeat-containing protein [General f	99.55
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.55
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.54
PF13041	50	PPR_2: PPR repeat family	99.53
PF13041	50	PPR_2: PPR repeat family	99.53
KOG2003	840	consensus TPR repeat-containing protein [General f	99.53
KOG1129	478	consensus TPR repeat-containing protein [General f	99.53
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.52
KOG2076	895	consensus RNA polymerase III transcription factor	99.52
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.49
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.48
PRK11189	296	lipoprotein NlpI; Provisional	99.48
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.46
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.42
KOG2076	895	consensus RNA polymerase III transcription factor	99.39
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.38
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.38
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.37
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.36
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.35
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.32
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.31
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.31
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.3
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.28
KOG1125	579	consensus TPR repeat-containing protein [General f	99.28
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.27
PLN02789	320	farnesyltranstransferase	99.27
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.25
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.22
KOG1125	579	consensus TPR repeat-containing protein [General f	99.21
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.21
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.19
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	99.18
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.16
PLN02789	320	farnesyltranstransferase	99.16
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.14
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.14
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.1
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.1
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	99.09
PRK15359	144	type III secretion system chaperone protein SscB;	99.09
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.08
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.05
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.04
PF12854	34	PPR_1: PPR repeat	99.04
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	99.03
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	99.02
PF12854	34	PPR_1: PPR repeat	99.01
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.97
PRK15359	144	type III secretion system chaperone protein SscB;	98.97
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.96
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.94
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.93
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.89
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.89
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.89
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.89
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.88
PRK04841	903	transcriptional regulator MalT; Provisional	98.86
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.85
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.85
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.82
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.82
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.79
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.79
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.79
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.78
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.74
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.74
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.69
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.68
PRK04841	903	transcriptional regulator MalT; Provisional	98.68
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.67
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.65
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.65
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.65
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.63
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.62
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.6
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.6
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.59
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.57
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.57
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.57
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.56
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.54
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.53
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.53
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.53
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.52
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.51
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.5
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.49
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.48
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.47
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.47
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.45
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.43
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.42
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.41
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.39
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.38
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.36
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.36
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.35
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.35
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.34
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.33
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.33
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.33
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.31
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.3
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.29
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.29
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.27
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.27
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.27
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.26
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.26
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.25
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.23
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.22
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.14
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.13
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.13
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.13
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.11
KOG0553	304	consensus TPR repeat-containing protein [General f	98.11
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.1
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.1
KOG0553	304	consensus TPR repeat-containing protein [General f	98.06
PF12688	120	TPR_5: Tetratrico peptide repeat	98.05
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.04
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.03
PF12688	120	TPR_5: Tetratrico peptide repeat	98.02
KOG2796	366	consensus Uncharacterized conserved protein [Funct	98.01
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.97
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.96
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.93
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.93
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.91
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.9
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.9
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.89
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.88
PRK15331	165	chaperone protein SicA; Provisional	97.83
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.82
PRK10803	263	tol-pal system protein YbgF; Provisional	97.8
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.73
PF13371	73	TPR_9: Tetratricopeptide repeat	97.72
PRK15331	165	chaperone protein SicA; Provisional	97.71
PRK10803	263	tol-pal system protein YbgF; Provisional	97.69
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.62
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.61
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.59
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.58
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.54
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.53
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.53
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.51
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.5
PF13371	73	TPR_9: Tetratricopeptide repeat	97.49
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.47
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.47
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.39
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.39
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.3
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.23
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.22
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	97.22
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.19
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.16
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.15
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	97.11
PRK11906	458	transcriptional regulator; Provisional	97.07
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.07
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	97.06
KOG2610	491	consensus Uncharacterized conserved protein [Funct	97.04
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.98
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.95
PRK11906	458	transcriptional regulator; Provisional	96.94
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.91
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.9
PF13428	44	TPR_14: Tetratricopeptide repeat	96.88
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.86
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.76
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.74
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.74
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.72
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.7
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.67
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.65
KOG1585	308	consensus Protein required for fusion of vesicles	96.65
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.63
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.54
KOG3941	406	consensus Intermediate in Toll signal transduction	96.54
KOG4555	175	consensus TPR repeat-containing protein [Function	96.5
PF13428	44	TPR_14: Tetratricopeptide repeat	96.5
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	96.49
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.43
KOG3941	406	consensus Intermediate in Toll signal transduction	96.39
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.36
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.27
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.21
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.18
KOG4555	175	consensus TPR repeat-containing protein [Function	96.18
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.12
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.08
PF13512	142	TPR_18: Tetratricopeptide repeat	96.01
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.98
PF13929	292	mRNA_stabil: mRNA stabilisation	95.96
KOG4570	418	consensus Uncharacterized conserved protein [Funct	95.92
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.91
KOG1585	308	consensus Protein required for fusion of vesicles	95.9
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.85
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.81
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.75
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	95.74
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.72
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.71
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.68
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.53
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	95.47
PF13431	34	TPR_17: Tetratricopeptide repeat	95.43
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	95.39
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	95.32
PF13512	142	TPR_18: Tetratricopeptide repeat	95.14
KOG4570	418	consensus Uncharacterized conserved protein [Funct	95.09
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.06
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.03
PF13431	34	TPR_17: Tetratricopeptide repeat	94.99
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.93
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.85
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	94.75
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	94.64
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.63
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.62
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.57
COG1747	711	Uncharacterized N-terminal domain of the transcrip	94.51
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.44
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	94.42
KOG1550	552	consensus Extracellular protein SEL-1 and related	94.41
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.41
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.1
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	94.04
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.03
KOG1586	288	consensus Protein required for fusion of vesicles	94.01
KOG1941	518	consensus Acetylcholine receptor-associated protei	93.95
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.83
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.81
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	93.76
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.71
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	93.7
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.67
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	93.65
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	93.44
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	93.41
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	93.23
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	93.17
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.17
COG1747	711	Uncharacterized N-terminal domain of the transcrip	93.15
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.15
KOG1550	552	consensus Extracellular protein SEL-1 and related	92.99
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	92.81
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	92.79
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.78
KOG1258	577	consensus mRNA processing protein [RNA processing	92.42
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	92.35
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	91.93
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	91.87
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	91.72
COG4455	273	ImpE Protein of avirulence locus involved in tempe	91.46
COG4455	273	ImpE Protein of avirulence locus involved in tempe	91.43
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	91.41
COG3947	361	Response regulator containing CheY-like receiver a	91.4
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	91.31
KOG4234	271	consensus TPR repeat-containing protein [General f	91.29
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	91.27
PF13929	292	mRNA_stabil: mRNA stabilisation	91.26
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	91.07
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	90.62
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	90.57
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	90.39
KOG4234	271	consensus TPR repeat-containing protein [General f	90.37
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	90.36
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	90.25
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	90.14
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	90.03
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	89.59
KOG4648	536	consensus Uncharacterized conserved protein, conta	89.52
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	89.51
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	89.09
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	88.68
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	88.3
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	88.05
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	87.69
KOG4648	536	consensus Uncharacterized conserved protein, conta	87.38
PF04190	260	DUF410: Protein of unknown function (DUF410) ; Int	86.88
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	86.7
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	86.56
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	86.52
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	86.25
PF04910	360	Tcf25: Transcriptional repressor TCF25; InterPro:	85.87
KOG4507	886	consensus Uncharacterized conserved protein, conta	85.64
PHA02875	413	ankyrin repeat protein; Provisional	85.28
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	85.17
PF13762	145	MNE1: Mitochondrial splicing apparatus component	85.1
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	85.02
PHA02875	413	ankyrin repeat protein; Provisional	84.68
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	84.39
KOG4507	886	consensus Uncharacterized conserved protein, conta	84.29
COG5159	421	RPN6 26S proteasome regulatory complex component [	84.25
PF11817	247	Foie-gras_1: Foie gras liver health family 1; Inte	83.73
PF09477	116	Type_III_YscG: Bacterial type II secretion system	83.54
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	83.53
COG3947	361	Response regulator containing CheY-like receiver a	83.37
PF09477	116	Type_III_YscG: Bacterial type II secretion system	83.13
PF08311	126	Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro	82.97
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	82.9
PF09454	65	Vps23_core: Vps23 core domain; InterPro: IPR017916	82.83
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	82.58
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	82.47
COG5159	421	RPN6 26S proteasome regulatory complex component [	82.38
KOG1258	577	consensus mRNA processing protein [RNA processing	81.91
KOG4567	370	consensus GTPase-activating protein [General funct	81.71
PF08311	126	Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro	81.63
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	81.59
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	81.5
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	81.5
KOG2471	696	consensus TPR repeat-containing protein [General f	81.37
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	81.21
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	80.9
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	80.87
PRK10564	303	maltose regulon periplasmic protein; Provisional	80.57
PRK09687	280	putative lyase; Provisional	80.54
PRK09687	280	putative lyase; Provisional	80.47
PRK10564	303	maltose regulon periplasmic protein; Provisional	80.07

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.1e-49  Score=328.91  Aligned_cols=256  Identities=21%  Similarity=0.365  Sum_probs=119.3

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEML   82 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   82 (260)
                      +|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|+.|.+.|+.||..+|+.++.+|++.|++++|.++|++|.
T Consensus       490 ~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~  569 (1060)
T PLN03218        490 AMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMK  569 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            34444444444444444444444444444444444444444444444444444444444444444444444444444443


Q ss_pred             h--cCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCH
Q 044047           83 S--KGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGI  160 (260)
Q Consensus        83 ~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  160 (260)
                      .  .|+.||..+|+.++.+|++.|++++|.++|+.|.+.|++|+..+|+.++.+|++.|++++|.++|++|...|+.||.
T Consensus       570 ~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~  649 (1060)
T PLN03218        570 AETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDE  649 (1060)
T ss_pred             HhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Confidence            3  23444444444444444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 044047          161 EAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGC  240 (260)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  240 (260)
                      .+|+.++.+|++.|++++|.++++.|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.|+.+|
T Consensus       650 ~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy  729 (1060)
T PLN03218        650 VFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITAL  729 (1060)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            44444444444444444444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             HhcCchhHHHHHHHHHhh
Q 044047          241 IRNNETSKVVELLHRMDE  258 (260)
Q Consensus       241 ~~~~~~~~a~~~~~~m~~  258 (260)
                      ++.|++++|.++|++|.+
T Consensus       730 ~k~G~~eeAlelf~eM~~  747 (1060)
T PLN03218        730 CEGNQLPKALEVLSEMKR  747 (1060)
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            444444444444444443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.1e-49  Score=326.62  Aligned_cols=260  Identities=22%  Similarity=0.410  Sum_probs=254.5

Q ss_pred             ChhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhh--cCCCCchhhHHHHHHHHHhcCChHHHHHHH
Q 044047            1 MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDI--NGCMHNVVTYNTLINGYCKTKDVEESLNLY   78 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   78 (260)
                      +++|.++|+.|.+.|+.||..+|+.++.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.++|
T Consensus       523 ~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf  602 (1060)
T PLN03218        523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVY  602 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            368999999999999999999999999999999999999999999976  678999999999999999999999999999


Q ss_pred             HHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCc
Q 044047           79 SEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCEL  158 (260)
Q Consensus        79 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  158 (260)
                      ++|.+.|+.|+..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++++.|.+.++.|
T Consensus       603 ~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~p  682 (1060)
T PLN03218        603 QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL  682 (1060)
T ss_pred             HHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 044047          159 GIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLML  238 (260)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  238 (260)
                      +..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|...|+.||..+|+.++.
T Consensus       683 d~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~  762 (1060)
T PLN03218        683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV  762 (1060)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCchhHHHHHHHHHhhcC
Q 044047          239 GCIRNNETSKVVELLHRMDERN  260 (260)
Q Consensus       239 ~~~~~~~~~~a~~~~~~m~~~~  260 (260)
                      +|.+.|++++|.+++++|.+.|
T Consensus       763 a~~k~G~le~A~~l~~~M~k~G  784 (1060)
T PLN03218        763 ASERKDDADVGLDLLSQAKEDG  784 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcC
Confidence            9999999999999999998875

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

Probab=100.00  E-value=9.2e-44  Score=291.62  Aligned_cols=230  Identities=22%  Similarity=0.382  Sum_probs=149.3

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      |..+|+.|+.+|++.|++++|.++|+.|.    ++|..+|+.++.+|++.|++++|+++|++|.+.|+.||..||+.++.
T Consensus       258 d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~  333 (697)
T PLN03081        258 DTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIR  333 (697)
T ss_pred             cceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            33344555556666666666666666654    34566666666666666666666666666666666666666666666


Q ss_pred             HHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHH
Q 044047           99 GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLET  178 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  178 (260)
                      +|++.|++++|.+++..|.+.|++|+..+++.++.+|++.|++++|.++|++|.    .||..+|+.++.+|++.|+.++
T Consensus       334 a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~  409 (697)
T PLN03081        334 IFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTK  409 (697)
T ss_pred             HHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHH
Confidence            666666666666666666666666666666666666666666666666666664    3456666666666666666666


Q ss_pred             HHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh-CCCCCChhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          179 AWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA-KGVAPNCVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       179 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      |.++|++|.+.|+.||..||+.++.+|.+.|..++|.++|+.|.+ .|+.|+..+|+.++.+|.+.|++++|.+++++|
T Consensus       410 A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~  488 (697)
T PLN03081        410 AVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA  488 (697)
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC
Confidence            666666666666666666666666666666666666666666654 366666666666666666666666666666654

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

Probab=100.00  E-value=1e-43  Score=291.34  Aligned_cols=250  Identities=26%  Similarity=0.394  Sum_probs=217.5

Q ss_pred             ChhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHH
Q 044047            1 MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSE   80 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   80 (260)
                      +++|.++|++|.+.|+.|+..+|+.++.+|++.|..+.+.+++..+.+.|+.||..+|+.++.+|++.|++++|.++|++
T Consensus       205 ~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~  284 (697)
T PLN03081        205 YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDG  284 (697)
T ss_pred             HHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHh
Confidence            36788888888888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCH
Q 044047           81 MLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGI  160 (260)
Q Consensus        81 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  160 (260)
                      |.+    +|..+|+.++.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.+++|+.
T Consensus       285 m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~  360 (697)
T PLN03081        285 MPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDI  360 (697)
T ss_pred             CCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCe
Confidence            853    4788888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 044047          161 EAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGC  240 (260)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  240 (260)
                      .+|+.++.+|++.|++++|.++|+.|.+    ||..+|+.++.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|
T Consensus       361 ~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~  436 (697)
T PLN03081        361 VANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSAC  436 (697)
T ss_pred             eehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            8888888888888888888888888864    688888888888888888888888888888888888888888888888


Q ss_pred             HhcCchhHHHHHHHHHhh
Q 044047          241 IRNNETSKVVELLHRMDE  258 (260)
Q Consensus       241 ~~~~~~~~a~~~~~~m~~  258 (260)
                      .+.|+.++|.++|+.|.+
T Consensus       437 ~~~g~~~~a~~~f~~m~~  454 (697)
T PLN03081        437 RYSGLSEQGWEIFQSMSE  454 (697)
T ss_pred             hcCCcHHHHHHHHHHHHH
Confidence            888888888888888865

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.6e-42  Score=287.54  Aligned_cols=250  Identities=22%  Similarity=0.348  Sum_probs=181.4

Q ss_pred             hhHHHHHHHHHHcCCCccHHHH-----------------------------------HHHHHHHhccCCHHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVY-----------------------------------STLIDGFCLTGEIDRARELFVSM   46 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~-----------------------------------~~l~~~~~~~~~~~~a~~~~~~~   46 (260)
                      ++|+++|++|...|+.||..+|                                   +.++.+|++.|++++|.++|+.|
T Consensus       169 ~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m  248 (857)
T PLN03077        169 DEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRM  248 (857)
T ss_pred             HHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcC
Confidence            5677777777777766666665                                   45555556666666666666666


Q ss_pred             hhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchh
Q 044047           47 DINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETS  126 (260)
Q Consensus        47 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  126 (260)
                      .    .||..+|+.++.+|++.|++++|+++|++|.+.|+.||..||+.++.+|.+.|+.+.+.+++..+.+.|+.||..
T Consensus       249 ~----~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~  324 (857)
T PLN03077        249 P----RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVS  324 (857)
T ss_pred             C----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchH
Confidence            4    345666777777777777777777777777777777777777777777777777777777777777777777777


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHH
Q 044047          127 TYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFC  206 (260)
Q Consensus       127 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  206 (260)
                      +|+.++.+|++.|++++|.++|++|.    .||..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|+
T Consensus       325 ~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~  400 (857)
T PLN03077        325 VCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACA  400 (857)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHh
Confidence            77777777777777777777777765    45666777777777777777777777777777777777777777777777


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          207 NDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       207 ~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      +.|++++|.+++..|.+.|+.|+..+++.|+.+|.+.|++++|.++|++|.++
T Consensus       401 ~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~  453 (857)
T PLN03077        401 CLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK  453 (857)
T ss_pred             ccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCC
Confidence            77777777777777777777777777777777788888888888877777654

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=6.9e-42  Score=286.52  Aligned_cols=248  Identities=21%  Similarity=0.326  Sum_probs=196.1

Q ss_pred             ChhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHH-----------------
Q 044047            1 MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLIN-----------------   63 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-----------------   63 (260)
                      ++.|.++|++|.    +||..+|+.++.+|++.|++++|.++|++|...|+.||..||+.++.                 
T Consensus       137 ~~~A~~~f~~m~----~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~  212 (857)
T PLN03077        137 LVHAWYVFGKMP----ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAH  212 (857)
T ss_pred             hHHHHHHHhcCC----CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHH
Confidence            357889999986    46899999999999999999999999999998888888777755554                 


Q ss_pred             ------------------HHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcch
Q 044047           64 ------------------GYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAET  125 (260)
Q Consensus        64 ------------------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  125 (260)
                                        +|++.|++++|.++|++|.    .||..+|+.++.+|++.|++++|+.+|++|...|+.||.
T Consensus       213 ~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~----~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~  288 (857)
T PLN03077        213 VVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDL  288 (857)
T ss_pred             HHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCC----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCh
Confidence                              4555556666666666554    246666677777777777777777777777777777777


Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHH
Q 044047          126 STYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGF  205 (260)
Q Consensus       126 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  205 (260)
                      .+|+.++.+|++.|+.+.+.+++..+.+.|+.||..+|+.++.+|++.|++++|.++|+.|..    ||..+|+.++.+|
T Consensus       289 ~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~  364 (857)
T PLN03077        289 MTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGY  364 (857)
T ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHH
Confidence            777777777777777777777777777777778888888888888888888888888887763    5777888888888


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhcC
Q 044047          206 CNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDERN  260 (260)
Q Consensus       206 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  260 (260)
                      ++.|++++|.++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.|.+.|
T Consensus       365 ~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g  419 (857)
T PLN03077        365 EKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKG  419 (857)
T ss_pred             HhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhC
Confidence            8888888888888888888888888888888888888888888888888887654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.93  E-value=1.4e-22  Score=157.06  Aligned_cols=252  Identities=13%  Similarity=0.095  Sum_probs=168.9

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCc---hhhHHHHHHHHHhcCChHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHN---VVTYNTLINGYCKTKDVEESLNLY   78 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~   78 (260)
                      ++|.+.|+++.+.+ +.+..++..+...+...|++++|..+++.+...+..++   ...+..+...|...|++++|..+|
T Consensus        52 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~  130 (389)
T PRK11788         52 DKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELF  130 (389)
T ss_pred             HHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            56777777777764 34566777777778888888888888877766431111   245667777777778888888888


Q ss_pred             HHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcc----hhhHHHHHHHHHhcCcHHHHHHHHHHhhhc
Q 044047           79 SEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAE----TSTYNTFIDGLCKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus        79 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  154 (260)
                      +++.+.. +++..++..++..+...|++++|...++.+.+.+..+.    ...+..+...+...|++++|...++++.+.
T Consensus       131 ~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  209 (389)
T PRK11788        131 LQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAA  209 (389)
T ss_pred             HHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhH
Confidence            7777652 23556677777777777777777777777766542221    123445566667777777777777777655


Q ss_pred             CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHH
Q 044047          155 KCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFN  234 (260)
Q Consensus       155 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  234 (260)
                      . +.+...+..+...+.+.|++++|.++++++...+......++..++.+|...|++++|...++++.+.  .|+...+.
T Consensus       210 ~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~  286 (389)
T PRK11788        210 D-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLL  286 (389)
T ss_pred             C-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHH
Confidence            3 34455666677777777777777777777766432222345666777777777777777777777664  45555566


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHhh
Q 044047          235 TLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       235 ~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      .++..+.+.|++++|..+++++.+
T Consensus       287 ~la~~~~~~g~~~~A~~~l~~~l~  310 (389)
T PRK11788        287 ALAQLLEEQEGPEAAQALLREQLR  310 (389)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHH
Confidence            677777777777777777776654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.93  E-value=2.2e-22  Score=155.89  Aligned_cols=252  Identities=16%  Similarity=0.153  Sum_probs=210.7

Q ss_pred             hhHHHHHHHHHHcCCCc---cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRP---NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLY   78 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   78 (260)
                      ++|..+++.+...+..+   ....+..++..+.+.|++++|..+|+.+.+.. +.+..++..++..+.+.|++++|.+.+
T Consensus        86 ~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~  164 (389)
T PRK11788         86 DRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVA  164 (389)
T ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHH
Confidence            57888999888754222   23568889999999999999999999998764 567889999999999999999999999


Q ss_pred             HHHHhcCCCCCc----cchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhc
Q 044047           79 SEMLSKGIRPTV----VTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus        79 ~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  154 (260)
                      +.+.+.+..+..    ..+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++...
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  243 (389)
T PRK11788        165 ERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ  243 (389)
T ss_pred             HHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            999886544322    234567778889999999999999998765 455678888999999999999999999999876


Q ss_pred             CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHH
Q 044047          155 KCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFN  234 (260)
Q Consensus       155 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  234 (260)
                      +......+++.++.+|...|++++|...++.+.+..  |+...+..++..+.+.|++++|..+++++.+.  .|+..++.
T Consensus       244 ~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~  319 (389)
T PRK11788        244 DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY--PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFH  319 (389)
T ss_pred             ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHH
Confidence            433335678889999999999999999999998864  66667788999999999999999999999885  68888998


Q ss_pred             HHHHHHHh---cCchhHHHHHHHHHhhc
Q 044047          235 TLMLGCIR---NNETSKVVELLHRMDER  259 (260)
Q Consensus       235 ~l~~~~~~---~~~~~~a~~~~~~m~~~  259 (260)
                      .++..+..   .|+.+++..++++|.++
T Consensus       320 ~l~~~~~~~~~~g~~~~a~~~~~~~~~~  347 (389)
T PRK11788        320 RLLDYHLAEAEEGRAKESLLLLRDLVGE  347 (389)
T ss_pred             HHHHHhhhccCCccchhHHHHHHHHHHH
Confidence            88877765   55899999999998764

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

Probab=99.90  E-value=1.4e-20  Score=160.30  Aligned_cols=247  Identities=12%  Similarity=0.087  Sum_probs=162.4

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEML   82 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   82 (260)
                      +|...++.+.+.. +.+..++..++..+...|++++|..+++.+...+ +.+...+..+...+...|++++|...++++.
T Consensus       653 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~  730 (899)
T TIGR02917       653 KAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKAL  730 (899)
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            4444444444432 2234445555555555555555555555554443 3445555555566666666666666666665


Q ss_pred             hcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHH
Q 044047           83 SKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEA  162 (260)
Q Consensus        83 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  162 (260)
                      ..+  |+..++..+..++.+.|++++|...++++.+.. +.+...+..+...|...|++++|...|+++.... +.++..
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            543  333555556666666666666666666666554 5566666677777777777777777777776654 556667


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 044047          163 YSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR  242 (260)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  242 (260)
                      ++.+...+...|+ .+|..+++++..... -+..++..+...+...|++++|..+++++.+.+. .+..++..+..++.+
T Consensus       807 ~~~l~~~~~~~~~-~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~  883 (899)
T TIGR02917       807 LNNLAWLYLELKD-PRALEYAEKALKLAP-NIPAILDTLGWLLVEKGEADRALPLLRKAVNIAP-EAAAIRYHLALALLA  883 (899)
T ss_pred             HHHHHHHHHhcCc-HHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CChHHHHHHHHHHHH
Confidence            7777777777777 667777777766432 2455667777888888999999999999888753 378888888999999


Q ss_pred             cCchhHHHHHHHHHhh
Q 044047          243 NNETSKVVELLHRMDE  258 (260)
Q Consensus       243 ~~~~~~a~~~~~~m~~  258 (260)
                      .|++++|.+++++|++
T Consensus       884 ~g~~~~A~~~~~~~~~  899 (899)
T TIGR02917       884 TGRKAEARKELDKLLN  899 (899)
T ss_pred             cCCHHHHHHHHHHHhC
Confidence            9999999999988864

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

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

Probab=99.90  E-value=3.2e-20  Score=158.06  Aligned_cols=247  Identities=9%  Similarity=0.042  Sum_probs=129.4

Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047            4 ASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLS   83 (260)
Q Consensus         4 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   83 (260)
                      |...++++.+.+ +.+...+..++..+...|++++|..+++.+.+.. +.+..+|..+..++...|++++|...++++.+
T Consensus       552 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  629 (899)
T TIGR02917       552 AVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLA  629 (899)
T ss_pred             HHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344444443332 2233344444444455555555555555444332 33445555555555555555555555555544


Q ss_pred             cCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHH
Q 044047           84 KGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAY  163 (260)
Q Consensus        84 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  163 (260)
                      ... .+...+..+...+...|++++|..+++++.+.. +.+..++..++..+...|++++|.++++.+.... +.+...+
T Consensus       630 ~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  706 (899)
T TIGR02917       630 LQP-DSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGF  706 (899)
T ss_pred             hCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHH
Confidence            322 133444455555555555555555555554443 3344455555555555555555555555554443 3444555


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc
Q 044047          164 SCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRN  243 (260)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  243 (260)
                      ..+...+...|++++|...++.+...+  |+..++..++.++...|++++|.+.++++.+. .+.+...+..+...|...
T Consensus       707 ~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~la~~~~~~  783 (899)
T TIGR02917       707 ELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKT-HPNDAVLRTALAELYLAQ  783 (899)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHC
Confidence            555556666666666666666655543  33345555555666666666666666665554 234555556666666666


Q ss_pred             CchhHHHHHHHHHhh
Q 044047          244 NETSKVVELLHRMDE  258 (260)
Q Consensus       244 ~~~~~a~~~~~~m~~  258 (260)
                      |++++|.+.|+++.+
T Consensus       784 g~~~~A~~~~~~~~~  798 (899)
T TIGR02917       784 KDYDKAIKHYRTVVK  798 (899)
T ss_pred             cCHHHHHHHHHHHHH
Confidence            666666666666554

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.

>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=99.87  E-value=2.3e-18  Score=140.44  Aligned_cols=252  Identities=14%  Similarity=0.059  Sum_probs=207.5

Q ss_pred             hhHHHHHHHHHHcC--CCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHH
Q 044047            2 DEASRLLDLMIQRG--VRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYS   79 (260)
Q Consensus         2 ~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   79 (260)
                      ++|.+.|+...+.+  .+.....|+.+...+...|++++|+..++...... |.....|..+...+...|++++|+..++
T Consensus       311 ~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~  389 (615)
T TIGR00990       311 EEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEEDFD  389 (615)
T ss_pred             HHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            57888888888764  23356778888999999999999999999998775 4557789999999999999999999999


Q ss_pred             HHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcC
Q 044047           80 EMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELG  159 (260)
Q Consensus        80 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  159 (260)
                      +..+.... +..++..+...+...|++++|...|++..+.. |.+...+..+..++.+.|++++|+..++...... +.+
T Consensus       390 ~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~  466 (615)
T TIGR00990       390 KALKLNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEA  466 (615)
T ss_pred             HHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCC
Confidence            99887433 67888999999999999999999999998876 5667788889999999999999999999988764 567


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchh------hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhH
Q 044047          160 IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVV------TYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTF  233 (260)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  233 (260)
                      +..++.+...+...|++++|...|+.........+..      .++.....+...|++++|..++++..... +.+...+
T Consensus       467 ~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~~a~  545 (615)
T TIGR00990       467 PDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID-PECDIAV  545 (615)
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CCcHHHH
Confidence            8899999999999999999999999988754221111      12222233445799999999999988763 3345578


Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          234 NTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       234 ~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ..+...+...|++++|+++|++..+
T Consensus       546 ~~la~~~~~~g~~~eAi~~~e~A~~  570 (615)
T TIGR00990       546 ATMAQLLLQQGDVDEALKLFERAAE  570 (615)
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHH
Confidence            8899999999999999999998754

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.87  E-value=3.8e-18  Score=139.15  Aligned_cols=250  Identities=10%  Similarity=0.031  Sum_probs=126.9

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|++.++.+.+.. |.++..+..+...+.+.|++++|...++++.+.. |.+...+..+...+...|++++|...++++
T Consensus        93 ~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~  170 (656)
T PRK15174         93 DAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQ  170 (656)
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            34555666655553 3345555555666666666666666666655543 344555555555555566666665555555


Q ss_pred             HhcCCC---------------------------------CCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhH
Q 044047           82 LSKGIR---------------------------------PTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTY  128 (260)
Q Consensus        82 ~~~~~~---------------------------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  128 (260)
                      ......                                 ++......+...+...|++++|+..+++..... +.+...+
T Consensus       171 ~~~~P~~~~a~~~~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~  249 (656)
T PRK15174        171 AQEVPPRGDMIATCLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALR  249 (656)
T ss_pred             HHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHH
Confidence            433221                                 111222222333444444444444444444433 3334444


Q ss_pred             HHHHHHHHhcCcHHH----HHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHH
Q 044047          129 NTFIDGLCKNGYIVE----AAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHG  204 (260)
Q Consensus       129 ~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  204 (260)
                      ..+...+...|++++    |...++...... +.+...+..+...+...|++++|...+++...... .+...+..+..+
T Consensus       250 ~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P-~~~~a~~~La~~  327 (656)
T PRK15174        250 RSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHP-DLPYVRAMYARA  327 (656)
T ss_pred             HHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence            445555555555553    455555555443 33445555555555566666666666655555431 123444555555


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          205 FCNDGQMDKAHDLFLDMEAKGVAPNC-VTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       205 ~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      +...|++++|...++++...  .|+. ..+..+..++...|++++|...|++..+
T Consensus       328 l~~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~  380 (656)
T PRK15174        328 LRQVGQYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQ  380 (656)
T ss_pred             HHHCCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            66666666666666655553  2332 2222334455566666666666665543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.86  E-value=6.7e-18  Score=137.70  Aligned_cols=216  Identities=13%  Similarity=0.102  Sum_probs=163.2

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|...++.+..... .++..+..+ ..+...|++++|...++.+.+....++...+..+...+...|++++|+..+++.
T Consensus       161 ~eA~~~~~~~~~~~P-~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~a  238 (656)
T PRK15174        161 LQAISLARTQAQEVP-PRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESA  238 (656)
T ss_pred             HHHHHHHHHHHHhCC-CCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            345555655554432 222233222 235566777777777666655432233344455567788889999999999998


Q ss_pred             HhcCCCCCccchHHHHHHHhccccHHH----HHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCC
Q 044047           82 LSKGIRPTVVTYNTLFHGLFEIHQVEH----ALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCE  157 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  157 (260)
                      .+.... +...+..+...+...|++++    |...|++..... |.+...+..+...+...|++++|...+++..... +
T Consensus       239 l~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P  315 (656)
T PRK15174        239 LARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-P  315 (656)
T ss_pred             HhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-C
Confidence            876533 57778889999999999986    899999998875 6678899999999999999999999999998875 5


Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCch-hhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          158 LGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNV-VTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       158 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      .+...+..+..++.+.|++++|...++.+...+  |+. ..+..+..++...|++++|...|++..+.
T Consensus       316 ~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~--P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        316 DLPYVRAMYARALRQVGQYTAASDEFVQLAREK--GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            567788889999999999999999999998764  443 33444577889999999999999999875

>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=99.83  E-value=6.8e-17  Score=131.88  Aligned_cols=251  Identities=14%  Similarity=0.028  Sum_probs=169.8

Q ss_pred             ChhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHH
Q 044047            1 MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSE   80 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   80 (260)
                      +++|+..|++..+.  .|++..|..+..+|.+.|++++|++.++...+.+ |.+...|..+..++...|++++|+..+..
T Consensus       143 ~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg~~~eA~~~~~~  219 (615)
T TIGR00990       143 FNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLGKYADALLDLTA  219 (615)
T ss_pred             HHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            35788888888765  4677788888999999999999999999888775 55677888888888888888877654432


Q ss_pred             HH------------------------------------------------------------------------------
Q 044047           81 ML------------------------------------------------------------------------------   82 (260)
Q Consensus        81 ~~------------------------------------------------------------------------------   82 (260)
                      ..                                                                              
T Consensus       220 ~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  299 (615)
T TIGR00990       220 SCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQLQLGL  299 (615)
T ss_pred             HHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccccchHHHHH
Confidence            21                                                                              


Q ss_pred             ----------------------hcC-CCC-CccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhc
Q 044047           83 ----------------------SKG-IRP-TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKN  138 (260)
Q Consensus        83 ----------------------~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  138 (260)
                                            +.+ ..| ....+..+...+...|++++|+..+++..+.. |.....|..+...+...
T Consensus       300 ~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~  378 (615)
T TIGR00990       300 KSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLEL  378 (615)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHC
Confidence                                  110 001 11223334444455666666666666666543 33455666666667777


Q ss_pred             CcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHH
Q 044047          139 GYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLF  218 (260)
Q Consensus       139 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  218 (260)
                      |++++|...++...... +.++..+..+...+...|++++|...|++...... .+...+..+...+.+.|++++|...+
T Consensus       379 g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P-~~~~~~~~la~~~~~~g~~~eA~~~~  456 (615)
T TIGR00990       379 GDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDP-DFIFSHIQLGVTQYKEGSIASSMATF  456 (615)
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCc-cCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            77777777777766554 44566777777777777777777777777776532 24556666777777777777777777


Q ss_pred             HHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          219 LDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       219 ~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ++.... .+.+...+..+..++...|++++|+..|++..+
T Consensus       457 ~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~  495 (615)
T TIGR00990       457 RRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIE  495 (615)
T ss_pred             HHHHHh-CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            777764 233466777777777778888888777777553

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

Probab=99.83  E-value=1.5e-19  Score=133.61  Aligned_cols=251  Identities=14%  Similarity=0.113  Sum_probs=114.5

Q ss_pred             ChhHHHHHHHHHHcC-CCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHH
Q 044047            1 MDEASRLLDLMIQRG-VRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYS   79 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   79 (260)
                      +++|+++++...... .+.++..|..+.......++++.|...++++...+ +.++..+..++.. ...+++++|.++++
T Consensus        24 ~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~~~~~~A~~~~~  101 (280)
T PF13429_consen   24 YEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQDGDPEEALKLAE  101 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-cccccccccccccc
Confidence            356788886554443 34466777777778888999999999999998776 4467778888877 78999999999998


Q ss_pred             HHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcC-CCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCc
Q 044047           80 EMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD-VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCEL  158 (260)
Q Consensus        80 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  158 (260)
                      +..+..  +++..+..++..+...++++++..+++.+.... .+.+...|..+...+.+.|+.++|++.+++..... |.
T Consensus       102 ~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~  178 (280)
T PF13429_consen  102 KAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD-PD  178 (280)
T ss_dssp             ------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT
T ss_pred             cccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CC
Confidence            876653  466777888889999999999999999976532 34577788889999999999999999999999875 55


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 044047          159 GIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLML  238 (260)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  238 (260)
                      ++.....++..+...|+.+++.+++....... +.|+..+..+..++...|+.++|...|++..+. .+.|+.....+..
T Consensus       179 ~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~-~p~d~~~~~~~a~  256 (280)
T PF13429_consen  179 DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKL-NPDDPLWLLAYAD  256 (280)
T ss_dssp             -HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH-STT-HHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccc-ccccccccccccc
Confidence            78889999999999999999999998887764 346677889999999999999999999999885 2457888889999


Q ss_pred             HHHhcCchhHHHHHHHHHhh
Q 044047          239 GCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       239 ~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ++...|+.++|.++.++..+
T Consensus       257 ~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  257 ALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHT-----------------
T ss_pred             cccccccccccccccccccc
Confidence            99999999999999887643

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

Probab=99.80  E-value=4.1e-17  Score=125.31  Aligned_cols=247  Identities=14%  Similarity=0.091  Sum_probs=182.7

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEML   82 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   82 (260)
                      +|++.|++..... |.=...|-.|...|...+.+++|...|....... |.....+..+...|..+|..+.|+..|++..
T Consensus       236 ~aiq~y~eAvkld-P~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral  313 (966)
T KOG4626|consen  236 LAIQHYEEAVKLD-PNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRAL  313 (966)
T ss_pred             HHHHHHHHhhcCC-CcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHH
Confidence            4566666666653 2235667778888888888888888887776553 4456677777777888888888888888887


Q ss_pred             hcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHH
Q 044047           83 SKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEA  162 (260)
Q Consensus        83 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  162 (260)
                      +..+. -...|+.|..++...|++.+|...|.+..... +......+.|...|...|.+++|.++|....+.. +.-...
T Consensus       314 ~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~-p~~aaa  390 (966)
T KOG4626|consen  314 ELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALEVF-PEFAAA  390 (966)
T ss_pred             hcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHhhC-hhhhhh
Confidence            75322 36778888888888888888888888877764 4556677788888888888888888888776543 333456


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-hhhHHHHHHHH
Q 044047          163 YSCLIDGLCKIGKLETAWELFQSLPRVGLMPN-VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPN-CVTFNTLMLGC  240 (260)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~  240 (260)
                      ++.+...|-+.|++++|...+++..+  +.|+ ..+|+.+...|-..|+.+.|.+.+.+....  .|. ...++.|...|
T Consensus       391 ~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~--nPt~AeAhsNLasi~  466 (966)
T KOG4626|consen  391 HNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQI--NPTFAEAHSNLASIY  466 (966)
T ss_pred             hhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhc--CcHHHHHHhhHHHHh
Confidence            78888888888888888888888776  3455 467888888888888888888888887764  444 56677788888


Q ss_pred             HhcCchhHHHHHHHHHhh
Q 044047          241 IRNNETSKVVELLHRMDE  258 (260)
Q Consensus       241 ~~~~~~~~a~~~~~~m~~  258 (260)
                      ...|+..+|++-+++...
T Consensus       467 kDsGni~~AI~sY~~aLk  484 (966)
T KOG4626|consen  467 KDSGNIPEAIQSYRTALK  484 (966)
T ss_pred             hccCCcHHHHHHHHHHHc
Confidence            888888888888776543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.77  E-value=2.7e-15  Score=130.21  Aligned_cols=251  Identities=14%  Similarity=0.037  Sum_probs=152.7

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHH--------------------
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTL--------------------   61 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------------   61 (260)
                      ++|++.|++..+.. +.+...+..+..++...|++++|.+.|+++.+.. +.+...+..+                    
T Consensus       368 ~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~~~A~~~l~~l~  445 (1157)
T PRK11447        368 AQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSPEKALAFIASLS  445 (1157)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCHHHHHHHHHhCC
Confidence            56888888888875 4467778888999999999999999999988764 3334333322                    


Q ss_pred             ----------------------HHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhc
Q 044047           62 ----------------------INGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHS  119 (260)
Q Consensus        62 ----------------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  119 (260)
                                            ...+...|++++|++.+++..+..+. +...+..+...|.+.|++++|...++++.+.
T Consensus       446 ~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~  524 (1157)
T PRK11447        446 ASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRRLAQQ  524 (1157)
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence                                  23344568888888888888876433 4566777888888888888888888887664


Q ss_pred             CCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhc---------------------------------------CCCcCH
Q 044047          120 DVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVL---------------------------------------KCELGI  160 (260)
Q Consensus       120 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------------------------------------~~~~~~  160 (260)
                      . +.+...+..+...+...++.++|...++.+...                                       ..+.++
T Consensus       525 ~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~  603 (1157)
T PRK11447        525 K-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPST  603 (1157)
T ss_pred             C-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCc
Confidence            3 333333332222333333333333333222100                                       013334


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 044047          161 EAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGC  240 (260)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  240 (260)
                      ..+..+...+.+.|++++|...++.+.+... .+...+..++..+...|++++|...++...+.. +.+...+..+..++
T Consensus       604 ~~~~~La~~~~~~g~~~~A~~~y~~al~~~P-~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~  681 (1157)
T PRK11447        604 RIDLTLADWAQQRGDYAAARAAYQRVLTREP-GNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAW  681 (1157)
T ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHH
Confidence            4455556666666666666666666665432 245556666666666666666666666555431 22334444555566


Q ss_pred             HhcCchhHHHHHHHHHhh
Q 044047          241 IRNNETSKVVELLHRMDE  258 (260)
Q Consensus       241 ~~~~~~~~a~~~~~~m~~  258 (260)
                      ...|++++|.++++++..
T Consensus       682 ~~~g~~~eA~~~~~~al~  699 (1157)
T PRK11447        682 AALGDTAAAQRTFNRLIP  699 (1157)
T ss_pred             HhCCCHHHHHHHHHHHhh
Confidence            666666666666666543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.77  E-value=3e-15  Score=115.64  Aligned_cols=217  Identities=9%  Similarity=-0.011  Sum_probs=142.6

Q ss_pred             hccCCHHHHHHHHHHHhhcCCCCchhhHH--HHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHH
Q 044047           31 CLTGEIDRARELFVSMDINGCMHNVVTYN--TLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEH  108 (260)
Q Consensus        31 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  108 (260)
                      .+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++.|...++++.+..+. ++.....+...|.+.|++++
T Consensus       129 ~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~  205 (398)
T PRK10747        129 QQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSS  205 (398)
T ss_pred             HHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHH
Confidence            4455555555555555433  22322111  2234444455555555555555444322 34444445555555555555


Q ss_pred             HHHHHHHHhhcC-----------------------------------------CCcchhhHHHHHHHHHhcCcHHHHHHH
Q 044047          109 ALKLFDEMQHSD-----------------------------------------VAAETSTYNTFIDGLCKNGYIVEAAEL  147 (260)
Q Consensus       109 a~~~~~~~~~~~-----------------------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~  147 (260)
                      |..++..+.+.+                                         .+.++.....+...+...|+.++|.++
T Consensus       206 a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~  285 (398)
T PRK10747        206 LLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQI  285 (398)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            554444443322                                         233555666778888889999999999


Q ss_pred             HHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 044047          148 FRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVA  227 (260)
Q Consensus       148 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  227 (260)
                      +++..+.  ++++...  ++.+....++.+++.+..+...+... -|...+..+.+.+.+.+++++|.+.|+...+.  .
T Consensus       286 L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P-~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~  358 (398)
T PRK10747        286 ILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHG-DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--R  358 (398)
T ss_pred             HHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--C
Confidence            9888773  5565322  23344456899999999988887642 35667888999999999999999999999984  7


Q ss_pred             CChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          228 PNCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       228 p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      |+..++..+..++.+.|+.++|.+++++-.
T Consensus       359 P~~~~~~~La~~~~~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        359 PDAYDYAWLADALDRLHKPEEAAAMRRDGL  388 (398)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999999999999999999999998753

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

Probab=99.76  E-value=3.8e-16  Score=120.10  Aligned_cols=248  Identities=18%  Similarity=0.156  Sum_probs=190.9

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEML   82 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   82 (260)
                      +|..-|.+..+.. +-=+..|..|...+-.+|+...|+..|++..+.+ |.-...|-.|...|...+.++.|+..|.+..
T Consensus       202 ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld-P~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl  279 (966)
T KOG4626|consen  202 EAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD-PNFLDAYINLGNVYKEARIFDRAVSCYLRAL  279 (966)
T ss_pred             hhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCC-CcchHHHhhHHHHHHHHhcchHHHHHHHHHH
Confidence            3444444444432 1123456666777777788888888888777664 4445677888888888888888888887776


Q ss_pred             hcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHH
Q 044047           83 SKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEA  162 (260)
Q Consensus        83 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  162 (260)
                      ..... ...++..+...|...|..+.|+..|++..+.. |.-...|+.+..++...|++.+|...+.+..... +-....
T Consensus       280 ~lrpn-~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hada  356 (966)
T KOG4626|consen  280 NLRPN-HAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADA  356 (966)
T ss_pred             hcCCc-chhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHH
Confidence            64222 46677777777888899999999999888764 4446789999999999999999999999888764 556778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-hhhHHHHHHHH
Q 044047          163 YSCLIDGLCKIGKLETAWELFQSLPRVGLMPN-VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPN-CVTFNTLMLGC  240 (260)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~  240 (260)
                      .+.+...|...|.++.|..+|....+.  .|. ...++.|...|-++|++++|+..+++.+.  +.|+ ...|+.+...|
T Consensus       357 m~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~  432 (966)
T KOG4626|consen  357 MNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTY  432 (966)
T ss_pred             HHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHH
Confidence            888999999999999999999888774  344 56788999999999999999999999887  4666 57788899999


Q ss_pred             HhcCchhHHHHHHHHHhhc
Q 044047          241 IRNNETSKVVELLHRMDER  259 (260)
Q Consensus       241 ~~~~~~~~a~~~~~~m~~~  259 (260)
                      ...|+.+.|.+.+.+.+.-
T Consensus       433 ke~g~v~~A~q~y~rAI~~  451 (966)
T KOG4626|consen  433 KEMGDVSAAIQCYTRAIQI  451 (966)
T ss_pred             HHhhhHHHHHHHHHHHHhc
Confidence            9999999999998887653

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.76  E-value=1e-14  Score=122.51  Aligned_cols=230  Identities=7%  Similarity=-0.026  Sum_probs=182.5

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      ++..|..+..++.. ++.++|...+.......  |+......+...+...|++++|...++++...  .|+...+..+..
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~  550 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAAN  550 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHH
Confidence            67788888888876 78888999888877663  55544444555567899999999999987654  344555667777


Q ss_pred             HHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHH
Q 044047           99 GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLET  178 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  178 (260)
                      ++.+.|+.++|...+++..+.+ +.....+..+.......|++++|...+++.....  |+...+..+..++.+.|+.++
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~de  627 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQRHNVPA  627 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHH
Confidence            8889999999999999988765 4444444444445556699999999999988764  568889999999999999999


Q ss_pred             HHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          179 AWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       179 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      |...+++...... .+...++.+...+...|++++|+..+++..+.. +-+...+..+..++...|++++|...+++..+
T Consensus       628 A~~~l~~AL~l~P-d~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~  705 (987)
T PRK09782        628 AVSDLRAALELEP-NNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVID  705 (987)
T ss_pred             HHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            9999999988752 256778888889999999999999999998862 44677888999999999999999999998765

>PRK12370 invasion protein regulator; Provisional

Probab=99.76  E-value=5.3e-15  Score=118.98  Aligned_cols=247  Identities=15%  Similarity=0.070  Sum_probs=182.5

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHh---------ccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFC---------LTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVE   72 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   72 (260)
                      ++|.+.|++..+.. |.++..|..+..++.         ..+++++|...+++..+.+ |.+..++..+...+...|+++
T Consensus       278 ~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~~  355 (553)
T PRK12370        278 QQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSEYI  355 (553)
T ss_pred             HHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCHH
Confidence            57888899888875 335666766665544         2345899999999998886 668888999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhh
Q 044047           73 ESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLR  152 (260)
Q Consensus        73 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  152 (260)
                      +|...+++..+.++. +...+..+...+...|++++|...+++..+.+ |.+...+..++..+...|++++|...+++..
T Consensus       356 ~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~-P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l  433 (553)
T PRK12370        356 VGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLD-PTRAAAGITKLWITYYHTGIDDAIRLGDELR  433 (553)
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            999999999987533 56678888999999999999999999998875 3333344445555677899999999999887


Q ss_pred             hcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCCCh
Q 044047          153 VLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPN-VVTYNIMIHGFCNDGQMDKAHDLFLDMEAK-GVAPNC  230 (260)
Q Consensus       153 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~p~~  230 (260)
                      ....+.++..+..+..++...|+.++|...+.++...  .|+ ....+.+...+...|  ++|...++.+.+. ...|..
T Consensus       434 ~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~  509 (553)
T PRK12370        434 SQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNN  509 (553)
T ss_pred             HhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcC
Confidence            6542335666788888999999999999999887664  233 444556666777777  4788878777654 122222


Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          231 VTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       231 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      ..+  +-..+.-.|+.+.+..+ +++.+.
T Consensus       510 ~~~--~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        510 PGL--LPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             chH--HHHHHHHHhhhHHHHHH-HHhhcc
Confidence            222  44455566777777665 776654

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

Probab=99.75  E-value=1.2e-15  Score=117.72  Aligned_cols=249  Identities=14%  Similarity=0.091  Sum_probs=196.6

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcC-------------------------------
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDING-------------------------------   50 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------------------------------   50 (260)
                      .+|...|+.+.++ +.-+..+...+..+|...+++++|.++|+.+.+..                               
T Consensus       336 ~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li  414 (638)
T KOG1126|consen  336 REALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLI  414 (638)
T ss_pred             HHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHH
Confidence            4688888886655 34455788889999999999999999999886643                               


Q ss_pred             --CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhH
Q 044047           51 --CMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTY  128 (260)
Q Consensus        51 --~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  128 (260)
                        -+-.+.+|.++..+|..+++.+.|++.|++..+.... ...+|+.+..-+.....+|.|...|+...... +.+-..|
T Consensus       415 ~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~-~rhYnAw  492 (638)
T KOG1126|consen  415 DTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGVD-PRHYNAW  492 (638)
T ss_pred             hhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcCC-chhhHHH
Confidence              1335678889999999999999999999998875332 67888888888888889999999998876654 3445566


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhc
Q 044047          129 NTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCND  208 (260)
Q Consensus       129 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  208 (260)
                      .-+.-.|.+.++++.|+-.|++....+ +-+......+...+.+.|+.++|+++++++...... |+..--.-+..+...
T Consensus       493 YGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~~~  570 (638)
T KOG1126|consen  493 YGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILFSL  570 (638)
T ss_pred             HhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHHhh
Confidence            677888999999999999999888776 556777788888889999999999999998876543 444444556677788


Q ss_pred             CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          209 GQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       209 g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      +++++|+..++++++. ++-+..+|..+...|.+.|+.+.|+.-|.-+
T Consensus       571 ~~~~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A  617 (638)
T KOG1126|consen  571 GRYVEALQELEELKEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWA  617 (638)
T ss_pred             cchHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHH
Confidence            9999999999999885 4445677778889999999999888766544

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.75  E-value=7.6e-15  Score=127.50  Aligned_cols=247  Identities=12%  Similarity=0.061  Sum_probs=183.1

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|++.|++..+.. |.++..+..+...+.+.|++++|...++++.+.. +.+...+..+...+...++.++|+..++++
T Consensus       478 ~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l  555 (1157)
T PRK11447        478 AQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTL  555 (1157)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhC
Confidence            46777777777664 3356667777777777888888888887776543 445555555555566677777777777765


Q ss_pred             HhcCCCCCc---------cchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhh
Q 044047           82 LSKGIRPTV---------VTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLR  152 (260)
Q Consensus        82 ~~~~~~~~~---------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  152 (260)
                      ......++.         ..+..+...+...|+.++|..+++.     .+.+...+..+...+.+.|++++|+..++.+.
T Consensus       556 ~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al  630 (1157)
T PRK11447        556 PRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVL  630 (1157)
T ss_pred             CchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            432211111         1122345567778888888888772     35666778889999999999999999999999


Q ss_pred             hcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC--CC--
Q 044047          153 VLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGV--AP--  228 (260)
Q Consensus       153 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~p--  228 (260)
                      ... +.++..+..++..+...|++++|.+.++.+.+... .+...+..+..++...|++++|.++++++.....  +|  
T Consensus       631 ~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~  708 (1157)
T PRK11447        631 TRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATAN-DSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSM  708 (1157)
T ss_pred             HhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCC-CChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcch
Confidence            875 66788999999999999999999999998876532 2456677788899999999999999999987522  22  


Q ss_pred             -ChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          229 -NCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       229 -~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                       +...+..+...+...|++++|.+.+++..
T Consensus       709 ~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al  738 (1157)
T PRK11447        709 ESALVLRDAARFEAQTGQPQQALETYKDAM  738 (1157)
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence             22456667888999999999999999875

>TIGR00540 hemY_coli hemY protein

Probab=99.73  E-value=2.3e-14  Score=111.32  Aligned_cols=227  Identities=8%  Similarity=-0.041  Sum_probs=132.5

Q ss_pred             HHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchH-HHHHHH---hc
Q 044047           27 IDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYN-TLFHGL---FE  102 (260)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~---~~  102 (260)
                      ...+...|+++.|...++.+.+.+ |.+..++..+...+...|++++|.+.+..+.+.++. +...+. .-..++   ..
T Consensus       160 a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~  237 (409)
T TIGR00540       160 TRILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLD  237 (409)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHH
Confidence            444445555555555555555443 334445555555555555555555555555554332 111111 111111   11


Q ss_pred             cccHHHHHHHHHHHhhcC---CCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHH--HHHHHHHHHhcCCHH
Q 044047          103 IHQVEHALKLFDEMQHSD---VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEA--YSCLIDGLCKIGKLE  177 (260)
Q Consensus       103 ~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~  177 (260)
                      .+..+.....+..+.+..   .+.+...+..+...+...|+.++|.+.+++..+.. +.+...  ...........++.+
T Consensus       238 ~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~-pd~~~~~~~~l~~~~~l~~~~~~  316 (409)
T TIGR00540       238 EAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL-GDDRAISLPLCLPIPRLKPEDNE  316 (409)
T ss_pred             HHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC-CCcccchhHHHHHhhhcCCCChH
Confidence            111111122222222221   11255666677777888888888888888887754 222211  111122223456777


Q ss_pred             HHHHHHHhhhhCCCCCch--hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHH
Q 044047          178 TAWELFQSLPRVGLMPNV--VTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHR  255 (260)
Q Consensus       178 ~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  255 (260)
                      .+.+.++...+.. +-|+  .....+...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++
T Consensus       317 ~~~~~~e~~lk~~-p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~  395 (409)
T TIGR00540       317 KLEKLIEKQAKNV-DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQD  395 (409)
T ss_pred             HHHHHHHHHHHhC-CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            8888887776653 1234  556688899999999999999999644444578998899999999999999999999987


Q ss_pred             Hh
Q 044047          256 MD  257 (260)
Q Consensus       256 m~  257 (260)
                      -.
T Consensus       396 ~l  397 (409)
T TIGR00540       396 SL  397 (409)
T ss_pred             HH
Confidence            53

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

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

Probab=99.73  E-value=4.9e-17  Score=120.25  Aligned_cols=228  Identities=15%  Similarity=0.161  Sum_probs=101.4

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHhhcC-CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcc
Q 044047           25 TLIDGFCLTGEIDRARELFVSMDING-CMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEI  103 (260)
Q Consensus        25 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  103 (260)
                      .+...+.+.|++++|.++++...... .+.+...|..+.......++++.|...++++...+.. ++..+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            56888999999999999996654443 2456667777777888899999999999999987654 67778788877 789


Q ss_pred             ccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC-CCcCHHHHHHHHHHHHhcCCHHHHHHH
Q 044047          104 HQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK-CELGIEAYSCLIDGLCKIGKLETAWEL  182 (260)
Q Consensus       104 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~  182 (260)
                      +++++|.++++...+..  +++..+..++..+...++++++..+++.+.... .+.++..|..+...+.+.|+.++|.+.
T Consensus        91 ~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             ccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999998876543  556677888899999999999999999977533 346778889999999999999999999


Q ss_pred             HHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      +++..+..+ .|......++..+...|+.+++.+++....+.. +.|+..+..+..++...|+.++|..++++..+
T Consensus       169 ~~~al~~~P-~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~  242 (280)
T PF13429_consen  169 YRKALELDP-DDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALK  242 (280)
T ss_dssp             HHHHHHH-T-T-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHH
T ss_pred             HHHHHHcCC-CCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccc
Confidence            999998742 257788899999999999999999999888763 56777888999999999999999999998765

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.73  E-value=5.1e-14  Score=118.44  Aligned_cols=244  Identities=11%  Similarity=-0.035  Sum_probs=191.9

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|+..+.......  |+......+...+...|++++|...|+++...  +|+...+..+...+.+.|++++|...+++.
T Consensus       493 ~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qA  568 (987)
T PRK09782        493 GVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQA  568 (987)
T ss_pred             HHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            46777777776653  45444444555567899999999999998655  455566777788899999999999999999


Q ss_pred             HhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHH
Q 044047           82 LSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIE  161 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  161 (260)
                      .+.... +...+..+.......|++++|...+++..+..  |+...+..+..++.+.|++++|+..++...... +.+..
T Consensus       569 L~l~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~  644 (987)
T PRK09782        569 EQRGLG-DNALYWWLHAQRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSN  644 (987)
T ss_pred             HhcCCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH
Confidence            886422 22223333334445699999999999998865  468889999999999999999999999999876 66788


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCh-hhHHHHHHHH
Q 044047          162 AYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNC-VTFNTLMLGC  240 (260)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~  240 (260)
                      .++.+...+...|++++|...++...+... -+...+..+..++...|++++|...+++..+.  .|+. .+........
T Consensus       645 a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P-~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l--~P~~a~i~~~~g~~~  721 (987)
T PRK09782        645 YQAALGYALWDSGDIAQSREMLERAHKGLP-DDPALIRQLAYVNQRLDDMAATQHYARLVIDD--IDNQALITPLTPEQN  721 (987)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCchhhhhhhHHH
Confidence            899999999999999999999999988643 35778899999999999999999999999985  4543 4444555666


Q ss_pred             HhcCchhHHHHHHHHH
Q 044047          241 IRNNETSKVVELLHRM  256 (260)
Q Consensus       241 ~~~~~~~~a~~~~~~m  256 (260)
                      .+..+++.+.+-+++.
T Consensus       722 ~~~~~~~~a~~~~~r~  737 (987)
T PRK09782        722 QQRFNFRRLHEEVGRR  737 (987)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            6777777777766654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.73  E-value=1.6e-14  Score=106.69  Aligned_cols=241  Identities=18%  Similarity=0.263  Sum_probs=194.5

Q ss_pred             CCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHH
Q 044047           16 VRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNT   95 (260)
Q Consensus        16 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   95 (260)
                      .|.+..+|.++|.++|+-...+.|.+++++..+...+.+..+||.+|.+-.-..+    .+++.+|....+.||..|||+
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNa  278 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNA  278 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHH
Confidence            3557889999999999999999999999999887778999999999976544333    788999999999999999999


Q ss_pred             HHHHHhccccHHH----HHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHH-HHHHHHHhhh----cCC----CcCHHH
Q 044047           96 LFHGLFEIHQVEH----ALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVE-AAELFRTLRV----LKC----ELGIEA  162 (260)
Q Consensus        96 l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~----~~~----~~~~~~  162 (260)
                      ++++..+.|+++.    |.+++.+|++.|+.|...+|..+|..+++.++..+ +..++.++..    +.+    +.+...
T Consensus       279 lL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~F  358 (625)
T KOG4422|consen  279 LLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKF  358 (625)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHH
Confidence            9999999998765    56778889999999999999999999999888754 4445554432    212    234456


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhCC----CCCc---hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHH
Q 044047          163 YSCLIDGLCKIGKLETAWELFQSLPRVG----LMPN---VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNT  235 (260)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  235 (260)
                      |...+..|.+..+.+-|.++..-+....    +.|+   ..-|..+....++....+.....|+.|.-.-+-|+..+...
T Consensus       359 F~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~  438 (625)
T KOG4422|consen  359 FQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIH  438 (625)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHH
Confidence            6777888889999998888876554321    2233   23466777888888899999999999998878899999999


Q ss_pred             HHHHHHhcCchhHHHHHHHHHhhcC
Q 044047          236 LMLGCIRNNETSKVVELLHRMDERN  260 (260)
Q Consensus       236 l~~~~~~~~~~~~a~~~~~~m~~~~  260 (260)
                      ++++....|.++-..+++..++..|
T Consensus       439 ~lrA~~v~~~~e~ipRiw~D~~~~g  463 (625)
T KOG4422|consen  439 LLRALDVANRLEVIPRIWKDSKEYG  463 (625)
T ss_pred             HHHHHhhcCcchhHHHHHHHHHHhh
Confidence            9999999999999999999887654

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.72  E-value=3.9e-14  Score=102.00  Aligned_cols=202  Identities=11%  Similarity=0.057  Sum_probs=144.0

Q ss_pred             CchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHH
Q 044047           53 HNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFI  132 (260)
Q Consensus        53 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  132 (260)
                      .....+..+...+...|++++|...+++..+... .+...+..+...+...|++++|...+++..+.. +.+...+..+.
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~  106 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHDP-DDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYG  106 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHH
Confidence            3456667777777778888888888877766532 245566677777777888888888887777654 44556677777


Q ss_pred             HHHHhcCcHHHHHHHHHHhhhcCC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCCh
Q 044047          133 DGLCKNGYIVEAAELFRTLRVLKC-ELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQM  211 (260)
Q Consensus       133 ~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  211 (260)
                      ..+...|++++|.+.++....... +.....+..+...+...|++++|...+.+..+... .+...+..+...+...|++
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP-QRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CChHHHHHHHHHHHHcCCH
Confidence            777888888888888887765421 22345566677778888888888888888776532 2455677777888888888


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          212 DKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       212 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ++|...+++..+. .+.+...+..+...+...|+.++|..+.+.+.+
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            8888888887765 344566666777777788888888887776654

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

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.70  E-value=7.3e-14  Score=100.60  Aligned_cols=203  Identities=13%  Similarity=0.075  Sum_probs=171.4

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF   97 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   97 (260)
                      .....+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+.... +...+..+.
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~  106 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN-NGDVLNNYG  106 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHH
Confidence            346778889999999999999999999998765 566788899999999999999999999999887543 566788888


Q ss_pred             HHHhccccHHHHHHHHHHHhhcCC-CcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCH
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSDV-AAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKL  176 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  176 (260)
                      ..+...|++++|...+++...... +.....+..+..++...|++++|...+.+..... +.+...+..+...+...|++
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCH
Confidence            999999999999999999876432 2344567778889999999999999999988765 45677888999999999999


Q ss_pred             HHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          177 ETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       177 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      ++|...+++.... .+.+...+..+...+...|+.++|..+.+.+...
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            9999999998876 2345677778888888999999999998887653

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.

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.70  E-value=2.5e-13  Score=113.41  Aligned_cols=252  Identities=11%  Similarity=0.046  Sum_probs=182.0

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|++++....... +.+...+..+...+...|++++|..+|++..+.. |.+...+..+..++...|++++|+..++++
T Consensus        32 ~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~  109 (765)
T PRK10049         32 AEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQL  109 (765)
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            56788888887633 4456678889999999999999999999988775 566777888889999999999999999999


Q ss_pred             HhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHH------------
Q 044047           82 LSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFR------------  149 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~------------  149 (260)
                      .+.... +.. +..+..++...|+.++|+..++++.+.. |.+...+..+..++...+..+.|++.++            
T Consensus       110 l~~~P~-~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l  186 (765)
T PRK10049        110 VSGAPD-KAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDL  186 (765)
T ss_pred             HHhCCC-CHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHH
Confidence            887333 455 8888888999999999999999998875 5566666667777766666665554444            


Q ss_pred             ----------------------------------Hhhhc-CCCcCHH-HHH----HHHHHHHhcCCHHHHHHHHHhhhhC
Q 044047          150 ----------------------------------TLRVL-KCELGIE-AYS----CLIDGLCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       150 ----------------------------------~~~~~-~~~~~~~-~~~----~l~~~~~~~~~~~~a~~~~~~~~~~  189 (260)
                                                        .+... ...|+.. .+.    ..+..+...|++++|...|+.+.+.
T Consensus       187 ~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~  266 (765)
T PRK10049        187 EADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAE  266 (765)
T ss_pred             HHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc
Confidence                                              22221 0111111 111    1123445778999999999999887


Q ss_pred             CCC-CchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC---ChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          190 GLM-PNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAP---NCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       190 ~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      +.. |+. ....+...+...|++++|+..|+++.+.....   .......+..++...|++++|.++++++.+.
T Consensus       267 ~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~  339 (765)
T PRK10049        267 GQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINN  339 (765)
T ss_pred             CCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhc
Confidence            532 332 22335778899999999999999987642111   1345566777889999999999999988653

>PRK12370 invasion protein regulator; Provisional

Probab=99.70  E-value=6.7e-14  Score=112.70  Aligned_cols=233  Identities=12%  Similarity=0.012  Sum_probs=175.2

Q ss_pred             ccHHHHHHHHHHHhc-----cCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHh---------cCChHHHHHHHHHHHh
Q 044047           18 PNAFVYSTLIDGFCL-----TGEIDRARELFVSMDINGCMHNVVTYNTLINGYCK---------TKDVEESLNLYSEMLS   83 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~   83 (260)
                      .+...|...+.+...     .+++++|...|++..+.. |.+...|..+..++..         .+++++|...+++..+
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~  332 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE  332 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh
Confidence            355666666665322     245789999999998875 5556677776665542         3458899999999998


Q ss_pred             cCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHH
Q 044047           84 KGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAY  163 (260)
Q Consensus        84 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  163 (260)
                      .... +...+..+...+...|++++|...|++..+.+ |.+...+..+..++...|++++|...++...... +.+...+
T Consensus       333 ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~-P~~~~~~  409 (553)
T PRK12370        333 LDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD-PTRAAAG  409 (553)
T ss_pred             cCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCChhhH
Confidence            7544 67788888888999999999999999999886 6677888899999999999999999999998875 3344444


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHh
Q 044047          164 SCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNC-VTFNTLMLGCIR  242 (260)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~  242 (260)
                      ..++..+...|++++|...++++.....+-+...+..+..++...|+.++|...+.++...  .|+. ...+.+...+..
T Consensus       410 ~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~  487 (553)
T PRK12370        410 ITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQ  487 (553)
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhc
Confidence            4455556778999999999999876532224556777888899999999999999987664  4443 334455566677


Q ss_pred             cCchhHHHHHHHHHhh
Q 044047          243 NNETSKVVELLHRMDE  258 (260)
Q Consensus       243 ~~~~~~a~~~~~~m~~  258 (260)
                      .|  +.|...++++.+
T Consensus       488 ~g--~~a~~~l~~ll~  501 (553)
T PRK12370        488 NS--ERALPTIREFLE  501 (553)
T ss_pred             cH--HHHHHHHHHHHH
Confidence            77  477777777654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.69  E-value=2e-13  Score=101.02  Aligned_cols=253  Identities=14%  Similarity=0.213  Sum_probs=158.8

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHH----HHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEE----SLNL   77 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~   77 (260)
                      ++|.+++++-.....+.+..+||.+|.+-.-.    ...+++.+|....+.||..|+|+++++..+.|+++.    |.++
T Consensus       224 ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqi  299 (625)
T KOG4422|consen  224 ERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQI  299 (625)
T ss_pred             HHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHH
Confidence            67888888888877788888888888765432    237788888888888999999999999999997764    5677


Q ss_pred             HHHHHhcCCCCCccchHHHHHHHhccccHHH-HHHHHHHHhh----cCC----CcchhhHHHHHHHHHhcCcHHHHHHHH
Q 044047           78 YSEMLSKGIRPTVVTYNTLFHGLFEIHQVEH-ALKLFDEMQH----SDV----AAETSTYNTFIDGLCKNGYIVEAAELF  148 (260)
Q Consensus        78 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~----~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~  148 (260)
                      +.+|++.|+.|...+|..++..+.+.++..+ +..++..+..    ...    +.+...|...+..|.+..+.+-|.++.
T Consensus       300 l~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~  379 (625)
T KOG4422|consen  300 LGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVH  379 (625)
T ss_pred             HHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHH
Confidence            7888888999999999999988888877754 3333333321    111    234455667777777777777777665


Q ss_pred             HHhhhcC----CCcCH---HHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047          149 RTLRVLK----CELGI---EAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDM  221 (260)
Q Consensus       149 ~~~~~~~----~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  221 (260)
                      .-+....    ++|+.   .-|..+....++....+.-...|+.|.-.-+-|+..+...++++....|.++-.-++|..+
T Consensus       380 ~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~  459 (625)
T KOG4422|consen  380 GLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDS  459 (625)
T ss_pred             HHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHH
Confidence            5443211    12221   1233344444455555555555555544434444444444555444444444444444443


Q ss_pred             HhCC------------------------------------------------------CCCChhhHHHHHHHHHhcCchh
Q 044047          222 EAKG------------------------------------------------------VAPNCVTFNTLMLGCIRNNETS  247 (260)
Q Consensus       222 ~~~~------------------------------------------------------~~p~~~~~~~l~~~~~~~~~~~  247 (260)
                      ...|                                                      ..-.....+.....+.+.|..+
T Consensus       460 ~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~q  539 (625)
T KOG4422|consen  460 KEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPATSLNCIAILLLRAGRTQ  539 (625)
T ss_pred             HHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChhHHHHHHHHHHHcchHH
Confidence            3322                                                      1112334455666677888888


Q ss_pred             HHHHHHHHHhh
Q 044047          248 KVVELLHRMDE  258 (260)
Q Consensus       248 ~a~~~~~~m~~  258 (260)
                      +|.+++..+..
T Consensus       540 kA~e~l~l~~~  550 (625)
T KOG4422|consen  540 KAWEMLGLFLR  550 (625)
T ss_pred             HHHHHHHHHHh
Confidence            88888877644

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.68  E-value=5.7e-13  Score=103.12  Aligned_cols=218  Identities=7%  Similarity=0.006  Sum_probs=165.5

Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCchhh-HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchH--HHHHHHhccccHHH
Q 044047           32 LTGEIDRARELFVSMDINGCMHNVVT-YNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYN--TLFHGLFEIHQVEH  108 (260)
Q Consensus        32 ~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~  108 (260)
                      -.|+++.|.+.+....+..  +++.. |........+.|+++.|...+.++.+.  .|+.....  .....+...|+++.
T Consensus        96 ~eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~  171 (398)
T PRK10747         96 AEGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHA  171 (398)
T ss_pred             hCCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHH
Confidence            3699999998888765542  23333 334455558899999999999999875  44543333  34678889999999


Q ss_pred             HHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCC--------------------------------
Q 044047          109 ALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKC--------------------------------  156 (260)
Q Consensus       109 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------------------------------  156 (260)
                      |...++++.+.. |.++.....+...|.+.|++++|.+++..+.+.+.                                
T Consensus       172 Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~  250 (398)
T PRK10747        172 ARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKR  250 (398)
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            999999998887 67788899999999999999999988877764332                                


Q ss_pred             ---------CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 044047          157 ---------ELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVA  227 (260)
Q Consensus       157 ---------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  227 (260)
                               +.++.....+...+...|+.++|.+++++..+.  +|+...  .++.+....++.+++.+..+...+. .+
T Consensus       251 ~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~-~P  325 (398)
T PRK10747        251 WWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQ-HG  325 (398)
T ss_pred             HHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhh-CC
Confidence                     123445556677888899999999999888774  344422  2334444668999999999998876 34


Q ss_pred             CChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          228 PNCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       228 p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      -|+..+..+...|.+.+++++|.+.|+...+.
T Consensus       326 ~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~  357 (398)
T PRK10747        326 DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ  357 (398)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            45667788899999999999999999988654

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

Probab=99.68  E-value=4.4e-13  Score=99.96  Aligned_cols=247  Identities=11%  Similarity=0.040  Sum_probs=187.8

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCC---chhhHHHHHHHHHhcCChHHHHHHHH
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMH---NVVTYNTLINGYCKTKDVEESLNLYS   79 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~   79 (260)
                      ++.+-.+.+...|.+.+...-+....+.-...++++|+.+|+++.+.+ |-   |..+|..++-.-....    .+..+.
T Consensus       245 e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knD-PYRl~dmdlySN~LYv~~~~s----kLs~LA  319 (559)
T KOG1155|consen  245 EALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKND-PYRLDDMDLYSNVLYVKNDKS----KLSYLA  319 (559)
T ss_pred             HHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcchhHHHHhHHHHHHhhhH----HHHHHH
Confidence            445555556666666666555555556666777888888888877663 21   4555655554322211    122222


Q ss_pred             HHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcC
Q 044047           80 EMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELG  159 (260)
Q Consensus        80 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  159 (260)
                      +-...=-+--+.|..++...|+-.++.++|...|++..+.+ |.....|+.+..-|....+...|...++..++.. |.|
T Consensus       320 ~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~D  397 (559)
T KOG1155|consen  320 QNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRD  397 (559)
T ss_pred             HHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chh
Confidence            21111112345677778888888999999999999999987 6677889999999999999999999999999876 778


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 044047          160 IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLG  239 (260)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  239 (260)
                      -..|..+.++|.-.+...-|+-.|++..... +-|...|..|..+|.+.++.++|+..|......|- .+...+..|...
T Consensus       398 yRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l~~LakL  475 (559)
T KOG1155|consen  398 YRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSALVRLAKL  475 (559)
T ss_pred             HHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHHHHHHHH
Confidence            8999999999999999999999999998864 23688999999999999999999999999988753 366888999999


Q ss_pred             HHhcCchhHHHHHHHHHhh
Q 044047          240 CIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       240 ~~~~~~~~~a~~~~~~m~~  258 (260)
                      +-+.++.++|.+.+.+-++
T Consensus       476 ye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  476 YEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHhHHHHHHHHHHHHH
Confidence            9999999999998887554

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

Probab=99.68  E-value=4e-13  Score=95.82  Aligned_cols=219  Identities=13%  Similarity=0.107  Sum_probs=120.4

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcC-CCC--chhhHHHHHHHHHhcCChHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDING-CMH--NVVTYNTLINGYCKTKDVEESLNLY   78 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~   78 (260)
                      ++|.++|-+|.+.. +-+..+.-+|.+.|-+.|..+.|+++.+.+.... .+.  -......+..-|...|-++.|..+|
T Consensus        52 dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f  130 (389)
T COG2956          52 DKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIF  130 (389)
T ss_pred             chHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHH
Confidence            45666666666643 3344555566666666777777777766665431 000  0122344555566666666676666


Q ss_pred             HHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcc----hhhHHHHHHHHHhcCcHHHHHHHHHHhhhc
Q 044047           79 SEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAE----TSTYNTFIDGLCKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus        79 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  154 (260)
                      ..+.+.|.- -......|+..|-...+|++|+.+-+++.+.+-.+.    ...|.-+...+....+++.|..++.+..+.
T Consensus       131 ~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa  209 (389)
T COG2956         131 NQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQA  209 (389)
T ss_pred             HHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhh
Confidence            666654322 344555566666666666666666666655442222    122334444444555666666666665544


Q ss_pred             CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          155 KCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       155 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      + +..+..--.+.+.....|+++.|.+.++...+.+...-..+...|..+|...|+.++...++.++.+
T Consensus       210 ~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~  277 (389)
T COG2956         210 D-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAME  277 (389)
T ss_pred             C-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            3 2233333444555666666666666666666554333344555566666666666666666555544

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

Probab=99.67  E-value=1.3e-13  Score=98.32  Aligned_cols=222  Identities=14%  Similarity=0.134  Sum_probs=182.5

Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCc------cchHHHHHHHhcccc
Q 044047           32 LTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTV------VTYNTLFHGLFEIHQ  105 (260)
Q Consensus        32 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~  105 (260)
                      -.++.++|.++|-+|.+.+ +.+..+.-++.+.|-+.|..+.|+++.+.+.++   ||.      .....|.+-|...|-
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl  122 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGL  122 (389)
T ss_pred             hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhh
Confidence            3578999999999999865 667778889999999999999999999999886   332      223346667888999


Q ss_pred             HHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCH----HHHHHHHHHHHhcCCHHHHHH
Q 044047          106 VEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGI----EAYSCLIDGLCKIGKLETAWE  181 (260)
Q Consensus       106 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~  181 (260)
                      +|.|+.+|..+.+.+ ..-......|+..|....+|++|+..-+++.+.+..+..    ..|..+...+....+.+.|..
T Consensus       123 ~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~  201 (389)
T COG2956         123 LDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARE  201 (389)
T ss_pred             hhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHH
Confidence            999999999998865 445667889999999999999999999988877644432    356777888888899999999


Q ss_pred             HHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          182 LFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      ++.+..+.+.+ +...--.+.+.....|+++.|.+.++...+.+..--+.+...|..+|.+.|+.++...++.++.+.
T Consensus       202 ~l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~  278 (389)
T COG2956         202 LLKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET  278 (389)
T ss_pred             HHHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            99998876432 344555677889999999999999999998865555778889999999999999999999887653

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

Probab=99.66  E-value=3.7e-14  Score=101.37  Aligned_cols=228  Identities=16%  Similarity=0.094  Sum_probs=197.6

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccch-HHHHHHHhc
Q 044047           24 STLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTY-NTLFHGLFE  102 (260)
Q Consensus        24 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~  102 (260)
                      +.+..+|.+.|-+.+|...++.....  .|-+.||..+-+.|.+.+++..|+.++.+-.+.  .|..+|| .-..+.+..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHH
Confidence            56889999999999999999998876  688899999999999999999999999998775  4444554 456777888


Q ss_pred             cccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHH
Q 044047          103 IHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL  182 (260)
Q Consensus       103 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  182 (260)
                      .++.++|.++|+...+.. +.+......+...|.-.++++.|++.++++...| .-++..|+.+.-+|.-.++++-++.-
T Consensus       303 m~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG-~~speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMG-AQSPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhc-CCChHHHhhHHHHHHhhcchhhhHHH
Confidence            899999999999998875 6788888888889999999999999999999999 55889999999999999999999999


Q ss_pred             HHhhhhCCCCCc--hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          183 FQSLPRVGLMPN--VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       183 ~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      |.+....--.|+  ...|..+.......|++..|.+.|+-.+..+ +-+...++.|...-.+.|++++|..+++....
T Consensus       381 f~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  381 FQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            999887654455  4678888888889999999999999988764 44678899999999999999999999987654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.66  E-value=1.8e-12  Score=108.36  Aligned_cols=154  Identities=8%  Similarity=-0.036  Sum_probs=67.8

Q ss_pred             ccccHHHHHHHHHHHhhcCCC-cchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCc---CHHHHHHHHHHHHhcCCHH
Q 044047          102 EIHQVEHALKLFDEMQHSDVA-AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCEL---GIEAYSCLIDGLCKIGKLE  177 (260)
Q Consensus       102 ~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~  177 (260)
                      ..|+.++|+..|+.+.+.+.+ |+ .....+..+|...|++++|+..|+.+.......   .......+..++...|+++
T Consensus       249 ~~g~~~eA~~~~~~ll~~~~~~P~-~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~  327 (765)
T PRK10049        249 ARDRYKDVISEYQRLKAEGQIIPP-WAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYP  327 (765)
T ss_pred             HhhhHHHHHHHHHHhhccCCCCCH-HHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHH
Confidence            334555555555555444311 11 111123445555555555555555544322100   1223333444455555555


Q ss_pred             HHHHHHHhhhhCCC-----------CCc---hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc
Q 044047          178 TAWELFQSLPRVGL-----------MPN---VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRN  243 (260)
Q Consensus       178 ~a~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  243 (260)
                      +|..+++.+.....           .|+   ...+..+...+...|++++|+++++++... .+.+...+..+...+...
T Consensus       328 eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~-~P~n~~l~~~lA~l~~~~  406 (765)
T PRK10049        328 GALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN-APGNQGLRIDYASVLQAR  406 (765)
T ss_pred             HHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhc
Confidence            55555555544310           011   112233444444555555555555555443 233344444455555555


Q ss_pred             CchhHHHHHHHHHh
Q 044047          244 NETSKVVELLHRMD  257 (260)
Q Consensus       244 ~~~~~a~~~~~~m~  257 (260)
                      |++++|++.+++..
T Consensus       407 g~~~~A~~~l~~al  420 (765)
T PRK10049        407 GWPRAAENELKKAE  420 (765)
T ss_pred             CCHHHHHHHHHHHH
Confidence            55555555555443

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

Probab=99.64  E-value=3.1e-12  Score=93.75  Aligned_cols=247  Identities=11%  Similarity=0.097  Sum_probs=147.2

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      .+|+++..+-.+.+-.| ...|..-..+.-+.|+.+.+..++.+..+..-.++....-+..+.....|+++.|..-+.++
T Consensus       101 ~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~l  179 (400)
T COG3071         101 QQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQL  179 (400)
T ss_pred             HHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHH
Confidence            34555555544444332 23344444555556666666666666554422344455555555555566666666655555


Q ss_pred             HhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCC---------------------------------------
Q 044047           82 LSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA---------------------------------------  122 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---------------------------------------  122 (260)
                      .+.+.. ++.......++|.+.|++..+..++..+.+.+.-                                       
T Consensus       180 l~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~  258 (400)
T COG3071         180 LEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK  258 (400)
T ss_pred             HHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHH
Confidence            555433 4455555556666666666665555555554432                                       


Q ss_pred             --cchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHH
Q 044047          123 --AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNI  200 (260)
Q Consensus       123 --~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  200 (260)
                        .++..-..++.-+.++|+.++|.++.++..+.+..|+.    ...-.+.+.++.+.-.+..+.-.+.. +-++..+..
T Consensus       259 lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L----~~~~~~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~t  333 (400)
T COG3071         259 LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL----CRLIPRLRPGDPEPLIKAAEKWLKQH-PEDPLLLST  333 (400)
T ss_pred             hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH----HHHHhhcCCCCchHHHHHHHHHHHhC-CCChhHHHH
Confidence              23333444455555555555555555555544433331    11122334445544444444433332 224567888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          201 MIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       201 l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      |...|.+.+.|.+|...|+...+  ..|+..+|..+..++.+.|+..+|.++.++..
T Consensus       334 LG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         334 LGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            99999999999999999998777  47999999999999999999999999888753

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.63  E-value=3e-12  Score=106.00  Aligned_cols=228  Identities=12%  Similarity=0.041  Sum_probs=130.1

Q ss_pred             HHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccH
Q 044047           27 IDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQV  106 (260)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  106 (260)
                      ...+...|++++|.++|+++.+.. |.++..+..++..+...++.++|++.++++...  .|+...+..++..+...++.
T Consensus       109 A~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~  185 (822)
T PRK14574        109 ARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRN  185 (822)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchH
Confidence            334455555555555555555443 333444445555555555555555555555443  23333332332233233444


Q ss_pred             HHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHh-----------------------------------
Q 044047          107 EHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTL-----------------------------------  151 (260)
Q Consensus       107 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-----------------------------------  151 (260)
                      .+|+..++++.+.. |.+...+..+..++.+.|-...|.++...-                                   
T Consensus       186 ~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~  264 (822)
T PRK14574        186 YDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERF  264 (822)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            34556666655553 444445555555555555444444333211                                   


Q ss_pred             -------------hh-cCCCcC-HHH----HHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChH
Q 044047          152 -------------RV-LKCELG-IEA----YSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMD  212 (260)
Q Consensus       152 -------------~~-~~~~~~-~~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  212 (260)
                                   .. .+..|. ...    ..-.+-++...|++.++.+.++.+...+.+....+-..+..+|...++++
T Consensus       265 ~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~  344 (822)
T PRK14574        265 DIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPE  344 (822)
T ss_pred             HHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcH
Confidence                         00 000011 111    11234456677888888888888887775544567778888999999999


Q ss_pred             HHHHHHHHHHhCC-----CCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          213 KAHDLFLDMEAKG-----VAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       213 ~a~~~~~~~~~~~-----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      +|..+++.+....     .+++......|.-++..++++++|..+++++.+
T Consensus       345 kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~  395 (822)
T PRK14574        345 KAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSE  395 (822)
T ss_pred             HHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHh
Confidence            9999999886542     123344457788899999999999999998875

>TIGR00540 hemY_coli hemY protein

Probab=99.62  E-value=3.5e-12  Score=99.26  Aligned_cols=245  Identities=9%  Similarity=-0.015  Sum_probs=173.1

Q ss_pred             hhHHHHHHHHHHcCCCccH-HHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCch--hhHHHHHHHHHhcCChHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNA-FVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNV--VTYNTLINGYCKTKDVEESLNLY   78 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~   78 (260)
                      +.|.+.+....+.  .|++ ..+-....+..+.|+++.|.+.+.+..+..  |+.  .........+...|+++.|...+
T Consensus       101 ~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~Al~~l  176 (409)
T TIGR00540       101 AKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAARHGV  176 (409)
T ss_pred             HHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4677777766655  3443 344455677888899999999999987653  443  34444588888999999999999


Q ss_pred             HHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHH-HHHHHH---HhcCcHHHHHHHHHHhhhc
Q 044047           79 SEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYN-TFIDGL---CKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus        79 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~---~~~~~~~~a~~~~~~~~~~  154 (260)
                      +.+.+..+. +..+...+...+...|++++|.+.+..+.+.+.. +...+. .-..++   ...+..+.+...+..+...
T Consensus       177 ~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~  254 (409)
T TIGR00540       177 DKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKN  254 (409)
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            999998644 6678889999999999999999999999988744 333332 111111   2222233333344444433


Q ss_pred             C---CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhh---HHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 044047          155 K---CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVT---YNIMIHGFCNDGQMDKAHDLFLDMEAKGVAP  228 (260)
Q Consensus       155 ~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  228 (260)
                      .   .+.++..+..++..+...|+.++|.+++++..+..  ||...   .....-.....++.+.+.+.++...+. .+-
T Consensus       255 ~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~-~p~  331 (409)
T TIGR00540       255 QPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN-VDD  331 (409)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh-CCC
Confidence            2   12478889999999999999999999999998864  34331   122222233467888999999888875 233


Q ss_pred             Ch--hhHHHHHHHHHhcCchhHHHHHHHH
Q 044047          229 NC--VTFNTLMLGCIRNNETSKVVELLHR  255 (260)
Q Consensus       229 ~~--~~~~~l~~~~~~~~~~~~a~~~~~~  255 (260)
                      |+  ....++...+.+.|++++|.+.|+.
T Consensus       332 ~~~~~ll~sLg~l~~~~~~~~~A~~~le~  360 (409)
T TIGR00540       332 KPKCCINRALGQLLMKHGEFIEAADAFKN  360 (409)
T ss_pred             ChhHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            44  5566889999999999999999994

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

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.62  E-value=6.7e-12  Score=103.96  Aligned_cols=250  Identities=14%  Similarity=0.090  Sum_probs=149.6

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|+++|+++.+.. |.++..+..++..+...++.++|++.++.+....  |+...+..++..+...++..+|++.++++
T Consensus       119 d~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d--p~~~~~l~layL~~~~~~~~~AL~~~ekl  195 (822)
T PRK14574        119 DQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERD--PTVQNYMTLSYLNRATDRNYDALQASSEA  195 (822)
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC--cchHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            57889999998876 4457777788888889999999999999887763  55555544444444456665688888887


Q ss_pred             HhcCCCCCccchHHHHH---------------------------------------------------------------
Q 044047           82 LSKGIRPTVVTYNTLFH---------------------------------------------------------------   98 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~---------------------------------------------------------------   98 (260)
                      .+..+. +...+..+..                                                               
T Consensus       196 l~~~P~-n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~  274 (822)
T PRK14574        196 VRLAPT-SEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADY  274 (822)
T ss_pred             HHhCCC-CHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHH
Confidence            765321 2222222222                                                               


Q ss_pred             --------------------------HHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhh
Q 044047           99 --------------------------GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLR  152 (260)
Q Consensus        99 --------------------------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  152 (260)
                                                ++...++..++++.|+.+...+.+....+-..+..+|...+++++|+.+++.+.
T Consensus       275 ~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~  354 (822)
T PRK14574        275 QNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLY  354 (822)
T ss_pred             HHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHh
Confidence                                      223344555555555655555544344455566666666666666666666664


Q ss_pred             hcC-----CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCC-----------CCc---hhhHHHHHHHHHhcCChHH
Q 044047          153 VLK-----CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGL-----------MPN---VVTYNIMIHGFCNDGQMDK  213 (260)
Q Consensus       153 ~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~g~~~~  213 (260)
                      ...     .+++......|..++...+++++|..+++.+.+...           .||   ...+..++..+...|+..+
T Consensus       355 ~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~  434 (822)
T PRK14574        355 YSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPT  434 (822)
T ss_pred             hccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHH
Confidence            432     122333345566666666666666666666655211           122   1223344555566666666


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          214 AHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       214 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      |++.++++... -|-|......+...+...|.+.+|.+.++..
T Consensus       435 Ae~~le~l~~~-aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a  476 (822)
T PRK14574        435 AQKKLEDLSST-APANQNLRIALASIYLARDLPRKAEQELKAV  476 (822)
T ss_pred             HHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            66666666554 2445666666666666666666666666543

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

Probab=99.59  E-value=3.6e-12  Score=95.22  Aligned_cols=246  Identities=11%  Similarity=0.057  Sum_probs=184.7

Q ss_pred             ChhHHHHHHHHHHcCC--CccHHHHHHHHHHHhccCCHH-HHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHH
Q 044047            1 MDEASRLLDLMIQRGV--RPNAFVYSTLIDGFCLTGEID-RARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNL   77 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   77 (260)
                      +++|+.+|+++.+..+  -.|..+|..++-.--....+. .|..++    ..+ +--+.|...+.+.|+-.++.++|...
T Consensus       278 fD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~----~id-KyR~ETCCiIaNYYSlr~eHEKAv~Y  352 (559)
T KOG1155|consen  278 FDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVS----NID-KYRPETCCIIANYYSLRSEHEKAVMY  352 (559)
T ss_pred             HHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHH----Hhc-cCCccceeeehhHHHHHHhHHHHHHH
Confidence            5789999999998752  136778877764433222221 122222    112 34566777888888888999999999


Q ss_pred             HHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCC
Q 044047           78 YSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCE  157 (260)
Q Consensus        78 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  157 (260)
                      |++..+.+.. ....|+.+.+-|....+...|..-++...+.+ |.|-..|-.+.++|.-.+.+.-|+-.|++..... |
T Consensus       353 FkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-P  429 (559)
T KOG1155|consen  353 FKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-P  429 (559)
T ss_pred             HHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-C
Confidence            9998887554 57788888889999999999999999998886 7788889999999999999999999999888776 7


Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC----CC-CC-Chh
Q 044047          158 LGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK----GV-AP-NCV  231 (260)
Q Consensus       158 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~-~p-~~~  231 (260)
                      -|+..|.++..+|.+.++.++|.+.|......|- .+...+..|.+.|.+.++..+|...|.+.++.    |. .| ...
T Consensus       430 nDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~k  508 (559)
T KOG1155|consen  430 NDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIK  508 (559)
T ss_pred             CchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHH
Confidence            7889999999999999999999999999887753 35678889999999999999999888877652    22 22 122


Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHH
Q 044047          232 TFNTLMLGCIRNNETSKVVELLHR  255 (260)
Q Consensus       232 ~~~~l~~~~~~~~~~~~a~~~~~~  255 (260)
                      ...-|..-+.+.+++++|..+...
T Consensus       509 a~~fLA~~f~k~~~~~~As~Ya~~  532 (559)
T KOG1155|consen  509 ARLFLAEYFKKMKDFDEASYYATL  532 (559)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHH
Confidence            233355666777888777664443

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

Probab=99.59  E-value=4.3e-13  Score=104.01  Aligned_cols=203  Identities=13%  Similarity=0.065  Sum_probs=175.0

Q ss_pred             CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHH
Q 044047           17 RPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTL   96 (260)
Q Consensus        17 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   96 (260)
                      +.++.+|.++..+|.-+++.+.|++.|+...+.+ +....+|+.+..-++...++|.|...|+..+..... +-.+|.-+
T Consensus       418 ~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r-hYnAwYGl  495 (638)
T KOG1126|consen  418 PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR-HYNAWYGL  495 (638)
T ss_pred             CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch-hhHHHHhh
Confidence            5578999999999999999999999999998876 557889999999999999999999999998765322 34455567


Q ss_pred             HHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCH
Q 044047           97 FHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKL  176 (260)
Q Consensus        97 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  176 (260)
                      ...|.+.++.+.|+-.|+...+.+ |.+......+...+-+.|+.++|++++++..... +.++..-...+..+...++.
T Consensus       496 G~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld-~kn~l~~~~~~~il~~~~~~  573 (638)
T KOG1126|consen  496 GTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD-PKNPLCKYHRASILFSLGRY  573 (638)
T ss_pred             hhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC-CCCchhHHHHHHHHHhhcch
Confidence            788999999999999999999887 6778888889999999999999999999998776 55666656677788889999


Q ss_pred             HHHHHHHHhhhhCCCCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 044047          177 ETAWELFQSLPRVGLMP-NVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKG  225 (260)
Q Consensus       177 ~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  225 (260)
                      ++|+..++++++.  .| +...+..+.+.|.+.|+.+.|+.-|.-+.+..
T Consensus       574 ~eal~~LEeLk~~--vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  574 VEALQELEELKEL--VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             HHHHHHHHHHHHh--CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            9999999999986  34 46778889999999999999999999888753

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

Probab=99.56  E-value=3.4e-13  Score=107.74  Aligned_cols=220  Identities=19%  Similarity=0.289  Sum_probs=145.7

Q ss_pred             HHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044047            6 RLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKG   85 (260)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   85 (260)
                      +++-.+...|+.|+..||..+|.-||..|+.+.|- +|..|.-...+.+...|+.++.+....++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            45677888999999999999999999999999998 8888866554444444555444444444443332          


Q ss_pred             CCCCccchHHHHHHHhccccH--------------------------------------------------------HHH
Q 044047           86 IRPTVVTYNTLFHGLFEIHQV--------------------------------------------------------EHA  109 (260)
Q Consensus        86 ~~~~~~~~~~l~~~~~~~~~~--------------------------------------------------------~~a  109 (260)
                       .|...||..|+.+|...|+.                                                        +.+
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaql  158 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQL  158 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHH
Confidence             33444444454444444443                                                        222


Q ss_pred             HHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC
Q 044047          110 LKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  189 (260)
                      ++++..+...... .  .+...++-+....  ....++........-.|++.+|...+..-...|+.+.|..++.+|.+.
T Consensus       159 lkll~~~Pvsa~~-~--p~~vfLrqnv~~n--tpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~  233 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWN-A--PFQVFLRQNVVDN--TPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEK  233 (1088)
T ss_pred             HHHHhhCCccccc-c--hHHHHHHHhccCC--chHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHc
Confidence            2222222111100 0  0000122111111  112222222222222589999999999999999999999999999999


Q ss_pred             CCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCc
Q 044047          190 GLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNE  245 (260)
Q Consensus       190 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  245 (260)
                      |.+.+..-|..|+-+   .++..-+..+++.|.+.|+.|+..|+...+..+..+|.
T Consensus       234 gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  234 GFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             CCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            999888888888766   88889999999999999999999999888877777554

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.56  E-value=3.5e-11  Score=89.53  Aligned_cols=223  Identities=14%  Similarity=-0.000  Sum_probs=154.8

Q ss_pred             hHHHHHHHHHHcC-CCc--cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHH
Q 044047            3 EASRLLDLMIQRG-VRP--NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYS   79 (260)
Q Consensus         3 ~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   79 (260)
                      .++.-+.++.... ..|  .+..|..+...+...|+.++|...|++..+.. |.+...|+.+...+...|++++|...|+
T Consensus        44 ~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~  122 (296)
T PRK11189         44 VILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFD  122 (296)
T ss_pred             HHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            3555566666532 122  24568888888999999999999999998876 6678999999999999999999999999


Q ss_pred             HHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcC
Q 044047           80 EMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELG  159 (260)
Q Consensus        80 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  159 (260)
                      +..+.... +..++..+..++...|++++|.+.|+...+.. |.+. ........+...+++++|...+.+..... .++
T Consensus       123 ~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~-P~~~-~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~~  198 (296)
T PRK11189        123 SVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDD-PNDP-YRALWLYLAESKLDPKQAKENLKQRYEKL-DKE  198 (296)
T ss_pred             HHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCH-HHHHHHHHHHccCCHHHHHHHHHHHHhhC-Ccc
Confidence            99886433 46677888888899999999999999988765 3333 22222233456778999999997655332 222


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhhhh---CCC--CC-chhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhH
Q 044047          160 IEAYSCLIDGLCKIGKLETAWELFQSLPR---VGL--MP-NVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTF  233 (260)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~--~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  233 (260)
                      ...+ .  ......|+...+ ..+..+.+   ..+  .| ...+|..+...+...|++++|...|++..+.+ +|+..-+
T Consensus       199 ~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~~~~e~  273 (296)
T PRK11189        199 QWGW-N--IVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-VYNFVEH  273 (296)
T ss_pred             ccHH-H--HHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CchHHHH
Confidence            2211 2  223345555443 23433332   111  11 24578899999999999999999999999864 3455544


Q ss_pred             HH
Q 044047          234 NT  235 (260)
Q Consensus       234 ~~  235 (260)
                      ..
T Consensus       274 ~~  275 (296)
T PRK11189        274 RY  275 (296)
T ss_pred             HH
Confidence            44

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.55  E-value=9.5e-12  Score=96.84  Aligned_cols=239  Identities=18%  Similarity=0.140  Sum_probs=177.6

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhc-----CC-CCch-hhHHHHHHHHHhcCChHHHHHHHHHHHhc-----CC
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDIN-----GC-MHNV-VTYNTLINGYCKTKDVEESLNLYSEMLSK-----GI   86 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~   86 (260)
                      -..+...+...|...|+++.|..+++...+.     |. -|.. ...+.+...|...+++.+|..+|+++...     |.
T Consensus       198 ~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~  277 (508)
T KOG1840|consen  198 RLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGE  277 (508)
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCC
Confidence            3456677999999999999999999988654     21 1222 23345777899999999999999998753     22


Q ss_pred             C--CCccchHHHHHHHhccccHHHHHHHHHHHhhc-----CC-Ccc-hhhHHHHHHHHHhcCcHHHHHHHHHHhhhc---
Q 044047           87 R--PTVVTYNTLFHGLFEIHQVEHALKLFDEMQHS-----DV-AAE-TSTYNTFIDGLCKNGYIVEAAELFRTLRVL---  154 (260)
Q Consensus        87 ~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  154 (260)
                      .  .-..+++.|..+|.+.|++++|..+++...+.     +. .|. ...++.+...+...+++++|..+++...+.   
T Consensus       278 ~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~  357 (508)
T KOG1840|consen  278 DHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLD  357 (508)
T ss_pred             CCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHh
Confidence            2  12456778888999999999998888775321     11 122 335667788899999999999998865422   


Q ss_pred             CCCc----CHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC----C--C-CchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          155 KCEL----GIEAYSCLIDGLCKIGKLETAWELFQSLPRVG----L--M-PNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       155 ~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~--~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      .+.+    -..+++.+...|...|++++|.++++.+....    -  . -....++.+...|.+.+++.+|.++|.+...
T Consensus       358 ~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~  437 (508)
T KOG1840|consen  358 APGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKD  437 (508)
T ss_pred             hccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHH
Confidence            1111    24578999999999999999999999876431    1  1 1245678889999999999999999987643


Q ss_pred             C----CC--CCChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          224 K----GV--APNCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       224 ~----~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      .    |.  +-...+|..|...|...|+++.|.++.+.+.
T Consensus       438 i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  438 IMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            2    22  2235788999999999999999999988765

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

Probab=99.55  E-value=5.6e-12  Score=94.44  Aligned_cols=208  Identities=15%  Similarity=0.144  Sum_probs=161.4

Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHH
Q 044047           32 LTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALK  111 (260)
Q Consensus        32 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  111 (260)
                      ..|++++|.+.|.+....+..-....||.- -.+-..|+.++|+..|-++... +..+..+...+...|....+...|++
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfnig-lt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNIG-LTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHhc-ccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHH
Confidence            357888888888888766533333334433 3456778899999988887654 33366777778888888888999999


Q ss_pred             HHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCC
Q 044047          112 LFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGL  191 (260)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  191 (260)
                      ++.+.... +|.++...+.|...|-+.|+-..|++.+-+--.. ++-+..+...+...|....-++++...|++..-  +
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            88887665 5778889999999999999999998877554433 467888889999999999999999999988765  4


Q ss_pred             CCchhhHHHHHHHH-HhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCch
Q 044047          192 MPNVVTYNIMIHGF-CNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNET  246 (260)
Q Consensus       192 ~~~~~~~~~l~~~~-~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  246 (260)
                      +|+..-|..++..| .+.|++.+|.++++....+ ++.|......|++.+...|..
T Consensus       656 qp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl~  710 (840)
T KOG2003|consen  656 QPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGLK  710 (840)
T ss_pred             CccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccch
Confidence            78999998877655 4689999999999998776 777888888888888777653

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

Probab=99.55  E-value=4.9e-11  Score=81.49  Aligned_cols=206  Identities=15%  Similarity=0.039  Sum_probs=153.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHh
Q 044047           22 VYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLF  101 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  101 (260)
                      +...|.-.|.+.|+...|..-+++.++.+ |.+..+|..+...|.+.|+.+.|.+-|++..+.... +..+.|.....++
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHH
Confidence            45566777888888888888888888776 667778888888888888888888888888876544 6777888888888


Q ss_pred             ccccHHHHHHHHHHHhhc-CCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 044047          102 EIHQVEHALKLFDEMQHS-DVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAW  180 (260)
Q Consensus       102 ~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  180 (260)
                      ..|++++|...|++.... ...-...+|..+.-+..+.|+.+.|...|++..... +-.+...-.+.......|++..|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHH
Confidence            888888888888876543 222335577788888888888888888888877765 334455667777788888888888


Q ss_pred             HHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhH
Q 044047          181 ELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTF  233 (260)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  233 (260)
                      ..++.....+. ++..+....|+.-...|+.+.+.+.=..+...  .|...-+
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~  243 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEY  243 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHH
Confidence            88888777664 67777777777777888887777766666553  4444433

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

Probab=99.54  E-value=1.7e-10  Score=84.89  Aligned_cols=221  Identities=13%  Similarity=0.071  Sum_probs=165.8

Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHH
Q 044047           32 LTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALK  111 (260)
Q Consensus        32 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  111 (260)
                      -.|+|.+|+++.....+.+ +.....|..-..+--..||.+.+-.++.+..+....++....-...+.....|+.+.|..
T Consensus        96 ~eG~~~qAEkl~~rnae~~-e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHG-EQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            4799999999999987776 455667777788888999999999999999887556677777788888999999999999


Q ss_pred             HHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCc---------------------------------
Q 044047          112 LFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCEL---------------------------------  158 (260)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------------------------------  158 (260)
                      -.+++.+.+ +.++.......++|.+.|++.....++..+.+.+.--                                 
T Consensus       175 ~v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~  253 (400)
T COG3071         175 NVDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWK  253 (400)
T ss_pred             HHHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            999999887 6778899999999999999999999998886554322                                 


Q ss_pred             --------CHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCh
Q 044047          159 --------GIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNC  230 (260)
Q Consensus       159 --------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  230 (260)
                              ++..-..++.-+.++|+.++|.++..+..+.+..|+   . ...-.+.+.++.+.-++..++-.+. .+-++
T Consensus       254 ~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~---L-~~~~~~l~~~d~~~l~k~~e~~l~~-h~~~p  328 (400)
T COG3071         254 NQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR---L-CRLIPRLRPGDPEPLIKAAEKWLKQ-HPEDP  328 (400)
T ss_pred             hccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---H-HHHHhhcCCCCchHHHHHHHHHHHh-CCCCh
Confidence                    233334555556666666677666666666554433   1 1112234555555555555555544 33356


Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          231 VTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       231 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      ..+..|...|.+.+.|.+|.+.|+...+.
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~~  357 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAALKL  357 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHhc
Confidence            77889999999999999999999876543

>PF13041 PPR_2: PPR repeat family

Probab=99.53  E-value=4e-14  Score=75.38  Aligned_cols=50  Identities=40%  Similarity=0.889  Sum_probs=36.3

Q ss_pred             CchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 044047          193 PNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR  242 (260)
Q Consensus       193 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  242 (260)
                      ||..+|+.++.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++
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            56777777777777777777777777777777777777777777776653

>PF13041 PPR_2: PPR repeat family

Probab=99.53  E-value=3.7e-14  Score=75.54  Aligned_cols=49  Identities=43%  Similarity=0.841  Sum_probs=31.1

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHH
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYC   66 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   66 (260)
                      ||..+||+++.+|++.|++++|.++|++|.+.|++||..||+.++++|+
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            5566666666666666666666666666666666666666666666654

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

Probab=99.53  E-value=9.7e-12  Score=93.16  Aligned_cols=188  Identities=16%  Similarity=0.173  Sum_probs=149.5

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHH
Q 044047           66 CKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAA  145 (260)
Q Consensus        66 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  145 (260)
                      ...|++++|.+.|++.......-....|+ +.-.+...|+.++|+..|-++... +..+..+...+...|-...++..|+
T Consensus       501 f~ngd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqai  578 (840)
T KOG2003|consen  501 FANGDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAI  578 (840)
T ss_pred             eecCcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHH
Confidence            34688899999999888763332222333 333466789999999999887554 3456777888899999999999999


Q ss_pred             HHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 044047          146 ELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKG  225 (260)
Q Consensus       146 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  225 (260)
                      +++-..... ++.|+.+.+-+...|-+.|+-..|.+.+-+--+. .+-|..+...|...|....-+++++.+|++..-  
T Consensus       579 e~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--  654 (840)
T KOG2003|consen  579 ELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--  654 (840)
T ss_pred             HHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--
Confidence            999876654 4778999999999999999999999988765544 345788999999999999999999999998765  


Q ss_pred             CCCChhhHHHHHHHH-HhcCchhHHHHHHHHHhhc
Q 044047          226 VAPNCVTFNTLMLGC-IRNNETSKVVELLHRMDER  259 (260)
Q Consensus       226 ~~p~~~~~~~l~~~~-~~~~~~~~a~~~~~~m~~~  259 (260)
                      +.|+..-|..++..| .+.|++.+|.++++...++
T Consensus       655 iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  655 IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            689999999888555 5689999999999987653

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

Probab=99.53  E-value=3.8e-12  Score=91.30  Aligned_cols=217  Identities=14%  Similarity=0.035  Sum_probs=181.1

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      .+|.+-|+.-.+.  .|-+.||-.|-..|.+-.+++.|+.++.+-.+.- |-++.....+.+.+-..++.++|.++++..
T Consensus       240 r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~ARi~eam~~~~~a~~lYk~v  316 (478)
T KOG1129|consen  240 RRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQARIHEAMEQQEDALQLYKLV  316 (478)
T ss_pred             hhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHHHHHHHHhHHHHHHHHHHH
Confidence            3566666666655  5678889999999999999999999999877652 445555567778888899999999999999


Q ss_pred             HhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcC--
Q 044047           82 LSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELG--  159 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--  159 (260)
                      .+... .++.....+...|.-.++++.|+.+|+++.+.|+ .++..|+.+.-+|.-.++++-++..|.+....--.|+  
T Consensus       317 lk~~~-~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~a  394 (478)
T KOG1129|consen  317 LKLHP-INVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQA  394 (478)
T ss_pred             HhcCC-ccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchh
Confidence            88643 3677777888889999999999999999999994 5788999999999999999999999988775543344  


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          160 IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      ..+|..+.......|++..|.+.|+-....+.. +..+++.|.-.-.+.|++++|..+++.....
T Consensus       395 aDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  395 ADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             hhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            457888988899999999999999998876532 5788999998889999999999999988774

>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=99.52  E-value=1.7e-10  Score=90.80  Aligned_cols=253  Identities=16%  Similarity=0.104  Sum_probs=175.7

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhc-----CChHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKT-----KDVEESLN   76 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~   76 (260)
                      ++|++.++.-... +.............+.+.|+.++|..+|..+.+.+ |.+..-|..+..+..-.     .+.+...+
T Consensus        21 ~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~   98 (517)
T PF12569_consen   21 EEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQLSDEDVEKLLE   98 (517)
T ss_pred             HHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcccccccHHHHHH
Confidence            4677777654443 45566778888999999999999999999999987 45555555555555222     24566677


Q ss_pred             HHHHHHhcCCCC-------------------------------CccchHHHHHHHhccccHHHHHHHHHHHhhc----C-
Q 044047           77 LYSEMLSKGIRP-------------------------------TVVTYNTLFHGLFEIHQVEHALKLFDEMQHS----D-  120 (260)
Q Consensus        77 ~~~~~~~~~~~~-------------------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-  120 (260)
                      +++++...-+..                               -+.+|+.+-..|......+-...++......    + 
T Consensus        99 ~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~  178 (517)
T PF12569_consen   99 LYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGS  178 (517)
T ss_pred             HHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCC
Confidence            777765432110                               0123334444444444444444455444321    1 


Q ss_pred             ---------CCcch--hhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC
Q 044047          121 ---------VAAET--STYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       121 ---------~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  189 (260)
                               -+|+.  +++..+...|...|++++|+..++..+... |-.+..|..-.+.+-+.|++.+|.+.++..+..
T Consensus       179 ~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht-Pt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~L  257 (517)
T PF12569_consen  179 FSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT-PTLVELYMTKARILKHAGDLKEAAEAMDEAREL  257 (517)
T ss_pred             CCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhC
Confidence                     12333  355677888899999999999999988774 444778888899999999999999999999987


Q ss_pred             CCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhH--------HHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          190 GLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTF--------NTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       190 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~--------~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ... |...-+..+..+.+.|+.++|..++......+..|....+        .....+|.+.|++..|+..|..+.+
T Consensus       258 D~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  258 DLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             Chh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            654 6777778888899999999999999988876654432221        3456888899999999888876653

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 [], [].

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

Probab=99.52  E-value=1.1e-10  Score=93.84  Aligned_cols=252  Identities=16%  Similarity=0.158  Sum_probs=165.6

Q ss_pred             ChhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHH
Q 044047            1 MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSE   80 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   80 (260)
                      +++|.+++.+.++.. +.+...|..|...|-+.|+.+++...+-.+...+ |.|...|..+.....+.|+++.|.-+|.+
T Consensus       155 ~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~cy~r  232 (895)
T KOG2076|consen  155 LEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARYCYSR  232 (895)
T ss_pred             HHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            468999999999886 5578889999999999999999988876655544 66778999999999999999999999999


Q ss_pred             HHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcc------------------------------------
Q 044047           81 MLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAE------------------------------------  124 (260)
Q Consensus        81 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------------------------------------  124 (260)
                      .++..+. +...+-.-...|-+.|+...|...|.++.....+.+                                    
T Consensus       233 AI~~~p~-n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~  311 (895)
T KOG2076|consen  233 AIQANPS-NWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEK  311 (895)
T ss_pred             HHhcCCc-chHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhcc
Confidence            8886432 444444455667777777777777766655432111                                    


Q ss_pred             ----hhhHHHHHHHHHhcCcHHHHHHHHHHhhh-----------------------------------------------
Q 044047          125 ----TSTYNTFIDGLCKNGYIVEAAELFRTLRV-----------------------------------------------  153 (260)
Q Consensus       125 ----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----------------------------------------------  153 (260)
                          ...++.++..+.....++.+.........                                               
T Consensus       312 ~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~  391 (895)
T KOG2076|consen  312 DEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVHLK  391 (895)
T ss_pred             ccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhccc
Confidence                12233333333333334443333322211                                               


Q ss_pred             --------------cC--CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHH
Q 044047          154 --------------LK--CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDL  217 (260)
Q Consensus       154 --------------~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  217 (260)
                                    ..  +..++..|.-+..++...|++.+|..++..+......-+...|..+.++|...|..++|.+.
T Consensus       392 ~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~  471 (895)
T KOG2076|consen  392 ERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEF  471 (895)
T ss_pred             ccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHH
Confidence                          00  11123344556666777777777777777777654333456777777777777777777777


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          218 FLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       218 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      |...+.. -+.+...-..|...+.+.|++++|.+.+..+
T Consensus       472 y~kvl~~-~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~  509 (895)
T KOG2076|consen  472 YEKVLIL-APDNLDARITLASLYQQLGNHEKALETLEQI  509 (895)
T ss_pred             HHHHHhc-CCCchhhhhhHHHHHHhcCCHHHHHHHHhcc
Confidence            7777764 2333445556667777777777777777654

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

Probab=99.49  E-value=5.2e-11  Score=91.14  Aligned_cols=249  Identities=10%  Similarity=-0.012  Sum_probs=160.4

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEML   82 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   82 (260)
                      +..++.+.+.+.. |+....+..-|.++...|+..+-..+=.++.+.- |..+.+|-.+.-.|.-.|+..+|.+.|.+..
T Consensus       262 ~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~seARry~SKat  339 (611)
T KOG1173|consen  262 ECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYSEARRYFSKAT  339 (611)
T ss_pred             HHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcHHHHHHHHHHh
Confidence            4455556666553 5556666666667777777666666656665543 5667777777777777777788888777765


Q ss_pred             hcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHH
Q 044047           83 SKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEA  162 (260)
Q Consensus        83 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  162 (260)
                      ..... -...|..+...|+-.+..++|...+...-+.- +-...-+.-+.--|.+.++.+.|.+.|....... |.|+..
T Consensus       340 ~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~-P~Dplv  416 (611)
T KOG1173|consen  340 TLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAIA-PSDPLV  416 (611)
T ss_pred             hcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCcchh
Confidence            54222 24566677777777777777777666554321 1111122334445666777777777777666543 556666


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhC----C--CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHH
Q 044047          163 YSCLIDGLCKIGKLETAWELFQSLPRV----G--LMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTL  236 (260)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  236 (260)
                      .+-+.-.....+.+.+|..+|+.....    +  ...-..+++.|..+|.+.+.+++|+..+++.+.. .+-+..++.++
T Consensus       417 ~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l-~~k~~~~~asi  495 (611)
T KOG1173|consen  417 LHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLL-SPKDASTHASI  495 (611)
T ss_pred             hhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHc-CCCchhHHHHH
Confidence            777766666777777777777765521    0  0012345677777788888888888888877765 35577777777


Q ss_pred             HHHHHhcCchhHHHHHHHHHh
Q 044047          237 MLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       237 ~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      .-.|...|+++.|.+.|.+..
T Consensus       496 g~iy~llgnld~Aid~fhKaL  516 (611)
T KOG1173|consen  496 GYIYHLLGNLDKAIDHFHKAL  516 (611)
T ss_pred             HHHHHHhcChHHHHHHHHHHH
Confidence            777888888888887777643

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

Probab=99.48  E-value=1.6e-10  Score=79.08  Aligned_cols=198  Identities=12%  Similarity=0.033  Sum_probs=169.0

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHH
Q 044047           56 VTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGL  135 (260)
Q Consensus        56 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  135 (260)
                      .+...+.-.|...|+...|..-+++.++.... +..+|..+...|.+.|..+.|.+.|++..+.. |.+..+.|.....+
T Consensus        36 ~arlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FL  113 (250)
T COG3063          36 KARLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHH
Confidence            34567778899999999999999999998544 67788999999999999999999999999886 67888999999999


Q ss_pred             HhcCcHHHHHHHHHHhhhcC-CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHH
Q 044047          136 CKNGYIVEAAELFRTLRVLK-CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKA  214 (260)
Q Consensus       136 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  214 (260)
                      |..|++++|...|+...... ..--..+|.++.-+..+.|+.+.|...|++..+.... ...+.-.+.......|++-.|
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHH
Confidence            99999999999999987653 2234568899999999999999999999999886432 356777888999999999999


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          215 HDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       215 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      ..+++.....+. ++..+....|+.-...|+-+.+-++=..+.
T Consensus       193 r~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~  234 (250)
T COG3063         193 RLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQ  234 (250)
T ss_pred             HHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            999999888764 899998888898889999988877655443

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.48  E-value=1.3e-10  Score=86.46  Aligned_cols=218  Identities=12%  Similarity=-0.065  Sum_probs=157.7

Q ss_pred             cCCHHHHHHHHHHHhhcC-CCC--chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHH
Q 044047           33 TGEIDRARELFVSMDING-CMH--NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHA  109 (260)
Q Consensus        33 ~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  109 (260)
                      .+..+.++.-+.++.... ..|  ....|..+...+...|++++|...|++..+..+. +...|+.+...+...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHH
Confidence            456677888888877542 112  2456888888999999999999999999987543 678999999999999999999


Q ss_pred             HHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC
Q 044047          110 LKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  189 (260)
                      ...|++..+.. |.+..++..+..++...|++++|.+.++...... +.++. .......+...++.++|...+......
T Consensus       118 ~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~-P~~~~-~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        118 YEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD-PNDPY-RALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            99999998875 5567788889999999999999999999988764 33332 222223345577899999999765543


Q ss_pred             CCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC---CC--C-CChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          190 GLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK---GV--A-PNCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       190 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~--~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      . .|+.  |.. .......|+...+ ..+..+.+.   ..  . .....|..+...+.+.|++++|...|++..+.
T Consensus       195 ~-~~~~--~~~-~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~  265 (296)
T PRK11189        195 L-DKEQ--WGW-NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALAN  265 (296)
T ss_pred             C-Cccc--cHH-HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            2 2332  221 2223345665544 344554432   11  1 13457889999999999999999999988653

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

Probab=99.46  E-value=1.2e-10  Score=87.89  Aligned_cols=224  Identities=14%  Similarity=0.098  Sum_probs=168.0

Q ss_pred             HHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHH
Q 044047           29 GFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEH  108 (260)
Q Consensus        29 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  108 (260)
                      .+.-.|+.-.|..-|+...... +.+...|..+...|....+.++....|.+..+.+.. ++.+|..-.+.+.-.+++++
T Consensus       335 F~fL~g~~~~a~~d~~~~I~l~-~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~  412 (606)
T KOG0547|consen  335 FHFLKGDSLGAQEDFDAAIKLD-PAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEE  412 (606)
T ss_pred             hhhhcCCchhhhhhHHHHHhcC-cccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHH
Confidence            3445688888888888887765 333444888888888999999999999988887655 77888888888888889999


Q ss_pred             HHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhh
Q 044047          109 ALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPR  188 (260)
Q Consensus       109 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (260)
                      |..=|++.+... |.+...|-.+.-+..+.+.++++...|++.+.. +|-.+..|+.....+...++++.|.+.|+....
T Consensus       413 A~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  413 AIADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            999999888765 555666666666677888899999999988765 466788899999999999999999999988876


Q ss_pred             CCCC-----CchhhH-HHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          189 VGLM-----PNVVTY-NIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       189 ~~~~-----~~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      ....     .+...+ +.-+-.+.-.+++..|..++++..+.. +-....|..|...-.+.|+.++|+++|++-.
T Consensus       491 LE~~~~~~~v~~~plV~Ka~l~~qwk~d~~~a~~Ll~KA~e~D-pkce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  491 LEPREHLIIVNAAPLVHKALLVLQWKEDINQAENLLRKAIELD-PKCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             hccccccccccchhhhhhhHhhhchhhhHHHHHHHHHHHHccC-chHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            5211     111111 111112224588899999999888853 2245678888888899999999999988743

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

Probab=99.42  E-value=2.3e-10  Score=86.39  Aligned_cols=215  Identities=15%  Similarity=0.133  Sum_probs=172.2

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEML   82 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   82 (260)
                      .|.+.|+..+..... +...|-.+...|....+.++....|+...+.+ |.++.+|..-.+.+.-.+++++|..=|++.+
T Consensus       344 ~a~~d~~~~I~l~~~-~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai  421 (606)
T KOG0547|consen  344 GAQEDFDAAIKLDPA-FNSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAI  421 (606)
T ss_pred             hhhhhHHHHHhcCcc-cchHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHh
Confidence            356667777776533 33338888899999999999999999999887 7789999999999999999999999999998


Q ss_pred             hcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCC-----
Q 044047           83 SKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCE-----  157 (260)
Q Consensus        83 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----  157 (260)
                      +..+. +...|.-+.-+..+.++++++...|++.++. .|..+..|+.....+...++++.|.+.|+..+.....     
T Consensus       422 ~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~  499 (606)
T KOG0547|consen  422 SLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLII  499 (606)
T ss_pred             hcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhcccccccc
Confidence            86433 5666666777777899999999999999887 5788899999999999999999999999988765311     


Q ss_pred             --cCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          158 --LGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       158 --~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                        +.+.+.-.++..- -.+++..|..++++..+...+ ....|..|...-.+.|+.++|+++|++...
T Consensus       500 v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  500 VNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             ccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence              1122222222222 238999999999999987543 457899999999999999999999998764

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

Probab=99.39  E-value=3.1e-09  Score=85.80  Aligned_cols=236  Identities=15%  Similarity=0.134  Sum_probs=169.9

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHG   99 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   99 (260)
                      ....-.....+...|++++|.+++.+..+.. |.+...|.+|...|-..|+.+++...+-........ |...|..+...
T Consensus       139 l~~ll~eAN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~-d~e~W~~ladl  216 (895)
T KOG2076|consen  139 LRQLLGEANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPK-DYELWKRLADL  216 (895)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCC-ChHHHHHHHHH
Confidence            3444444445555699999999999999887 778999999999999999999999888666555433 67889999999


Q ss_pred             HhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCH-------------------
Q 044047          100 LFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGI-------------------  160 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------------------  160 (260)
                      ..+.|.+++|.-+|.+.++.. |++...+---+..|.+.|+...|...|.++.....+.+.                   
T Consensus       217 s~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~  295 (895)
T KOG2076|consen  217 SEQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNE  295 (895)
T ss_pred             HHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhH
Confidence            999999999999999999987 677777777788888899988888888877654321111                   


Q ss_pred             ---------------------HHHHHHHHHHHhcCCHHHHHHHHHhhhhC------------------------------
Q 044047          161 ---------------------EAYSCLIDGLCKIGKLETAWELFQSLPRV------------------------------  189 (260)
Q Consensus       161 ---------------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------------------------------  189 (260)
                                           ..++.++..+.+...++.+..........                              
T Consensus       296 ~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s  375 (895)
T KOG2076|consen  296 RERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELS  375 (895)
T ss_pred             HHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCC
Confidence                                 12233333333334444443333333220                              


Q ss_pred             -------------------------------CC--CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHH
Q 044047          190 -------------------------------GL--MPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTL  236 (260)
Q Consensus       190 -------------------------------~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  236 (260)
                                                     ..  .-+...|..+..++.+.|++.+|+.+|..+......-+..+|..+
T Consensus       376 ~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~  455 (895)
T KOG2076|consen  376 YDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKL  455 (895)
T ss_pred             ccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHH
Confidence                                           00  001233556667788888888888888888876444457788888


Q ss_pred             HHHHHhcCchhHHHHHHHHHhh
Q 044047          237 MLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       237 ~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ..+|...|..++|.+.++....
T Consensus       456 a~c~~~l~e~e~A~e~y~kvl~  477 (895)
T KOG2076|consen  456 ARCYMELGEYEEAIEFYEKVLI  477 (895)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHh
Confidence            8888888999998888887754

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.38  E-value=4.6e-10  Score=87.64  Aligned_cols=222  Identities=20%  Similarity=0.180  Sum_probs=161.2

Q ss_pred             ChhHHHHHHHHHHc-----C-CCccH-HHHHHHHHHHhccCCHHHHHHHHHHHhhc-----C--CCCchhhHHHHHHHHH
Q 044047            1 MDEASRLLDLMIQR-----G-VRPNA-FVYSTLIDGFCLTGEIDRARELFVSMDIN-----G--CMHNVVTYNTLINGYC   66 (260)
Q Consensus         1 ~~~a~~~~~~~~~~-----~-~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~   66 (260)
                      ++.|..+++...+.     | ..|.. ...+.+...|...+++++|..+|+++...     |  -+.-..+++.|...|.
T Consensus       215 ~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~  294 (508)
T KOG1840|consen  215 LEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYY  294 (508)
T ss_pred             HHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHh
Confidence            35667776665553     2 12333 34455888899999999999999998542     2  1223456788888999


Q ss_pred             hcCChHHHHHHHHHHHhc-----CCC-CC-ccchHHHHHHHhccccHHHHHHHHHHHhhc-----C--CCcchhhHHHHH
Q 044047           67 KTKDVEESLNLYSEMLSK-----GIR-PT-VVTYNTLFHGLFEIHQVEHALKLFDEMQHS-----D--VAAETSTYNTFI  132 (260)
Q Consensus        67 ~~~~~~~a~~~~~~~~~~-----~~~-~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~  132 (260)
                      +.|++++|...+++..+.     |.. |. ...++.+...+...+++++|..+++...+.     |  .+.-..+++.+.
T Consensus       295 ~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~  374 (508)
T KOG1840|consen  295 KQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLA  374 (508)
T ss_pred             ccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHH
Confidence            999999998888876542     111 11 223456667788899999999998876432     1  112346889999


Q ss_pred             HHHHhcCcHHHHHHHHHHhhhcC-------CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhh----CCCC-Cc-hhhHH
Q 044047          133 DGLCKNGYIVEAAELFRTLRVLK-------CELGIEAYSCLIDGLCKIGKLETAWELFQSLPR----VGLM-PN-VVTYN  199 (260)
Q Consensus       133 ~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~-~~-~~~~~  199 (260)
                      ..|...|++++|.+++++++...       ..-....++.+...|.+.++.++|.++|.+...    .|.. |+ ..+|.
T Consensus       375 ~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~  454 (508)
T KOG1840|consen  375 ELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYL  454 (508)
T ss_pred             HHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHH
Confidence            99999999999999999876432       122345678889999999999999999877543    2322 23 47899


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHH
Q 044047          200 IMIHGFCNDGQMDKAHDLFLDME  222 (260)
Q Consensus       200 ~l~~~~~~~g~~~~a~~~~~~~~  222 (260)
                      .|...|...|++++|.++.+...
T Consensus       455 nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  455 NLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHH
Confidence            99999999999999999998876

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

Probab=99.38  E-value=2.1e-09  Score=84.25  Aligned_cols=246  Identities=16%  Similarity=0.105  Sum_probs=125.6

Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047            4 ASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLS   83 (260)
Q Consensus         4 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   83 (260)
                      |+.++.+..+.+ +.+...|-.-+..-....+++.|..+|.+....  .|+...|..-+..---.++.++|++++++..+
T Consensus       603 ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk  679 (913)
T KOG0495|consen  603 ARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALK  679 (913)
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHH
Confidence            444455444443 224455555555555555555555555554443  34555555444444445555555555555554


Q ss_pred             cCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHH
Q 044047           84 KGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAY  163 (260)
Q Consensus        84 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  163 (260)
                      . .+.-...|-.+.+.+-+.++.+.|...|..=.+. +|.....|..+...--+.|.+-.|..+++.....+ +.+...|
T Consensus       680 ~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lw  756 (913)
T KOG0495|consen  680 S-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLW  756 (913)
T ss_pred             h-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhH
Confidence            3 1112334444455555555555555555443332 23344455555555555566666666666655544 5556666


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhhhC----C-------------------------CCCchhhHHHHHHHHHhcCChHHH
Q 044047          164 SCLIDGLCKIGKLETAWELFQSLPRV----G-------------------------LMPNVVTYNIMIHGFCNDGQMDKA  214 (260)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~-------------------------~~~~~~~~~~l~~~~~~~g~~~~a  214 (260)
                      -..|++-.+.|+.+.|..++.+..+.    |                         ..-|+.....+...+....++++|
T Consensus       757 le~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~ka  836 (913)
T KOG0495|consen  757 LESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKA  836 (913)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHH
Confidence            66666666666666666555444322    0                         111233334444444455555666


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          215 HDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       215 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      .+.|.+.++.+ +.+..+|..+...+.+.|.-++-.+++++.
T Consensus       837 r~Wf~Ravk~d-~d~GD~wa~fykfel~hG~eed~kev~~~c  877 (913)
T KOG0495|consen  837 REWFERAVKKD-PDNGDAWAWFYKFELRHGTEEDQKEVLKKC  877 (913)
T ss_pred             HHHHHHHHccC-CccchHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            66666655542 223445555555555566555555555443

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

Probab=99.37  E-value=4.5e-09  Score=85.65  Aligned_cols=251  Identities=14%  Similarity=0.079  Sum_probs=156.8

Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCC--CCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            4 ASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGC--MHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         4 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      +..++...-..+ +.+|...+.|..-+.-.|+++.+..+...+.....  +.-...|-.+.++|...|++++|...|.+.
T Consensus       255 ~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s  333 (1018)
T KOG2002|consen  255 GVQLLQRAYKEN-NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMES  333 (1018)
T ss_pred             HHHHHHHHHhhc-CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHH
Confidence            444444444433 34677777788888888888888888877765431  123445777888888888888888888777


Q ss_pred             HhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcC----cHHHHHHHHHHhhhcCCC
Q 044047           82 LSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNG----YIVEAAELFRTLRVLKCE  157 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~  157 (260)
                      .+.........+.-+.+.+.+.|+.+.+...|+...+.. |.+..+...+...|...+    ..+.|..++.+..... +
T Consensus       334 ~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~  411 (1018)
T KOG2002|consen  334 LKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-P  411 (1018)
T ss_pred             HccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-c
Confidence            665322223344557778888888888888888887764 566667777777776664    4455666666655543 5


Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHhh----hhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC---CCCCCh
Q 044047          158 LGIEAYSCLIDGLCKIGKLETAWELFQSL----PRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK---GVAPNC  230 (260)
Q Consensus       158 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~p~~  230 (260)
                      .|...|-.+...+....-+.. +.++..+    ...+..+.+...|.+...+...|++++|...|......   ...++.
T Consensus       412 ~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de  490 (1018)
T KOG2002|consen  412 VDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDE  490 (1018)
T ss_pred             ccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccc
Confidence            566666666666554433332 5554433    23343455667777777777777777777777776544   112222


Q ss_pred             ------hhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          231 ------VTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       231 ------~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                            .+-..+..+.-..++++.|.+.++.+.+
T Consensus       491 ~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilk  524 (1018)
T KOG2002|consen  491 GKSTNLTLKYNLARLLEELHDTEVAEEMYKSILK  524 (1018)
T ss_pred             cccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence                  1223344555556677777777666654

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

Probab=99.36  E-value=4.8e-10  Score=86.03  Aligned_cols=226  Identities=13%  Similarity=0.083  Sum_probs=181.1

Q ss_pred             HHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC
Q 044047           10 LMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT   89 (260)
Q Consensus        10 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   89 (260)
                      .|.+. .|..+.+|-++.--|..-|+..+|.+.|.+....+ +.=...|-.....++-.|.-+.|+..+...-+. ++-.
T Consensus       303 ~LV~~-yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~  379 (611)
T KOG1173|consen  303 KLVDL-YPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGC  379 (611)
T ss_pred             HHHHh-CCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCC
Confidence            34444 36678899999999999999999999999987665 444678999999999999999999999887664 1112


Q ss_pred             ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC------CCcCHHHH
Q 044047           90 VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK------CELGIEAY  163 (260)
Q Consensus        90 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~  163 (260)
                      ...+--+..-|.+.+..+.|.+.|.+..... |.|+...+-+.-.....+.+.+|..+|+.....-      ...-..++
T Consensus       380 hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~  458 (611)
T KOG1173|consen  380 HLPSLYLGMEYMRTNNLKLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTL  458 (611)
T ss_pred             cchHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHH
Confidence            2233345556888999999999999988775 7788888888888888999999999998876211      11244568


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 044047          164 SCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR  242 (260)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  242 (260)
                      +.+..+|.+.+.+++|+..++....... -+..++..+.-.|...|+++.|.+.|.+.+.  +.|+..+...++..+..
T Consensus       459 ~NLGH~~Rkl~~~~eAI~~~q~aL~l~~-k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  459 NNLGHAYRKLNKYEEAIDYYQKALLLSP-KDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLAIE  534 (611)
T ss_pred             HhHHHHHHHHhhHHHHHHHHHHHHHcCC-CchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHHHH
Confidence            9999999999999999999999888743 4788999999999999999999999999887  57888777777765544

>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=99.35  E-value=1.1e-08  Score=80.94  Aligned_cols=225  Identities=15%  Similarity=0.102  Sum_probs=156.1

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcc--
Q 044047           26 LIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEI--  103 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--  103 (260)
                      ....+...|++++|++.++.-... +.............+.+.|+.++|..++..+.+.++. +..-|..+..+....  
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPd-n~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPD-NYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHhhhcc
Confidence            456678899999999999875544 3444566677889999999999999999999998543 444444444444111  


Q ss_pred             ---ccHHHHHHHHHHH----------------------------------hhcCCCcchhhHHHHHHHHHhcCcHHHHHH
Q 044047          104 ---HQVEHALKLFDEM----------------------------------QHSDVAAETSTYNTFIDGLCKNGYIVEAAE  146 (260)
Q Consensus       104 ---~~~~~a~~~~~~~----------------------------------~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  146 (260)
                         ...+....+|+++                                  ...|+|   .+|+.+-..|.......-...
T Consensus        88 ~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~  164 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIES  164 (517)
T ss_pred             cccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHH
Confidence               1344444555444                                  333433   255555555554444444445


Q ss_pred             HHHHhhhc--------------CCCcCHH--HHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc-hhhHHHHHHHHHhcC
Q 044047          147 LFRTLRVL--------------KCELGIE--AYSCLIDGLCKIGKLETAWELFQSLPRVGLMPN-VVTYNIMIHGFCNDG  209 (260)
Q Consensus       147 ~~~~~~~~--------------~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g  209 (260)
                      ++......              .-+|+..  ++.-+...|-..|++++|+++++...+..  |+ +..|..-.+.+-..|
T Consensus       165 l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht--Pt~~ely~~KarilKh~G  242 (517)
T PF12569_consen  165 LVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT--PTLVELYMTKARILKHAG  242 (517)
T ss_pred             HHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHCC
Confidence            55444321              1134443  44566788889999999999999998864  44 678888889999999


Q ss_pred             ChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          210 QMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       210 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ++.+|.+.++........ |...-+..+..+.+.|++++|.+++.....
T Consensus       243 ~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr  290 (517)
T PF12569_consen  243 DLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTR  290 (517)
T ss_pred             CHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcC
Confidence            999999999999886432 556666777888999999999998876644

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

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

Probab=99.32  E-value=9.5e-09  Score=76.47  Aligned_cols=236  Identities=17%  Similarity=0.126  Sum_probs=132.7

Q ss_pred             CCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHH
Q 044047           16 VRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNT   95 (260)
Q Consensus        16 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   95 (260)
                      ++-|+.....+..++...|+.++|...|++....+ +-+..........+...|+.+....+...+.... +.+...|..
T Consensus       228 lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d-py~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV  305 (564)
T KOG1174|consen  228 LRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN-PDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFV  305 (564)
T ss_pred             CCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC-hhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhh
Confidence            45677777888888888888888888887776543 2222222222333344444444444444443321 011222222


Q ss_pred             HHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCC
Q 044047           96 LFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGK  175 (260)
Q Consensus        96 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  175 (260)
                      -+.......+++.|+.+-++.++.+ +.+...+-.-...+...+++++|.-.|+...... |-+...|.-++.+|...|.
T Consensus       306 ~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~  383 (564)
T KOG1174|consen  306 HAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKR  383 (564)
T ss_pred             hhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhch
Confidence            2222223334444444444443332 2233333333344444444444444444444332 2334444444444444444


Q ss_pred             HH------------------------------------HHHHHHHhhhhCCCCCc-hhhHHHHHHHHHhcCChHHHHHHH
Q 044047          176 LE------------------------------------TAWELFQSLPRVGLMPN-VVTYNIMIHGFCNDGQMDKAHDLF  218 (260)
Q Consensus       176 ~~------------------------------------~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~  218 (260)
                      +.                                    +|.++++....  +.|+ ....+.+...+...|..+.+..++
T Consensus       384 ~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LL  461 (564)
T KOG1174|consen  384 FKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INPIYTPAVNLIAELCQVEGPTKDIIKLL  461 (564)
T ss_pred             HHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCCccHHHHHHHHHHHHhhCccchHHHHH
Confidence            44                                    44444444433  2344 345667777888899999999999


Q ss_pred             HHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          219 LDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       219 ~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      ++.+..  .||....+.|.+.+...+.+++|.+.|......
T Consensus       462 e~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  462 EKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQ  500 (564)
T ss_pred             HHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            998874  789999999999999999999999988876543

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

Probab=99.31  E-value=1.3e-09  Score=88.71  Aligned_cols=229  Identities=12%  Similarity=0.059  Sum_probs=161.6

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccc
Q 044047           25 TLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIH  104 (260)
Q Consensus        25 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  104 (260)
                      .+..++-..++++.|.+.|..+.+.. |.=...|..++.+....+...+|...+....... ..++..+..+...+....
T Consensus       501 Nlarl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~  578 (1018)
T KOG2002|consen  501 NLARLLEELHDTEVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKS  578 (1018)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhh
Confidence            36666677788899999998887764 3344555555544445577888888888887653 336666777777777777


Q ss_pred             cHHHHHHHHHHHhhc-CCCcchhhHHHHHHHHHh------------cCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHH
Q 044047          105 QVEHALKLFDEMQHS-DVAAETSTYNTFIDGLCK------------NGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLC  171 (260)
Q Consensus       105 ~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  171 (260)
                      .+..|.+-|....+. ...+|+.+...|.+.|..            .+..++|+++|.++.... |.|...-+-+.-.++
T Consensus       579 ~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA  657 (1018)
T KOG2002|consen  579 EWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLA  657 (1018)
T ss_pred             hhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhh
Confidence            777777766655432 122455555555554432            344677888888777665 556666677778888


Q ss_pred             hcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCCChhhHHHHHHHHHhcCchhHHH
Q 044047          172 KIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK-GVAPNCVTFNTLMLGCIRNNETSKVV  250 (260)
Q Consensus       172 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~  250 (260)
                      ..|++..|..+|.+..+... -+..+|-.+..+|...|++..|.++|+...+. ...-+..+...|.+++.+.|.+.+|.
T Consensus       658 ~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak  736 (1018)
T KOG2002|consen  658 EKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAK  736 (1018)
T ss_pred             hccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHH
Confidence            88888888888888887643 24567888888888888888888888877654 33446777888888888888888888


Q ss_pred             HHHHHHh
Q 044047          251 ELLHRMD  257 (260)
Q Consensus       251 ~~~~~m~  257 (260)
                      +.+....
T Consensus       737 ~~ll~a~  743 (1018)
T KOG2002|consen  737 EALLKAR  743 (1018)
T ss_pred             HHHHHHH
Confidence            7766544

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

Probab=99.31  E-value=1.8e-08  Score=79.20  Aligned_cols=246  Identities=14%  Similarity=0.065  Sum_probs=144.5

Q ss_pred             HHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044047            6 RLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKG   85 (260)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   85 (260)
                      .+|++.... .+-....|-.....+...|++..|..++....+.+ +.+...|-..+..-.....++.|..+|.+.... 
T Consensus       571 Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~-  647 (913)
T KOG0495|consen  571 ALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI-  647 (913)
T ss_pred             HHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc-
Confidence            344444443 23344445555555555666666666666665554 445566666666666666666666666665553 


Q ss_pred             CCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHH
Q 044047           86 IRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSC  165 (260)
Q Consensus        86 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  165 (260)
                       .|+...|.--+..-.-.+..++|.+++++..+. .+.-...|..+.+.+-+.++.+.|...|..-.+. ++-.+..|-.
T Consensus       648 -sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWll  724 (913)
T KOG0495|consen  648 -SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLL  724 (913)
T ss_pred             -CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHH
Confidence             345555555555555556666666666666554 2334455566666666666666666666544332 3445556666


Q ss_pred             HHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC----C----------------
Q 044047          166 LIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK----G----------------  225 (260)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~----------------  225 (260)
                      +...--+.|.+-+|..+++...-.+.. +...|-..|+.-.+.|+.+.|..+..+.++.    |                
T Consensus       725 LakleEk~~~~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rk  803 (913)
T KOG0495|consen  725 LAKLEEKDGQLVRARSILDRARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRK  803 (913)
T ss_pred             HHHHHHHhcchhhHHHHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccc
Confidence            666666677777777777776655432 5666777777777777777777666655432    1                


Q ss_pred             ---------CCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          226 ---------VAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       226 ---------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                               ..-|+.+...+...+....++++|++.|.+...
T Consensus       804 Tks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk  845 (913)
T KOG0495|consen  804 TKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVK  845 (913)
T ss_pred             hHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence                     122444455555566666666666666666544

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

Probab=99.30  E-value=2.6e-08  Score=76.67  Aligned_cols=254  Identities=9%  Similarity=0.011  Sum_probs=126.4

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHH---HHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYST---LIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLY   78 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   78 (260)
                      ++|.+++++..+.. |.+...+..   ........+..+.+.+.+.... ...+........+...+...|++++|...+
T Consensus        60 ~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  137 (355)
T cd05804          60 PKALALLEQLLDDY-PRDLLALKLHLGAFGLGDFSGMRDHVARVLPLWA-PENPDYWYLLGMLAFGLEEAGQYDRAEEAA  137 (355)
T ss_pred             HHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhcccccCchhHHHHHhccC-cCCCCcHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            45566666665543 223333331   1111122344444444444311 111222333445556667777777777777


Q ss_pred             HHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCC-cch--hhHHHHHHHHHhcCcHHHHHHHHHHhhhcC
Q 044047           79 SEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA-AET--STYNTFIDGLCKNGYIVEAAELFRTLRVLK  155 (260)
Q Consensus        79 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  155 (260)
                      ++..+.... +...+..+...+...|++++|..++++....... ++.  ..+..+...+...|++++|..++++.....
T Consensus       138 ~~al~~~p~-~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~  216 (355)
T cd05804         138 RRALELNPD-DAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPS  216 (355)
T ss_pred             HHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccc
Confidence            777775432 4556666777777777777777777776554311 221  234456667777777777777777764332


Q ss_pred             C-CcCHHHH-H--HHHHHHHhcCCHHHHHHH--H-HhhhhCCC-CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 044047          156 C-ELGIEAY-S--CLIDGLCKIGKLETAWEL--F-QSLPRVGL-MPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVA  227 (260)
Q Consensus       156 ~-~~~~~~~-~--~l~~~~~~~~~~~~a~~~--~-~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  227 (260)
                      . .+..... +  .++..+...|....+.+.  + ........ ............++...|+.+.|..++..+......
T Consensus       217 ~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~  296 (355)
T cd05804         217 AESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASS  296 (355)
T ss_pred             cCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhc
Confidence            1 1111111 1  223333333433322222  1 11111100 011111224555666778888888888777653211


Q ss_pred             ------C--ChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          228 ------P--NCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       228 ------p--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                            .  ..........++...|++++|.+.+.+..+
T Consensus       297 ~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~  335 (355)
T cd05804         297 ADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRD  335 (355)
T ss_pred             cCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                  0  111122223445577888888887776553

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

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

Probab=99.28  E-value=4.7e-10  Score=82.55  Aligned_cols=225  Identities=14%  Similarity=0.103  Sum_probs=150.8

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CccchHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRP-TVVTYNTLF   97 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~   97 (260)
                      +......+.+++...|+++.++   .++.... +|.......+...+...++-+.++.-+++....+..+ +........
T Consensus        34 ~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A  109 (290)
T PF04733_consen   34 KLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAA  109 (290)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHH
Confidence            3445566788888888877544   3443333 6777777666666655456666666665554443332 223333344


Q ss_pred             HHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHH----hc
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLC----KI  173 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~  173 (260)
                      ..+...|++++|++++...      .+.......+.+|.+.++++.|.+.++.|.+..  .|. +...+..++.    ..
T Consensus       110 ~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD~-~l~qLa~awv~l~~g~  180 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--EDS-ILTQLAEAWVNLATGG  180 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CCH-HHHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcH-HHHHHHHHHHHHHhCc
Confidence            5677789999998887652      345667778899999999999999999998653  333 3344444443    33


Q ss_pred             CCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCch-hHHHHH
Q 044047          174 GKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNET-SKVVEL  252 (260)
Q Consensus       174 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~-~~a~~~  252 (260)
                      ..+.+|..+|+++.+. ..+++.+.+.+..+....|++++|.+++.+..+.+ +-++.+...++.+....|+. +.+.++
T Consensus       181 e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~  258 (290)
T PF04733_consen  181 EKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERY  258 (290)
T ss_dssp             TCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             hhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHH
Confidence            4689999999998765 45678888899999999999999999999987753 44677888888888888888 556677


Q ss_pred             HHHHhh
Q 044047          253 LHRMDE  258 (260)
Q Consensus       253 ~~~m~~  258 (260)
                      +.++.+
T Consensus       259 l~qL~~  264 (290)
T PF04733_consen  259 LSQLKQ  264 (290)
T ss_dssp             HHHCHH
T ss_pred             HHHHHH
Confidence            777653

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.

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

Probab=99.28  E-value=1.1e-09  Score=84.38  Aligned_cols=221  Identities=13%  Similarity=0.119  Sum_probs=172.3

Q ss_pred             HHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccH
Q 044047           27 IDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQV  106 (260)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  106 (260)
                      ..-+.+.|++.+|.-.|+...+.+ |-+...|..|.......++-..|+..+.+..+.... +....-.|.-.|...|.-
T Consensus       292 G~~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q  369 (579)
T KOG1125|consen  292 GCNLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQ  369 (579)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhH
Confidence            445678899999999999998887 778899999999999999999999999999887444 667777888889999999


Q ss_pred             HHHHHHHHHHhhcCCCcchhhHHHHH-----------HHHHhcCcHHHHHHHHHHh-hhcCCCcCHHHHHHHHHHHHhcC
Q 044047          107 EHALKLFDEMQHSDVAAETSTYNTFI-----------DGLCKNGYIVEAAELFRTL-RVLKCELGIEAYSCLIDGLCKIG  174 (260)
Q Consensus       107 ~~a~~~~~~~~~~~~~~~~~~~~~l~-----------~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~  174 (260)
                      ..|+..++.-+.... +-    ..+.           ..+.....+....++|-++ ...+..+|+.+...|.-.|-..|
T Consensus       370 ~~Al~~L~~Wi~~~p-~y----~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~  444 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKP-KY----VHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSG  444 (579)
T ss_pred             HHHHHHHHHHHHhCc-cc----hhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcch
Confidence            999999988765431 10    0000           1122222334444555444 34444488889999999999999


Q ss_pred             CHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHhcCchhHHHHHH
Q 044047          175 KLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPN-CVTFNTLMLGCIRNNETSKVVELL  253 (260)
Q Consensus       175 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~  253 (260)
                      ++++|...|+.+....+ -|...||.|...++...+.++|+..|++.++.  .|+ +++...|..+|...|.+++|.+.|
T Consensus       445 efdraiDcf~~AL~v~P-nd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hl  521 (579)
T KOG1125|consen  445 EFDRAVDCFEAALQVKP-NDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHL  521 (579)
T ss_pred             HHHHHHHHHHHHHhcCC-chHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHH
Confidence            99999999999988642 25789999999999999999999999999984  666 567778889999999999999887


Q ss_pred             HHHh
Q 044047          254 HRMD  257 (260)
Q Consensus       254 ~~m~  257 (260)
                      -+.+
T Consensus       522 L~AL  525 (579)
T KOG1125|consen  522 LEAL  525 (579)
T ss_pred             HHHH
Confidence            6654

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

Probab=99.27  E-value=1.4e-10  Score=93.23  Aligned_cols=202  Identities=21%  Similarity=0.279  Sum_probs=144.1

Q ss_pred             HHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcC
Q 044047           41 ELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD  120 (260)
Q Consensus        41 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  120 (260)
                      .++-.+...|+.|+..||..+|..|+..|+.+.|- +|.-|.-.....+...|+.++.+....++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            45667788899999999999999999999999998 9998888777778899999999988888887765          


Q ss_pred             CCcchhhHHHHHHHHHhcCcHHHHHHHHHHhh-------hcCC-----------------CcCHHHHHHHHHHHHhcCCH
Q 044047          121 VAAETSTYNTFIDGLCKNGYIVEAAELFRTLR-------VLKC-----------------ELGIEAYSCLIDGLCKIGKL  176 (260)
Q Consensus       121 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-------~~~~-----------------~~~~~~~~~l~~~~~~~~~~  176 (260)
                       .|...+|..+..+|...||...-..+-+.+.       ..|+                 -||..   +.+......|-+
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 -EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAILLLVLEGLW  155 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---HHHHHHHHHHHH
Confidence             5778899999999999998765222222121       1111                 11211   122222223333


Q ss_pred             HHHHHHHHhh------------------------------hhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 044047          177 ETAWELFQSL------------------------------PRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGV  226 (260)
Q Consensus       177 ~~a~~~~~~~------------------------------~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  226 (260)
                      +.+.+++..+                              ....-.|+..+|..++.+-...|+.+.|..++.+|.+.|+
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            3333333211                              1111147888888888888888999999999999998888


Q ss_pred             CCChhhHHHHHHHHHhcCchhHHHHHHHHHhhcC
Q 044047          227 APNCVTFNTLMLGCIRNNETSKVVELLHRMDERN  260 (260)
Q Consensus       227 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  260 (260)
                      +.+..-|..|+-+   .++...+..+++-|.+.|
T Consensus       236 pir~HyFwpLl~g---~~~~q~~e~vlrgmqe~g  266 (1088)
T KOG4318|consen  236 PIRAHYFWPLLLG---INAAQVFEFVLRGMQEKG  266 (1088)
T ss_pred             Ccccccchhhhhc---CccchHHHHHHHHHHHhc
Confidence            8888888877755   777777777787777654

>PLN02789 farnesyltranstransferase

Probab=99.27  E-value=4.4e-08  Score=73.19  Aligned_cols=230  Identities=10%  Similarity=0.026  Sum_probs=168.0

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcC-ChHHHHHHHHHHHhcCCCCCccchHHHHHHH
Q 044047           22 VYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTK-DVEESLNLYSEMLSKGIRPTVVTYNTLFHGL  100 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  100 (260)
                      ++..+-..+...+..++|+.+..++.+.+ |-+..+|+..-.++...| ++++++..++++.+...+ +..+|+.....+
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l  116 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLA  116 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHH
Confidence            44555566667889999999999998876 556677877777777777 679999999999887655 556677665556


Q ss_pred             hccccH--HHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhc---CC
Q 044047          101 FEIHQV--EHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKI---GK  175 (260)
Q Consensus       101 ~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~  175 (260)
                      .+.++.  ++++.+++.+.+.+ +-+..+|+...-++...|+++++++.+.++++.+ +-+...|+.....+.+.   |.
T Consensus       117 ~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~~  194 (320)
T PLN02789        117 EKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLGG  194 (320)
T ss_pred             HHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhcccccc
Confidence            566653  67788888888876 6678889988888889999999999999999877 55666777666555544   22


Q ss_pred             H----HHHHHHHHhhhhCCCCCchhhHHHHHHHHHhc----CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC---
Q 044047          176 L----ETAWELFQSLPRVGLMPNVVTYNIMIHGFCND----GQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNN---  244 (260)
Q Consensus       176 ~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~---  244 (260)
                      .    ++......++..... -|...|+.+...+...    ++..+|.+++.+....+ +.+......|+..|....   
T Consensus       195 ~~~~~e~el~y~~~aI~~~P-~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~~~~~  272 (320)
T PLN02789        195 LEAMRDSELKYTIDAILANP-RNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEGLQPT  272 (320)
T ss_pred             ccccHHHHHHHHHHHHHhCC-CCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhhhccc
Confidence            2    456677766666543 3677888888887773    34567888888877653 346777888888887632   


Q ss_pred             ---------------chhHHHHHHHHHh
Q 044047          245 ---------------ETSKVVELLHRMD  257 (260)
Q Consensus       245 ---------------~~~~a~~~~~~m~  257 (260)
                                     ..++|.+++..+.
T Consensus       273 ~~~~~~~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        273 AEFRDTVDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             hhhhhhhhccccccccHHHHHHHHHHHH
Confidence                           2356777777663

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

Probab=99.25  E-value=7.9e-08  Score=73.99  Aligned_cols=228  Identities=11%  Similarity=0.047  Sum_probs=144.7

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCC-ccchHHHHHHH
Q 044047           26 LIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCK----TKDVEESLNLYSEMLSKGIRPT-VVTYNTLFHGL  100 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  100 (260)
                      ....+...|++++|..++++..+.. |.+...+.. ...+..    .+....+.+.+...  .+..|+ ......+...+
T Consensus        49 ~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~a~~~  124 (355)
T cd05804          49 EALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGAFGLGDFSGMRDHVARVLPLW--APENPDYWYLLGMLAFGL  124 (355)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHHHHhcccccCchhHHHHHhcc--CcCCCCcHHHHHHHHHHH
Confidence            3445677899999999999988764 555555553 223333    34455555555441  112222 23334556678


Q ss_pred             hccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCC-CcCH--HHHHHHHHHHHhcCCHH
Q 044047          101 FEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKC-ELGI--EAYSCLIDGLCKIGKLE  177 (260)
Q Consensus       101 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~  177 (260)
                      ...|++++|...+++..+.. +.+...+..+...+...|++++|...++....... .++.  ..|..+...+...|+++
T Consensus       125 ~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~  203 (355)
T cd05804         125 EEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYE  203 (355)
T ss_pred             HHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHH
Confidence            89999999999999998876 56677888899999999999999999998876532 1222  34557888999999999


Q ss_pred             HHHHHHHhhhhCCC-CCchhhH-H--HHHHHHHhcCChHHHHHH--HHHHHhCCC--CCChhhHHHHHHHHHhcCchhHH
Q 044047          178 TAWELFQSLPRVGL-MPNVVTY-N--IMIHGFCNDGQMDKAHDL--FLDMEAKGV--APNCVTFNTLMLGCIRNNETSKV  249 (260)
Q Consensus       178 ~a~~~~~~~~~~~~-~~~~~~~-~--~l~~~~~~~g~~~~a~~~--~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a  249 (260)
                      +|..+++....... .+..... +  .++.-+...|....+.+.  +........  ............++...|+.+.|
T Consensus       204 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a  283 (355)
T cd05804         204 AALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDAL  283 (355)
T ss_pred             HHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHH
Confidence            99999999864332 1111111 1  233333445543333333  211111111  11112223566778889999999


Q ss_pred             HHHHHHHhh
Q 044047          250 VELLHRMDE  258 (260)
Q Consensus       250 ~~~~~~m~~  258 (260)
                      ...++.+..
T Consensus       284 ~~~L~~l~~  292 (355)
T cd05804         284 DKLLAALKG  292 (355)
T ss_pred             HHHHHHHHH
Confidence            999988754

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

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

Probab=99.22  E-value=1.9e-09  Score=79.39  Aligned_cols=218  Identities=14%  Similarity=0.118  Sum_probs=147.7

Q ss_pred             HHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccH
Q 044047           27 IDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQV  106 (260)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  106 (260)
                      ++-+.-.|++..++.-.+ .....-+........+.+++...|+++.++   .++... ..|.......+...+...++-
T Consensus         8 vrn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~-~~~~l~av~~la~y~~~~~~~   82 (290)
T PF04733_consen    8 VRNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKS-SSPELQAVRLLAEYLSSPSDK   82 (290)
T ss_dssp             HHHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TT-SSCCCHHHHHHHHHHCTSTTH
T ss_pred             HHHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccC-CChhHHHHHHHHHHHhCccch
Confidence            445556789998886665 332321234555667789999999877544   344333 366666666666666554556


Q ss_pred             HHHHHHHHHHhhcCCC-cchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHh
Q 044047          107 EHALKLFDEMQHSDVA-AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQS  185 (260)
Q Consensus       107 ~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  185 (260)
                      +.++.-+++....... .+..........+...|++++|++++...      .+.......+..+.+.++++.|.+.++.
T Consensus        83 e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~  156 (290)
T PF04733_consen   83 ESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKN  156 (290)
T ss_dssp             HCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6666666555433323 23333334445677789999999887643      4667778889999999999999999999


Q ss_pred             hhhCCCCCchhhHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          186 LPRVGLMPNVVTYNIMIHGFCN----DGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       186 ~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      |.+..   +..+...+..++..    ...+.+|..+|+++.+. ..+++.+.+.+..+....|++++|.+++.+..++
T Consensus       157 ~~~~~---eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~  230 (290)
T PF04733_consen  157 MQQID---EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEK  230 (290)
T ss_dssp             HHCCS---CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC
T ss_pred             HHhcC---CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            99763   33455556665543    34699999999998775 6788999999999999999999999999987654

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.

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

Probab=99.21  E-value=2.2e-08  Score=77.38  Aligned_cols=244  Identities=14%  Similarity=0.073  Sum_probs=186.5

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      .+|.-.|+..++.+ |-+...|..|.......++-..|+..+++..+.+ |-+..+.-.|.-.|...|.-..|++.+++.
T Consensus       302 ~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~Al~~L~~W  379 (579)
T KOG1125|consen  302 SEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQALKMLDKW  379 (579)
T ss_pred             hHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            46777788888776 4578999999999999999999999999999887 778889999999999999999999999998


Q ss_pred             HhcCCC--------CCccchHHHHHHHhccccHHHHHHHHHHH-hhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhh
Q 044047           82 LSKGIR--------PTVVTYNTLFHGLFEIHQVEHALKLFDEM-QHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLR  152 (260)
Q Consensus        82 ~~~~~~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  152 (260)
                      .....+        ++...-..  +.+.....+....++|-++ ...+..+|+.+...|.-.|--.|++++|...|+...
T Consensus       380 i~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL  457 (579)
T KOG1125|consen  380 IRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAAL  457 (579)
T ss_pred             HHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHH
Confidence            664311        01000000  2223333445555555555 444444788899999999999999999999999999


Q ss_pred             hcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHhC-------
Q 044047          153 VLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPN-VVTYNIMIHGFCNDGQMDKAHDLFLDMEAK-------  224 (260)
Q Consensus       153 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------  224 (260)
                      ... |-|..+||-+...++...+.++|...|.++.+.  +|+ +.+...|.-+|...|.+++|...|-..+.-       
T Consensus       458 ~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~  534 (579)
T KOG1125|consen  458 QVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRKSRNH  534 (579)
T ss_pred             hcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhccccc
Confidence            876 668889999999999999999999999999985  566 456667778899999999999998776532       


Q ss_pred             --CCCCChhhHHHHHHHHHhcCchhHHHHH
Q 044047          225 --GVAPNCVTFNTLMLGCIRNNETSKVVEL  252 (260)
Q Consensus       225 --~~~p~~~~~~~l~~~~~~~~~~~~a~~~  252 (260)
                        +..++...|..|=.++.-.++.|.+.+.
T Consensus       535 ~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  535 NKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             ccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence              1122345777777777777777755443

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

Probab=99.21  E-value=4.5e-09  Score=83.22  Aligned_cols=221  Identities=14%  Similarity=0.118  Sum_probs=164.0

Q ss_pred             CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHH
Q 044047           17 RPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTL   96 (260)
Q Consensus        17 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   96 (260)
                      +|--..-..+...+...|-...|..+|++..         .|...+.+|...|+..+|..+..+..+.  +|++..|..+
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~L  463 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLL  463 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHh
Confidence            4444445566777888888888888887654         4777888999999999999888887773  6788888888


Q ss_pred             HHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCH
Q 044047           97 FHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKL  176 (260)
Q Consensus        97 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  176 (260)
                      ........-+++|.++.+..-..       .-..+.....+.++++++.+.|+.-.+.. +....+|.....+..+.+++
T Consensus       464 GDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~  535 (777)
T KOG1128|consen  464 GDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKE  535 (777)
T ss_pred             hhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhh
Confidence            88887777788888887764322       11222233344778888888888766655 56677788888888888888


Q ss_pred             HHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          177 ETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       177 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      +.|.+.|....... +-+...||.+-.+|.+.++-.+|...+.+..+.+ .-+...|...+....+.|.+++|.+.+.++
T Consensus       536 q~av~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rl  613 (777)
T KOG1128|consen  536 QAAVKAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRL  613 (777)
T ss_pred             HHHHHHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHH
Confidence            88888888877653 2246788888888888888888888888888776 445666777777778888888888888877


Q ss_pred             hh
Q 044047          257 DE  258 (260)
Q Consensus       257 ~~  258 (260)
                      .+
T Consensus       614 l~  615 (777)
T KOG1128|consen  614 LD  615 (777)
T ss_pred             HH
Confidence            54

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.19  E-value=2.5e-08  Score=72.05  Aligned_cols=186  Identities=13%  Similarity=0.039  Sum_probs=120.4

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCch---hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCc--cch
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNV---VTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTV--VTY   93 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~   93 (260)
                      .+..+..+...+...|++++|...|+.+.... |.+.   .++..+..++...|++++|...++++.+.......  .++
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            45566777777888888888888888876653 2222   45677778888888888888888888775332111  134


Q ss_pred             HHHHHHHhcc--------ccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHH
Q 044047           94 NTLFHGLFEI--------HQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSC  165 (260)
Q Consensus        94 ~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  165 (260)
                      ..+..++...        |+.+.|.+.++.+.... |.+......+.....    ....      .        ......
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~~~~----~~~~------~--------~~~~~~  171 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY-PNSEYAPDAKKRMDY----LRNR------L--------AGKELY  171 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC-CCChhHHHHHHHHHH----HHHH------H--------HHHHHH
Confidence            4444444443        67777888888777653 222222222211100    0000      0        011124


Q ss_pred             HHHHHHhcCCHHHHHHHHHhhhhCCCC-C-chhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          166 LIDGLCKIGKLETAWELFQSLPRVGLM-P-NVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      +...+.+.|++++|...++...+.... | ....+..+..++...|++++|..+++.+...
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            667788999999999999998876321 2 3568889999999999999999999888764

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).

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

Probab=99.18  E-value=1.6e-08  Score=70.73  Aligned_cols=164  Identities=13%  Similarity=0.034  Sum_probs=130.3

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHH
Q 044047           54 NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFID  133 (260)
Q Consensus        54 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  133 (260)
                      |... ..+-..+...|+-+....+..+..... ..+....+.+++...+.|++..|+..+++..... ++|...|+.+.-
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lga  142 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHH
Confidence            4444 666777788888888888777755432 2245566668888889999999999999988876 788999999999


Q ss_pred             HHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHH
Q 044047          134 GLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDK  213 (260)
Q Consensus       134 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  213 (260)
                      +|.+.|+++.|..-|.+..+.. +-++..++++.-.+.-.|+.+.|..++......+.. |...-..+.......|++++
T Consensus       143 aldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~  220 (257)
T COG5010         143 ALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFRE  220 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHH
Confidence            9999999999999998888765 556778888988899999999999999888876532 66677788888889999999


Q ss_pred             HHHHHHHHH
Q 044047          214 AHDLFLDME  222 (260)
Q Consensus       214 a~~~~~~~~  222 (260)
                      |..+...-.
T Consensus       221 A~~i~~~e~  229 (257)
T COG5010         221 AEDIAVQEL  229 (257)
T ss_pred             HHhhccccc
Confidence            988776544

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

Probab=99.16  E-value=4.3e-08  Score=68.36  Aligned_cols=155  Identities=11%  Similarity=0.128  Sum_probs=109.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcH
Q 044047           62 INGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYI  141 (260)
Q Consensus        62 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  141 (260)
                      +..|...|+++.+....+.+..    |. .       .+...++.+++...++...+.+ |.+...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~-~-------~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL-H-------QFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc-c-------cccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCH
Confidence            3457777777776444432221    11 0       1223566677777777777765 67788888888888888888


Q ss_pred             HHHHHHHHHhhhcCCCcCHHHHHHHHHH-HHhcCC--HHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHH
Q 044047          142 VEAAELFRTLRVLKCELGIEAYSCLIDG-LCKIGK--LETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLF  218 (260)
Q Consensus       142 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  218 (260)
                      ++|...++...... +.+...+..+..+ +...|+  .++|.+++++..+.+.. +..++..+...+...|++++|...|
T Consensus        90 ~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370         90 DNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELW  167 (198)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHH
Confidence            88888888888766 5577777777776 356666  48888888888887533 5677888888888888888888888


Q ss_pred             HHHHhCCCCCChhh
Q 044047          219 LDMEAKGVAPNCVT  232 (260)
Q Consensus       219 ~~~~~~~~~p~~~~  232 (260)
                      +++.+. .+|+..-
T Consensus       168 ~~aL~l-~~~~~~r  180 (198)
T PRK10370        168 QKVLDL-NSPRVNR  180 (198)
T ss_pred             HHHHhh-CCCCccH
Confidence            888876 3444443

>PLN02789 farnesyltranstransferase

Probab=99.16  E-value=1.2e-07  Score=70.93  Aligned_cols=201  Identities=10%  Similarity=0.011  Sum_probs=150.0

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccC-CHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCCh--HHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTG-EIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDV--EESLNLY   78 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~a~~~~   78 (260)
                      ++|+.+.+.+.+.+ +-+..+|+....++...| ++++++..++.+...+ +.+..+|+.....+.+.|+.  ++++.++
T Consensus        54 erAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~~~el~~~  131 (320)
T PLN02789         54 PRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAANKELEFT  131 (320)
T ss_pred             HHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhhHHHHHHH
Confidence            57888888888775 335667777777777777 6899999999998876 66777788776666666763  6789999


Q ss_pred             HHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhc---CcH----HHHHHHHHHh
Q 044047           79 SEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKN---GYI----VEAAELFRTL  151 (260)
Q Consensus        79 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~----~~a~~~~~~~  151 (260)
                      +++.+...+ +..+|+....++...|++++++..++++++.+ +.+...|+.....+.+.   |..    ++......++
T Consensus       132 ~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~a  209 (320)
T PLN02789        132 RKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDA  209 (320)
T ss_pred             HHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhccccccccccHHHHHHHHHHH
Confidence            999987665 78899998889999999999999999999987 56777787776666554   222    4566666666


Q ss_pred             hhcCCCcCHHHHHHHHHHHHhc----CCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhc
Q 044047          152 RVLKCELGIEAYSCLIDGLCKI----GKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCND  208 (260)
Q Consensus       152 ~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  208 (260)
                      +... +-+...|+.+...+...    +...+|.+.+.+....++ .+......|+..|+..
T Consensus       210 I~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~-~s~~al~~l~d~~~~~  268 (320)
T PLN02789        210 ILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDS-NHVFALSDLLDLLCEG  268 (320)
T ss_pred             HHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccC-CcHHHHHHHHHHHHhh
Confidence            6654 56777888777777763    344668888887766542 3567788888888763

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.14  E-value=5.2e-08  Score=70.40  Aligned_cols=187  Identities=11%  Similarity=-0.018  Sum_probs=129.6

Q ss_pred             CchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-C-CccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchh---h
Q 044047           53 HNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIR-P-TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETS---T  127 (260)
Q Consensus        53 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~  127 (260)
                      .....+..+...+...|+++.|...++++...... | ...++..+..++...|++++|...++++.+.. |.+..   +
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a  109 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH-PNHPDADYA  109 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCchHHH
Confidence            45667788888899999999999999998875322 1 12456778889999999999999999998764 22222   4


Q ss_pred             HHHHHHHHHhc--------CcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHH
Q 044047          128 YNTFIDGLCKN--------GYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYN  199 (260)
Q Consensus       128 ~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  199 (260)
                      +..+..++...        |+++.|.+.++.+.... +.+...+..+.....    ...      ..        .....
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~~~~----~~~------~~--------~~~~~  170 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY-PNSEYAPDAKKRMDY----LRN------RL--------AGKEL  170 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC-CCChhHHHHHHHHHH----HHH------HH--------HHHHH
Confidence            55555555544        67888888888887653 223323222211110    000      00        01122


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCC--CCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          200 IMIHGFCNDGQMDKAHDLFLDMEAKG--VAPNCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       200 ~l~~~~~~~g~~~~a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      .+...+.+.|++++|...+++..+..  -+.....+..+..++...|++++|..+++.+..+
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            56677889999999999999998752  1223578889999999999999999999988654

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

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

Probab=99.14  E-value=1.9e-07  Score=79.35  Aligned_cols=240  Identities=13%  Similarity=0.067  Sum_probs=187.2

Q ss_pred             HHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhc-CCC---CchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047            8 LDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDIN-GCM---HNVVTYNTLINGYCKTKDVEESLNLYSEMLS   83 (260)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   83 (260)
                      |+++.... |.+...|-..|....+.++.+.|.++.++++.. ++.   --...|.++++.-...|.-+...++|+++.+
T Consensus      1447 ferlvrss-PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcq 1525 (1710)
T KOG1070|consen 1447 FERLVRSS-PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQ 1525 (1710)
T ss_pred             HHHHHhcC-CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHH
Confidence            44444443 556778999999999999999999999988653 221   1245688888888888888899999999987


Q ss_pred             cCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCC-cCHHH
Q 044047           84 KGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCE-LGIEA  162 (260)
Q Consensus        84 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~  162 (260)
                      . .. .-..|..|...|.+.+..++|-++++.|.+.- .-....|...+..+.+.++-+.|..++.+....-.. -....
T Consensus      1526 y-cd-~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~ 1602 (1710)
T KOG1070|consen 1526 Y-CD-AYTVHLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEF 1602 (1710)
T ss_pred             h-cc-hHHHHHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHH
Confidence            5 22 34678889999999999999999999998763 356788999999999999999999999988765211 23456


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCh--hhHHHHHHHH
Q 044047          163 YSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNC--VTFNTLMLGC  240 (260)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~--~~~~~l~~~~  240 (260)
                      ..-.+..-.+.|+.+++..+|+......++ ....|+..++.-.++|+.+.+..+|++....++.|-.  ..|...+..=
T Consensus      1603 IskfAqLEFk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyE 1681 (1710)
T KOG1070|consen 1603 ISKFAQLEFKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYE 1681 (1710)
T ss_pred             HHHHHHHHhhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHH
Confidence            677778888999999999999998876432 5679999999999999999999999999999887753  4455555544


Q ss_pred             HhcCchhHHHHH
Q 044047          241 IRNNETSKVVEL  252 (260)
Q Consensus       241 ~~~~~~~~a~~~  252 (260)
                      -..|+-..+..+
T Consensus      1682 k~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1682 KSHGDEKNVEYV 1693 (1710)
T ss_pred             HhcCchhhHHHH
Confidence            555665544433

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.10  E-value=6.1e-07  Score=71.96  Aligned_cols=253  Identities=14%  Similarity=0.034  Sum_probs=178.8

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      .++++.+++..+.+ +.|+.+...+.--|+..++++.|.+..++..+.+-..+...|..+.-.+...+++.+|+.+.+..
T Consensus       461 ~kslqale~av~~d-~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~a  539 (799)
T KOG4162|consen  461 KKSLQALEEAVQFD-PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAA  539 (799)
T ss_pred             HHHHHHHHHHHhcC-CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            35778888888876 33555555577778889999999999999998865788999999999999999999999999877


Q ss_pred             Hhc-CCC------------------CCccchHHHHHHHhc---------cc--------------cHHHHHHHHHHH---
Q 044047           82 LSK-GIR------------------PTVVTYNTLFHGLFE---------IH--------------QVEHALKLFDEM---  116 (260)
Q Consensus        82 ~~~-~~~------------------~~~~~~~~l~~~~~~---------~~--------------~~~~a~~~~~~~---  116 (260)
                      .+. |..                  ....|...++..+-.         .|              +..++.+....+   
T Consensus       540 l~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l  619 (799)
T KOG4162|consen  540 LEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSL  619 (799)
T ss_pred             HHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHH
Confidence            653 210                  001122222222210         00              111111111111   


Q ss_pred             -----hhcC---------CCcc--------hhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcC
Q 044047          117 -----QHSD---------VAAE--------TSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIG  174 (260)
Q Consensus       117 -----~~~~---------~~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  174 (260)
                           ...+         +.|.        ...|......+...++.++|...+.+..... +.....|......+...|
T Consensus       620 ~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~  698 (799)
T KOG4162|consen  620 VASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKG  698 (799)
T ss_pred             HHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHH
Confidence                 0000         0111        1234456667778888888888777776553 566777888888889999


Q ss_pred             CHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHH--HHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHH
Q 044047          175 KLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHD--LFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVEL  252 (260)
Q Consensus       175 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~--~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  252 (260)
                      .+++|.+.|.......+ -+..+..++...+.+.|+..-|..  ++.++.+.+ +.+...|..+...+.+.|+.+.|.+.
T Consensus       699 ~~~EA~~af~~Al~ldP-~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaec  776 (799)
T KOG4162|consen  699 QLEEAKEAFLVALALDP-DHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAEC  776 (799)
T ss_pred             hhHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHH
Confidence            99999999998887642 246788899999999999888888  999999875 45789999999999999999999999


Q ss_pred             HHHHhh
Q 044047          253 LHRMDE  258 (260)
Q Consensus       253 ~~~m~~  258 (260)
                      |....+
T Consensus       777 f~aa~q  782 (799)
T KOG4162|consen  777 FQAALQ  782 (799)
T ss_pred             HHHHHh
Confidence            986543

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

Probab=99.10  E-value=8.5e-07  Score=67.60  Aligned_cols=242  Identities=12%  Similarity=0.121  Sum_probs=178.6

Q ss_pred             HHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCch--hhHHHHHHH--------HHhcCChHHHHHH
Q 044047            8 LDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNV--VTYNTLING--------YCKTKDVEESLNL   77 (260)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~--------~~~~~~~~~a~~~   77 (260)
                      ++.+...+ +.|-.+|--.++.-...|+.+...++|+.....- ||-.  ..|...|..        =....|++.+.++
T Consensus       311 YE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanv-pp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~v  388 (677)
T KOG1915|consen  311 YEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANV-PPASEKRYWRRYIYLWINYALYEELEAEDVERTRQV  388 (677)
T ss_pred             HHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccC-CchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            44455544 5577888888888888999999999999998663 5532  223322221        2346789999999


Q ss_pred             HHHHHhcCCCCCccchHHHHHHH----hccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhh
Q 044047           78 YSEMLSKGIRPTVVTYNTLFHGL----FEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRV  153 (260)
Q Consensus        78 ~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  153 (260)
                      ++...+. ++....||.-+--.|    .+..+...|.+++...+.  .-|...+|...|..-.+.++++....+++....
T Consensus       389 yq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG--~cPK~KlFk~YIelElqL~efDRcRkLYEkfle  465 (677)
T KOG1915|consen  389 YQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIG--KCPKDKLFKGYIELELQLREFDRCRKLYEKFLE  465 (677)
T ss_pred             HHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhc--cCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            9999884 555667776554444    467889999999988764  468888999999999999999999999999998


Q ss_pred             cCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCC-CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhh
Q 044047          154 LKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGL-MPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVT  232 (260)
Q Consensus       154 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  232 (260)
                      .+ |.+..+|......-...|+.+.|..+|.-+.+... ......|...|.--...|.+++|..+++++++.  .+...+
T Consensus       466 ~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r--t~h~kv  542 (677)
T KOG1915|consen  466 FS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR--TQHVKV  542 (677)
T ss_pred             cC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh--cccchH
Confidence            87 67788898888888899999999999999987632 112345666666666899999999999999986  344456


Q ss_pred             HHHHHHHHH-----hcC-----------chhHHHHHHHHHh
Q 044047          233 FNTLMLGCI-----RNN-----------ETSKVVELLHRMD  257 (260)
Q Consensus       233 ~~~l~~~~~-----~~~-----------~~~~a~~~~~~m~  257 (260)
                      |.++..-=.     +.+           ....|..+|++..
T Consensus       543 WisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn  583 (677)
T KOG1915|consen  543 WISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERAN  583 (677)
T ss_pred             HHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHH
Confidence            655543222     223           4556777777654

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

Probab=99.09  E-value=3.6e-08  Score=69.07  Aligned_cols=165  Identities=12%  Similarity=0.068  Sum_probs=136.9

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      |... ..+-..+...|+-+....+..+..... +.+....+..+....+.|++..|+..+.+.... -++|..+|+.+.-
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lga  142 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHH
Confidence            3444 456666777788777777777654433 556677778999999999999999999999876 4568999999999


Q ss_pred             HHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHH
Q 044047           99 GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLET  178 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  178 (260)
                      +|.+.|+.+.|..-|.+..+.. +.++...+.+.-.+.-.|+++.|..++......+ ..+..+-..+.......|+++.
T Consensus       143 aldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~  220 (257)
T COG5010         143 ALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFRE  220 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHH
Confidence            9999999999999999998875 5677888999999999999999999999988765 5577888899999999999999


Q ss_pred             HHHHHHhhhh
Q 044047          179 AWELFQSLPR  188 (260)
Q Consensus       179 a~~~~~~~~~  188 (260)
                      |..+...-..
T Consensus       221 A~~i~~~e~~  230 (257)
T COG5010         221 AEDIAVQELL  230 (257)
T ss_pred             HHhhcccccc
Confidence            9998765443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.09  E-value=1.4e-08  Score=67.16  Aligned_cols=96  Identities=13%  Similarity=-0.019  Sum_probs=61.6

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhc
Q 044047           23 YSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFE  102 (260)
Q Consensus        23 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  102 (260)
                      +..+...+...|++++|...|+...... |.+...|..+..++...|++++|...|++....... +...+..+..++..
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~-~~~a~~~lg~~l~~  104 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDAS-HPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHH
Confidence            4445666666667777777666666554 556666666666666677777777777666665332 55666666666666


Q ss_pred             cccHHHHHHHHHHHhhcC
Q 044047          103 IHQVEHALKLFDEMQHSD  120 (260)
Q Consensus       103 ~~~~~~a~~~~~~~~~~~  120 (260)
                      .|++++|...|+...+..
T Consensus       105 ~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359        105 MGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             cCCHHHHHHHHHHHHHhC
Confidence            677777776666666543

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

Probab=99.08  E-value=1.2e-07  Score=80.52  Aligned_cols=204  Identities=13%  Similarity=0.065  Sum_probs=165.8

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-----CccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchh
Q 044047           52 MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRP-----TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETS  126 (260)
Q Consensus        52 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  126 (260)
                      |.+...|-..|......++.++|.++.++.... +.+     ....|.+++..-..-|.-+...++|+++.+..  ..-.
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~ 1531 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYT 1531 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHH
Confidence            556778999999999999999999999998764 322     23456777777777788888899999998764  2345


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC-CchhhHHHHHHHH
Q 044047          127 TYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM-PNVVTYNIMIHGF  205 (260)
Q Consensus       127 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~  205 (260)
                      .|..|...|.+.+.+++|.++++.|.+.- .-....|...+..+.+.++-+.|..++.++.+.-.+ -........+..-
T Consensus      1532 V~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1532 VHLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            78899999999999999999999998754 467788999999999999999999999988775211 0233444555566


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhcC
Q 044047          206 CNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDERN  260 (260)
Q Consensus       206 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  260 (260)
                      .+.|+.+.+..+|+..+.. .|-....|+..++.-.++|+.+.++.+|++.++.+
T Consensus      1611 Fk~GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~ 1664 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELK 1664 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcC
Confidence            6899999999999999876 45567899999999999999999999999988653

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

Probab=99.05  E-value=2.5e-08  Score=69.57  Aligned_cols=161  Identities=12%  Similarity=0.147  Sum_probs=122.8

Q ss_pred             HHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccH
Q 044047           27 IDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQV  106 (260)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  106 (260)
                      +-.|...|+++.+....+.+..    |. .       .+...++.+++...+++..+.... +...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~-~-------~~~~~~~~~~~i~~l~~~L~~~P~-~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL-H-------QFASQQTPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc-c-------cccCchhHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCH
Confidence            3557788998887655433221    11 0       122366778888888888877544 788999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCcchhhHHHHHHH-HHhcCc--HHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 044047          107 EHALKLFDEMQHSDVAAETSTYNTFIDG-LCKNGY--IVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELF  183 (260)
Q Consensus       107 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  183 (260)
                      +.|...|++..+.. +.+...+..+..+ +...|+  .++|.+++++..+.+ +.++..+..+...+...|++++|...|
T Consensus        90 ~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370         90 DNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELW  167 (198)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999998886 6678888888886 467777  599999999999876 667889999999999999999999999


Q ss_pred             HhhhhCCCCCchhhHHHHHHH
Q 044047          184 QSLPRVGLMPNVVTYNIMIHG  204 (260)
Q Consensus       184 ~~~~~~~~~~~~~~~~~l~~~  204 (260)
                      +.+.+.. +|+..-+ .+|..
T Consensus       168 ~~aL~l~-~~~~~r~-~~i~~  186 (198)
T PRK10370        168 QKVLDLN-SPRVNRT-QLVES  186 (198)
T ss_pred             HHHHhhC-CCCccHH-HHHHH
Confidence            9998874 3444433 33343

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

Probab=99.04  E-value=1.8e-06  Score=65.95  Aligned_cols=249  Identities=9%  Similarity=0.022  Sum_probs=181.0

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      .+|..+|+...... ..+...|-..+.+=.+..++..|..+++.....= |.-...|-..+.+=-..|++..|.++|++-
T Consensus        90 ~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~l-PRVdqlWyKY~ymEE~LgNi~gaRqiferW  167 (677)
T KOG1915|consen   90 QRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTIL-PRVDQLWYKYIYMEEMLGNIAGARQIFERW  167 (677)
T ss_pred             HHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhc-chHHHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            56888888888766 3477788888888888899999999998887652 444456777777777789999999999998


Q ss_pred             HhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCC--CcC
Q 044047           82 LSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKC--ELG  159 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~  159 (260)
                      .+.  .|+...|.+.+..-.+-+.++.|..+|+...-.  .|+..+|--....-.++|+...+..+++.....--  ..+
T Consensus       168 ~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~  243 (677)
T KOG1915|consen  168 MEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEA  243 (677)
T ss_pred             HcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHH
Confidence            874  789999999999999999999999999998764  48888888888888899999999999987764311  123


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc--hhhHHHHHHHHHhcCChHHHHHH--------HHHHHhCCCCCC
Q 044047          160 IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPN--VVTYNIMIHGFCNDGQMDKAHDL--------FLDMEAKGVAPN  229 (260)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~--------~~~~~~~~~~p~  229 (260)
                      ...+.++...-.++..++.|..+|+-..+.- +.+  ...|..+...=-+-|+.....+.        ++.+++. -+-|
T Consensus       244 e~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~-np~n  321 (677)
T KOG1915|consen  244 EILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSK-NPYN  321 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHh-CCCC
Confidence            3456666666667778888888888877652 222  23444444333344544333322        2333443 2557


Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          230 CVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       230 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ..+|--.+..-...|+.+...+++++.+.
T Consensus       322 YDsWfdylrL~e~~g~~~~Ire~yErAIa  350 (677)
T KOG1915|consen  322 YDSWFDYLRLEESVGDKDRIRETYERAIA  350 (677)
T ss_pred             chHHHHHHHHHHhcCCHHHHHHHHHHHHc
Confidence            77887788887888999999998888764

>PF12854 PPR_1: PPR repeat

Probab=99.04  E-value=3.9e-10  Score=54.11  Aligned_cols=32  Identities=50%  Similarity=0.970  Sum_probs=20.5

Q ss_pred             CCCccHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 044047           15 GVRPNAFVYSTLIDGFCLTGEIDRARELFVSM   46 (260)
Q Consensus        15 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   46 (260)
                      |++||..+|++||.+|++.|++++|.++|++|
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            55666666666666666666666666666655

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=99.03  E-value=6.9e-07  Score=73.54  Aligned_cols=147  Identities=10%  Similarity=0.022  Sum_probs=99.2

Q ss_pred             CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHH
Q 044047           51 CMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNT  130 (260)
Q Consensus        51 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  130 (260)
                      ++.++..+..|.......|.+++|..+++...+..+. +......+...+.+.+++++|+..+++..... +.+......
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            4556667777777777777777777777777765332 44556666777777777777777777777665 555666667


Q ss_pred             HHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHH
Q 044047          131 FIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIM  201 (260)
Q Consensus       131 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  201 (260)
                      +..++...|++++|..+|+++...+ +.+..++..+...+...|+.++|...|+...+.. .|....|+..
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~  228 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRR  228 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHH
Confidence            7777777777777777777777633 4456677777777777777777777777776542 2333444443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=99.02  E-value=8.8e-08  Score=78.64  Aligned_cols=147  Identities=11%  Similarity=0.076  Sum_probs=126.7

Q ss_pred             CCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHH
Q 044047           16 VRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNT   95 (260)
Q Consensus        16 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   95 (260)
                      .+.++..+..|.....+.|.+++|..+++...+.. |-+......+...+.+.+++++|+..+++..+..+. +......
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHH
Confidence            45678899999999999999999999999998875 667788899999999999999999999999987554 6777788


Q ss_pred             HHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHH
Q 044047           96 LFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCL  166 (260)
Q Consensus        96 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  166 (260)
                      +..++.+.|++++|..+|+++...+ +.+..++..+..++...|+.++|...|+...... .+....|+..
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~  228 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRR  228 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHH
Confidence            8899999999999999999999854 5668899999999999999999999999987654 4444554433

>PF12854 PPR_1: PPR repeat

Probab=99.01  E-value=6.2e-10  Score=53.40  Aligned_cols=32  Identities=34%  Similarity=0.636  Sum_probs=17.2

Q ss_pred             CCCCChhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          225 GVAPNCVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       225 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      |+.||..+|+.|+.+|++.|++++|.++|++|
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            44555555555555555555555555555554

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

Probab=98.97  E-value=2.9e-06  Score=63.66  Aligned_cols=217  Identities=12%  Similarity=0.021  Sum_probs=154.9

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|+..|+.....+ +-+........-.+.+.|+.++...+...+.... ..+...|-.-+......++++.|+.+-++.
T Consensus       249 ~~a~~~Fe~~~~~d-py~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~  326 (564)
T KOG1174|consen  249 FQAEDIFSSTLCAN-PDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKC  326 (564)
T ss_pred             hHHHHHHHHHhhCC-hhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHH
Confidence            45677777766553 2223333333444567888888887777776543 345555666666667778888888888888


Q ss_pred             HhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhh---------
Q 044047           82 LSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLR---------  152 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---------  152 (260)
                      ++.... +...+..-..++...+++++|.-.|+...... |-+...|.-++.+|...|.+.+|...-+...         
T Consensus       327 I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~  404 (564)
T KOG1174|consen  327 IDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARS  404 (564)
T ss_pred             hccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhh
Confidence            776433 45566666677778888888888888877654 5667788888888888888877665443321         


Q ss_pred             -----------------------hcC--CCcC-HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHH
Q 044047          153 -----------------------VLK--CELG-IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFC  206 (260)
Q Consensus       153 -----------------------~~~--~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  206 (260)
                                             +++  ..|+ ....+.+...+...|..+.+..+++.....  .||....+.|...+.
T Consensus       405 LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~  482 (564)
T KOG1174|consen  405 LTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMR  482 (564)
T ss_pred             hhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHH
Confidence                                   011  1222 334567788889999999999999988764  588899999999999


Q ss_pred             hcCChHHHHHHHHHHHhC
Q 044047          207 NDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       207 ~~g~~~~a~~~~~~~~~~  224 (260)
                      ..+.+++|.+.|...+..
T Consensus       483 A~Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  483 AQNEPQKAMEYYYKALRQ  500 (564)
T ss_pred             HhhhHHHHHHHHHHHHhc
Confidence            999999999999988875

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.97  E-value=1.2e-07  Score=62.64  Aligned_cols=26  Identities=15%  Similarity=0.096  Sum_probs=9.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhh
Q 044047          162 AYSCLIDGLCKIGKLETAWELFQSLP  187 (260)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~  187 (260)
                      .+..+..++...|++++|...|+...
T Consensus        60 a~~~lg~~~~~~g~~~~A~~~y~~Al   85 (144)
T PRK15359         60 AHIALAGTWMMLKEYTTAINFYGHAL   85 (144)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            33333333333333333333333333

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

Probab=98.96  E-value=6.8e-07  Score=74.63  Aligned_cols=216  Identities=7%  Similarity=0.015  Sum_probs=141.0

Q ss_pred             CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-------
Q 044047           17 RPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT-------   89 (260)
Q Consensus        17 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------   89 (260)
                      +.+...+..|+..+...+++++|.++.+...+.. |-....|-.+...+...++...+..+  .+... ...+       
T Consensus        28 p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~-P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~-~~~~~~~~~ve  103 (906)
T PRK14720         28 LSKFKELDDLIDAYKSENLTDEAKDICEEHLKEH-KKSISALYISGILSLSRRPLNDSNLL--NLIDS-FSQNLKWAIVE  103 (906)
T ss_pred             cchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CcceehHHHHHHHHHhhcchhhhhhh--hhhhh-cccccchhHHH
Confidence            3467789999999999999999999999777664 33444555555566677766666555  33222 1111       


Q ss_pred             ------------ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCC
Q 044047           90 ------------VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCE  157 (260)
Q Consensus        90 ------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  157 (260)
                                  ...+..+..+|-+.|+.+++..+|+++.+.. +-++.+.|.+...|... ++++|.+++.+....-  
T Consensus       104 ~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~--  179 (906)
T PRK14720        104 HICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRF--  179 (906)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHH--
Confidence                        2455667778888899999999999998887 67788888888888888 8899988888776431  


Q ss_pred             cCHHHHHHHHHHH-----HhcCCHHHHHHHHHhhhhC-CCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChh
Q 044047          158 LGIEAYSCLIDGL-----CKIGKLETAWELFQSLPRV-GLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCV  231 (260)
Q Consensus       158 ~~~~~~~~l~~~~-----~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  231 (260)
                      .+..-|+.+...+     ....+++.-..+.+.+... |..--..++-.+-..|...++++++..+++.+++.. +-|..
T Consensus       180 i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~-~~n~~  258 (906)
T PRK14720        180 IKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHD-NKNNK  258 (906)
T ss_pred             HhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcC-Ccchh
Confidence            1111112111111     1122333444444444333 211224455666677788888999999999998863 33666


Q ss_pred             hHHHHHHHHH
Q 044047          232 TFNTLMLGCI  241 (260)
Q Consensus       232 ~~~~l~~~~~  241 (260)
                      ...-++.+|.
T Consensus       259 a~~~l~~~y~  268 (906)
T PRK14720        259 AREELIRFYK  268 (906)
T ss_pred             hHHHHHHHHH
Confidence            6777777776

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.94  E-value=8.4e-08  Score=68.70  Aligned_cols=228  Identities=14%  Similarity=0.116  Sum_probs=158.7

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHH-HHHHHh
Q 044047           23 YSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNT-LFHGLF  101 (260)
Q Consensus        23 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~  101 (260)
                      +.+.+..+.+..++++|++++..-.+.+ +.+......+..+|....++..|-..++++-..  .|...-|.. -...+.
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHH
Confidence            5667777788899999999998887775 558888999999999999999999999999775  344444443 345566


Q ss_pred             ccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 044047          102 EIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWE  181 (260)
Q Consensus       102 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  181 (260)
                      +.+.+..|+++...|.... .........-.......+++..+..+++.....+   +..+.+.......+.|+++.|.+
T Consensus        90 ~A~i~ADALrV~~~~~D~~-~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvq  165 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDNP-ALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQ  165 (459)
T ss_pred             HhcccHHHHHHHHHhcCCH-HHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHH
Confidence            7889999999998886531 1111222222223346788888888888766433   44455555666678999999999


Q ss_pred             HHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC-------------Chh--------hHHHHHH--
Q 044047          182 LFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAP-------------NCV--------TFNTLML--  238 (260)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p-------------~~~--------~~~~l~~--  238 (260)
                      -|+...+.+---....|+..+.. .+.|+.+.|++...++.+.|++.             |..        .-+.++.  
T Consensus       166 kFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAf  244 (459)
T KOG4340|consen  166 KFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAF  244 (459)
T ss_pred             HHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHh
Confidence            99988775433245667665544 56789999999999998876532             111        1123333  


Q ss_pred             -----HHHhcCchhHHHHHHHHHhh
Q 044047          239 -----GCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       239 -----~~~~~~~~~~a~~~~~~m~~  258 (260)
                           .+.+.|+++.|.+.+-.|.-
T Consensus       245 NLKaAIeyq~~n~eAA~eaLtDmPP  269 (459)
T KOG4340|consen  245 NLKAAIEYQLRNYEAAQEALTDMPP  269 (459)
T ss_pred             hhhhhhhhhcccHHHHHHHhhcCCC
Confidence                 34577888888888777643

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

Probab=98.93  E-value=1.3e-07  Score=75.30  Aligned_cols=210  Identities=11%  Similarity=0.055  Sum_probs=161.8

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHG   99 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   99 (260)
                      ...|.-++.+|...|+..+|..+..+..++  +|++..|..+........-+++|.++.+.....       .-..+...
T Consensus       424 lemw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~  494 (777)
T KOG1128|consen  424 LEMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALL  494 (777)
T ss_pred             HHHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccc
Confidence            345777899999999999999999887774  799999998888877777788888888765432       11222223


Q ss_pred             HhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHH
Q 044047          100 LFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETA  179 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  179 (260)
                      ..+.++++++.+.|+.-.+.+ +....+|..+.-+..+.+++..|.+.|....... +.+...||++-.+|.+.++-.+|
T Consensus       495 ~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra  572 (777)
T KOG1128|consen  495 ILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRA  572 (777)
T ss_pred             cccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHH
Confidence            344789999999999877765 6677888889889999999999999999888764 55678899999999999999999


Q ss_pred             HHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCCChhhHHHHHHHHH
Q 044047          180 WELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKG-VAPNCVTFNTLMLGCI  241 (260)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~  241 (260)
                      ...+.+..+.+. -+...|...+.....-|.+++|.+.+.++.... ...|..+...++....
T Consensus       573 ~~~l~EAlKcn~-~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~d~~vl~~iv~~~~  634 (777)
T KOG1128|consen  573 FRKLKEALKCNY-QHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKDDEVLLIIVRTVL  634 (777)
T ss_pred             HHHHHHHhhcCC-CCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhcccchhhHHHHHHHH
Confidence            999999988763 356777788888889999999999999886531 1114444444444443

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

Probab=98.89  E-value=2.6e-07  Score=60.59  Aligned_cols=98  Identities=13%  Similarity=0.056  Sum_probs=58.8

Q ss_pred             hhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHH
Q 044047          125 TSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHG  204 (260)
Q Consensus       125 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  204 (260)
                      ......+...+...|++++|...++.+...+ +.++..+..+...+...|++++|...++.....+ +.+...+..+...
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~   94 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAEC   94 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHH
Confidence            3444455555666666666666666665544 4455566666666666666666666666665543 2244555556666


Q ss_pred             HHhcCChHHHHHHHHHHHhC
Q 044047          205 FCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       205 ~~~~g~~~~a~~~~~~~~~~  224 (260)
                      +...|++++|...|+...+.
T Consensus        95 ~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        95 LLALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            66666666666666666653

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

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

Probab=98.89  E-value=1.9e-07  Score=61.22  Aligned_cols=96  Identities=20%  Similarity=0.130  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHH
Q 044047           21 FVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGL  100 (260)
Q Consensus        21 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  100 (260)
                      .....+...+...|++++|.+.++.+...+ +.+...+..+..++...|++++|...+++..+.+. .+...+..+...+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDP-DDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CChHHHHHHHHHH
Confidence            334444444455555555555555544433 33444455555555555555555555554444321 1334444444444


Q ss_pred             hccccHHHHHHHHHHHhh
Q 044047          101 FEIHQVEHALKLFDEMQH  118 (260)
Q Consensus       101 ~~~~~~~~a~~~~~~~~~  118 (260)
                      ...|+++.|...|+...+
T Consensus        96 ~~~g~~~~A~~~~~~al~  113 (135)
T TIGR02552        96 LALGEPESALKALDLAIE  113 (135)
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            455555555555544444

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

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

Probab=98.89  E-value=5.3e-06  Score=65.57  Aligned_cols=229  Identities=13%  Similarity=0.110  Sum_probs=159.7

Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044047            5 SRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK   84 (260)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   84 (260)
                      +...+.+... .+-...+.....-.+...|+.++|........+.+ ..+...|+.+.-.+...+++++|++.|......
T Consensus        27 LK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~  104 (700)
T KOG1156|consen   27 LKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKI  104 (700)
T ss_pred             HHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHHHHHHHHhc
Confidence            3444444442 33345555556666777888999998888777665 557788888888888888999999999998887


Q ss_pred             CCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC-CCcCHHHH
Q 044047           85 GIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK-CELGIEAY  163 (260)
Q Consensus        85 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~  163 (260)
                      +.. |...+.-+.-.-.+.++++.......++.+.. +.....|..++.++--.|++..|..+++...+.. ..|+...+
T Consensus       105 ~~d-N~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~  182 (700)
T KOG1156|consen  105 EKD-NLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDY  182 (700)
T ss_pred             CCC-cHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHH
Confidence            544 67777777777778888888888877777664 5566778888888888999999999998887654 24565554


Q ss_pred             HHH------HHHHHhcCCHHHHHHHHHhhhhCCCCCchhh-HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHH
Q 044047          164 SCL------IDGLCKIGKLETAWELFQSLPRVGLMPNVVT-YNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTL  236 (260)
Q Consensus       164 ~~l------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  236 (260)
                      .-.      .......|..+.|.+.+..-... + .|... -..-...+.+.+++++|..++..++..  .||..-|...
T Consensus       183 e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i-~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~  258 (700)
T KOG1156|consen  183 EHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-I-VDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEG  258 (700)
T ss_pred             HHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-H-HHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHH
Confidence            332      23345677778887777665443 1 23222 234456677889999999999999886  4665555544


Q ss_pred             H-HHHH
Q 044047          237 M-LGCI  241 (260)
Q Consensus       237 ~-~~~~  241 (260)
                      . .++.
T Consensus       259 l~~~lg  264 (700)
T KOG1156|consen  259 LEKALG  264 (700)
T ss_pred             HHHHHH
Confidence            4 4443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.89  E-value=1.4e-06  Score=61.52  Aligned_cols=148  Identities=15%  Similarity=0.104  Sum_probs=107.4

Q ss_pred             cchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHH
Q 044047           91 VTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGL  170 (260)
Q Consensus        91 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  170 (260)
                      .....-...|...+++++|++.....      .+......=+..+.+..+.+-|.+.++.|....   +..+.+-+..++
T Consensus       109 i~~l~aa~i~~~~~~~deAl~~~~~~------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~aw  179 (299)
T KOG3081|consen  109 IDLLLAAIIYMHDGDFDEALKALHLG------ENLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAW  179 (299)
T ss_pred             HHHHHhhHHhhcCCChHHHHHHHhcc------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHH
Confidence            33334445678888999998887662      122333444556677888889999999888643   555666666666


Q ss_pred             Hh----cCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCch
Q 044047          171 CK----IGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNET  246 (260)
Q Consensus       171 ~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  246 (260)
                      .+    .+.+..|.-+|+++.+. ..|+..+.+-...++...|++++|..++++.+.+. .-++.+...++.+-...|..
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-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD-AKDPETLANLIVLALHLGKD  257 (299)
T ss_pred             HHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc-CCCHHHHHHHHHHHHHhCCC
Confidence            54    45688899999998874 45788888888888899999999999999998874 44677877777777777776


Q ss_pred             hHH
Q 044047          247 SKV  249 (260)
Q Consensus       247 ~~a  249 (260)
                      .++
T Consensus       258 ~~~  260 (299)
T KOG3081|consen  258 AEV  260 (299)
T ss_pred             hHH
Confidence            544

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

Probab=98.88  E-value=3.1e-06  Score=66.87  Aligned_cols=234  Identities=13%  Similarity=0.077  Sum_probs=176.6

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHH
Q 044047           21 FVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGL  100 (260)
Q Consensus        21 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  100 (260)
                      ..|..++.+| ..+++...+.+.+.+.+. .+....+.....-.+...|+-++|......-....+. +.+.|+.+.-.+
T Consensus         9 ~lF~~~lk~y-E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~   85 (700)
T KOG1156|consen    9 ALFRRALKCY-ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQ   85 (700)
T ss_pred             HHHHHHHHHH-HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHH
Confidence            3455555544 678899999999888874 3556677776666777889999999999888776555 788999999888


Q ss_pred             hccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 044047          101 FEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAW  180 (260)
Q Consensus       101 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  180 (260)
                      ....++++|++.|......+ +.|...+.-+.-.-.+.++++..........+.. +-....|..++.++.-.|+...|.
T Consensus        86 R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~  163 (700)
T KOG1156|consen   86 RSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMAL  163 (700)
T ss_pred             hhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHH
Confidence            89999999999999998876 6777888777777778889888888777777653 445567888899999999999999


Q ss_pred             HHHHhhhhCCC-CCchhhHHHHH------HHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHH
Q 044047          181 ELFQSLPRVGL-MPNVVTYNIMI------HGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELL  253 (260)
Q Consensus       181 ~~~~~~~~~~~-~~~~~~~~~l~------~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  253 (260)
                      .+++...+... .|+...+....      ......|.+++|.+.+..-... +......-..-...+.+.++.++|..++
T Consensus       164 ~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y  242 (700)
T KOG1156|consen  164 EILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQLEEAVKVY  242 (700)
T ss_pred             HHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhHHHHH
Confidence            99999877642 35554443322      3445688888888887765543 2222233345567788999999999999


Q ss_pred             HHHhhcC
Q 044047          254 HRMDERN  260 (260)
Q Consensus       254 ~~m~~~~  260 (260)
                      ..++++|
T Consensus       243 ~~Ll~rn  249 (700)
T KOG1156|consen  243 RRLLERN  249 (700)
T ss_pred             HHHHhhC
Confidence            9988765

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.86  E-value=8.7e-06  Score=70.62  Aligned_cols=257  Identities=12%  Similarity=0.056  Sum_probs=160.8

Q ss_pred             hhHHHHHHHHHHcCCCcc----HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCC---CC--chhhHHHHHHHHHhcCChH
Q 044047            2 DEASRLLDLMIQRGVRPN----AFVYSTLIDGFCLTGEIDRARELFVSMDINGC---MH--NVVTYNTLINGYCKTKDVE   72 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~   72 (260)
                      ++|...++...+.-...+    ....+.+...+...|++++|...+.+.....-   .+  ...++..+...+...|+++
T Consensus       469 ~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~  548 (903)
T PRK04841        469 EEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQ  548 (903)
T ss_pred             HHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHH
Confidence            456666666554211111    23445666777789999999998888754210   11  1234556677788899999


Q ss_pred             HHHHHHHHHHhc----CCC--C-CccchHHHHHHHhccccHHHHHHHHHHHhhc----CCCcchhhHHHHHHHHHhcCcH
Q 044047           73 ESLNLYSEMLSK----GIR--P-TVVTYNTLFHGLFEIHQVEHALKLFDEMQHS----DVAAETSTYNTFIDGLCKNGYI  141 (260)
Q Consensus        73 ~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~  141 (260)
                      .|...+++....    +..  + ....+..+...+...|++++|...+++....    +.......+..+...+...|++
T Consensus       549 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~  628 (903)
T PRK04841        549 AAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDL  628 (903)
T ss_pred             HHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCH
Confidence            999988876542    211  1 1223344555667779999999888876442    1111233444566677889999


Q ss_pred             HHHHHHHHHhhhcC--CCcCHH--H--HHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc---hhhHHHHHHHHHhcCChH
Q 044047          142 VEAAELFRTLRVLK--CELGIE--A--YSCLIDGLCKIGKLETAWELFQSLPRVGLMPN---VVTYNIMIHGFCNDGQMD  212 (260)
Q Consensus       142 ~~a~~~~~~~~~~~--~~~~~~--~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~  212 (260)
                      +.|...+.......  ......  .  ....+..+...|+.+.|...+...........   ...+..+..++...|+++
T Consensus       629 ~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~  708 (903)
T PRK04841        629 DNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFD  708 (903)
T ss_pred             HHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHH
Confidence            99999888775421  111111  0  01122445568899999888877554221111   112345677788899999


Q ss_pred             HHHHHHHHHHhC----CCCCC-hhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          213 KAHDLFLDMEAK----GVAPN-CVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       213 ~a~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      +|...+.+....    |..++ ..+...+..++...|+.++|...+.+..+
T Consensus       709 ~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~  759 (903)
T PRK04841        709 EAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALK  759 (903)
T ss_pred             HHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999988653    32222 34566677888999999999999988764

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

Probab=98.85  E-value=4.7e-06  Score=63.77  Aligned_cols=110  Identities=14%  Similarity=0.134  Sum_probs=48.2

Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHH
Q 044047           67 KTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAE  146 (260)
Q Consensus        67 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  146 (260)
                      ..|++++|+..+..+...-+ -|+.........+...++.++|.+.++.+.... |........+..++.+.|++.+|++
T Consensus       318 ~~~~~d~A~~~l~~L~~~~P-~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~-P~~~~l~~~~a~all~~g~~~eai~  395 (484)
T COG4783         318 LAGQYDEALKLLQPLIAAQP-DNPYYLELAGDILLEANKAKEAIERLKKALALD-PNSPLLQLNLAQALLKGGKPQEAIR  395 (484)
T ss_pred             HhcccchHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCccHHHHHHHHHHHhcCChHHHHH
Confidence            34444445554444444311 122222333344444455555555554444432 2223334444444445555555555


Q ss_pred             HHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHH
Q 044047          147 LFRTLRVLKCELGIEAYSCLIDGLCKIGKLETA  179 (260)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  179 (260)
                      +++...... +.++..|..|.++|...|+..++
T Consensus       396 ~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a  427 (484)
T COG4783         396 ILNRYLFND-PEDPNGWDLLAQAYAELGNRAEA  427 (484)
T ss_pred             HHHHHhhcC-CCCchHHHHHHHHHHHhCchHHH
Confidence            444444332 44444455555555444444443

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

Probab=98.85  E-value=9.8e-07  Score=73.72  Aligned_cols=199  Identities=11%  Similarity=0.036  Sum_probs=134.7

Q ss_pred             CchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-ccchHHHHHHHhccccHHHHHHH------------------H
Q 044047           53 HNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT-VVTYNTLFHGLFEIHQVEHALKL------------------F  113 (260)
Q Consensus        53 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~------------------~  113 (260)
                      .+...+..|+..+...+++++|.++.+...+.  .|+ ...|..+...+.+.++...+..+                  +
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~~~  106 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLLNLIDSFSQNLKWAIVEHIC  106 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhhhhhhhcccccchhHHHHHH
Confidence            45778999999999999999999999977765  333 33444444455555554444333                  2


Q ss_pred             HHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCC
Q 044047          114 DEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMP  193 (260)
Q Consensus       114 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  193 (260)
                      ..+.+.  .-+...+..+..+|.+.|+.+++..+++++.+.. +-++.+.|.+...|... ++++|.+++.+....-+  
T Consensus       107 ~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i--  180 (906)
T PRK14720        107 DKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRFI--  180 (906)
T ss_pred             HHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHH--
Confidence            223221  2233577788999999999999999999999988 77899999999999999 99999999988876421  


Q ss_pred             chhhHHHHHHHHH-----hcCChHHHHHHHHHHHhC-CCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          194 NVVTYNIMIHGFC-----NDGQMDKAHDLFLDMEAK-GVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       194 ~~~~~~~l~~~~~-----~~g~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      +..-|+.+...+.     ...+++.-..+.+.+... |..--..++..+-..|...++|+++..+++.+.+.
T Consensus       181 ~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~  252 (906)
T PRK14720        181 KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEH  252 (906)
T ss_pred             hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhc
Confidence            1112222222111     122333444444444433 32333455566668888899999999999998764

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.82  E-value=9.8e-06  Score=65.34  Aligned_cols=245  Identities=10%  Similarity=0.055  Sum_probs=164.6

Q ss_pred             HHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 044047            9 DLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRP   88 (260)
Q Consensus         9 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   88 (260)
                      .++....+..++..|..+.-++...|+++.+.+.|++....- --....|+.+..++...|.-..|..+++........|
T Consensus       312 ~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~p  390 (799)
T KOG4162|consen  312 RKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQP  390 (799)
T ss_pred             HHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCC
Confidence            334444456789999999999999999999999999886542 3466789999999999999999999998876654334


Q ss_pred             CccchHHHH-HHH-hccccHHHHHHHHHHHhhc--C--CCcchhhHHHHHHHHHhc-----------CcHHHHHHHHHHh
Q 044047           89 TVVTYNTLF-HGL-FEIHQVEHALKLFDEMQHS--D--VAAETSTYNTFIDGLCKN-----------GYIVEAAELFRTL  151 (260)
Q Consensus        89 ~~~~~~~l~-~~~-~~~~~~~~a~~~~~~~~~~--~--~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~  151 (260)
                      +..+--.++ ..| .+.+..++++.+-.+....  +  -...+..+..+.-+|...           ....++.+.+++.
T Consensus       391 s~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~a  470 (799)
T KOG4162|consen  391 SDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEA  470 (799)
T ss_pred             CcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHH
Confidence            433332222 333 3456677777776666541  1  012334555555555432           2245577777777


Q ss_pred             hhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChh
Q 044047          152 RVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCV  231 (260)
Q Consensus       152 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  231 (260)
                      .+.+ +-|+.....+.--|+..++.+.|.+..++..+.+-..+...|..+.-.+...+++.+|+.+.+...+. ...|..
T Consensus       471 v~~d-~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E-~~~N~~  548 (799)
T KOG4162|consen  471 VQFD-PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEE-FGDNHV  548 (799)
T ss_pred             HhcC-CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH-hhhhhh
Confidence            7665 44555555566667888999999999999988865668899999999999999999999999887764 122222


Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          232 TFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       232 ~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      ....-+..-..-|+.+++......+
T Consensus       549 l~~~~~~i~~~~~~~e~~l~t~~~~  573 (799)
T KOG4162|consen  549 LMDGKIHIELTFNDREEALDTCIHK  573 (799)
T ss_pred             hchhhhhhhhhcccHHHHHHHHHHH
Confidence            2212222223356666655554444

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.82  E-value=7.4e-07  Score=64.01  Aligned_cols=194  Identities=14%  Similarity=0.170  Sum_probs=144.0

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHH-HHHH
Q 044047           56 VTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNT-FIDG  134 (260)
Q Consensus        56 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~  134 (260)
                      .-+.+.+..+++..+++.|++++..-.+...+ +......+..+|....++..|-..++++....  |...-|.. -...
T Consensus        11 Geftaviy~lI~d~ry~DaI~~l~s~~Er~p~-~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQS   87 (459)
T KOG4340|consen   11 GEFTAVVYRLIRDARYADAIQLLGSELERSPR-SRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQS   87 (459)
T ss_pred             CchHHHHHHHHHHhhHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHHH
Confidence            34667777788899999999999988887443 67778888899999999999999999997753  44444443 3566


Q ss_pred             HHhcCcHHHHHHHHHHhhhcCCCcCHHH--HHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChH
Q 044047          135 LCKNGYIVEAAELFRTLRVLKCELGIEA--YSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMD  212 (260)
Q Consensus       135 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  212 (260)
                      +.+.+.+.+|+++...|...   ++...  ...-....-..+++..+..++++....+   +..+.+.......+.|+++
T Consensus        88 LY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyE  161 (459)
T KOG4340|consen   88 LYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYE  161 (459)
T ss_pred             HHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHH
Confidence            77889999999999887643   22221  1111222345788888999988877543   4556666666677899999


Q ss_pred             HHHHHHHHHHhC-CCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhcC
Q 044047          213 KAHDLFLDMEAK-GVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDERN  260 (260)
Q Consensus       213 ~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  260 (260)
                      .|.+-|+...+. |..| ...|+ +.-+..+.|+++.|++...+++++|
T Consensus       162 aAvqkFqaAlqvsGyqp-llAYn-iALaHy~~~qyasALk~iSEIieRG  208 (459)
T KOG4340|consen  162 AAVQKFQAALQVSGYQP-LLAYN-LALAHYSSRQYASALKHISEIIERG  208 (459)
T ss_pred             HHHHHHHHHHhhcCCCc-hhHHH-HHHHHHhhhhHHHHHHHHHHHHHhh
Confidence            999999999876 4443 34454 4455668899999999999999886

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

Probab=98.79  E-value=7.2e-06  Score=62.81  Aligned_cols=121  Identities=16%  Similarity=0.069  Sum_probs=98.3

Q ss_pred             HHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHH
Q 044047           99 GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLET  178 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  178 (260)
                      .+...|+.++|+..++.+.... |.|+.........+...++.++|.+.++.+.... +......-++..++.+.|++.+
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~-P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALALD-PNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCccHHHHHHHHHHHhcCChHH
Confidence            4557789999999999988764 6777777888889999999999999999998764 3336667778899999999999


Q ss_pred             HHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047          179 AWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDME  222 (260)
Q Consensus       179 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  222 (260)
                      |..+++...... +-|+..|..|.++|...|+..++..-..+..
T Consensus       393 ai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~  435 (484)
T COG4783         393 AIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAEGY  435 (484)
T ss_pred             HHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            999999887764 3478899999999998888777766555544

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.79  E-value=1.4e-05  Score=56.20  Aligned_cols=84  Identities=17%  Similarity=0.114  Sum_probs=36.8

Q ss_pred             cccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHH
Q 044047          103 IHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL  182 (260)
Q Consensus       103 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  182 (260)
                      .|.+++|.++++.+.+.+ |.|..++.--+...-..|+..+|++-+....+. +..|...|.-+...|...|++++|.-.
T Consensus        99 ~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fC  176 (289)
T KOG3060|consen   99 TGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFC  176 (289)
T ss_pred             hhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHH
Confidence            344444444444444443 333334443333334444444444444443332 234444444444444444444444444


Q ss_pred             HHhhhh
Q 044047          183 FQSLPR  188 (260)
Q Consensus       183 ~~~~~~  188 (260)
                      ++++.-
T Consensus       177 lEE~ll  182 (289)
T KOG3060|consen  177 LEELLL  182 (289)
T ss_pred             HHHHHH
Confidence            444443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.79  E-value=1.3e-05  Score=56.80  Aligned_cols=156  Identities=16%  Similarity=0.083  Sum_probs=102.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHh
Q 044047           58 YNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCK  137 (260)
Q Consensus        58 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  137 (260)
                      ...-...|++.|++++|++......      +......=...+.+..+.+-|.+.+++|.+..   +..+.+.|..++.+
T Consensus       111 ~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~  181 (299)
T KOG3081|consen  111 LLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVK  181 (299)
T ss_pred             HHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHH
Confidence            3344556778888888888776621      23333333445567778888888888887643   44556655555543


Q ss_pred             ----cCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCCh-H
Q 044047          138 ----NGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQM-D  212 (260)
Q Consensus       138 ----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~  212 (260)
                          .+...+|.-+|+++-.+ .+|++.+.+-...++...|++++|..+++........ ++.+...++-+....|.. +
T Consensus       182 la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~  259 (299)
T KOG3081|consen  182 LATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAE  259 (299)
T ss_pred             HhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChH
Confidence                45677888888888764 3788888888888888888888888888888776533 455665555555555544 4


Q ss_pred             HHHHHHHHHHhC
Q 044047          213 KAHDLFLDMEAK  224 (260)
Q Consensus       213 ~a~~~~~~~~~~  224 (260)
                      ...+.+.++...
T Consensus       260 ~~~r~l~QLk~~  271 (299)
T KOG3081|consen  260 VTERNLSQLKLS  271 (299)
T ss_pred             HHHHHHHHHHhc
Confidence            445555666553

>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=98.78  E-value=1.5e-06  Score=66.48  Aligned_cols=123  Identities=18%  Similarity=0.224  Sum_probs=90.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhc
Q 044047           59 NTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKN  138 (260)
Q Consensus        59 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  138 (260)
                      ..++..+...++++.|+.+++++.+..  |  .....+++.+...++-.+|.+++++..+.. +.+......-...+...
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--p--ev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--P--EVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--C--cHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            455566666778888888888887763  3  344557777777777788888888877654 55666666667778888


Q ss_pred             CcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhh
Q 044047          139 GYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLP  187 (260)
Q Consensus       139 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  187 (260)
                      ++++.|+.+.+++.... |.+..+|..|..+|.+.|+++.|+..+..+.
T Consensus       248 ~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            88888888888887764 5556688888888888888888888777654

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

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.74  E-value=3e-05  Score=57.12  Aligned_cols=226  Identities=8%  Similarity=0.027  Sum_probs=134.7

Q ss_pred             HHHhccCCHHHHHHHHHHHhhcCCCC--chhh------------HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccch
Q 044047           28 DGFCLTGEIDRARELFVSMDINGCMH--NVVT------------YNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTY   93 (260)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   93 (260)
                      ..+.+.|.+++|..=|+...+.+...  ....            ....+..+...|+...|+.....+.+..+- +...+
T Consensus       114 ~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~W-da~l~  192 (504)
T KOG0624|consen  114 VVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPW-DASLR  192 (504)
T ss_pred             hhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcc-hhHHH
Confidence            34556666777776666666553111  0111            122333445556666666666666665332 55666


Q ss_pred             HHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHH----HHH---
Q 044047           94 NTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAY----SCL---  166 (260)
Q Consensus        94 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l---  166 (260)
                      ..-..+|...|.+..|+.=++...+.. ..+..++.-+-..+...|+.+.++...++..+.  .|+...+    ..+   
T Consensus       193 ~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv  269 (504)
T KOG0624|consen  193 QARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKV  269 (504)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHH
Confidence            666666777777777766666655543 344555556666666777777777777666654  2332211    111   


Q ss_pred             ------HHHHHhcCCHHHHHHHHHhhhhCCCCCc---hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-hhhHHHH
Q 044047          167 ------IDGLCKIGKLETAWELFQSLPRVGLMPN---VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPN-CVTFNTL  236 (260)
Q Consensus       167 ------~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l  236 (260)
                            +......++|.++.+-.+...+......   ...+..+-.++...|++.+|++...+.++.  .|+ ..++.--
T Consensus       270 ~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~--d~~dv~~l~dR  347 (504)
T KOG0624|consen  270 VKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDI--DPDDVQVLCDR  347 (504)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhc--CchHHHHHHHH
Confidence                  1222345566666666666555432211   223445556677788899999988888874  444 7777777


Q ss_pred             HHHHHhcCchhHHHHHHHHHhhc
Q 044047          237 MLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       237 ~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      ..+|.-...++.|+.-|+...+.
T Consensus       348 AeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  348 AEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHhc
Confidence            88888888888888888876653

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.74  E-value=2.2e-05  Score=58.07  Aligned_cols=117  Identities=12%  Similarity=0.158  Sum_probs=70.6

Q ss_pred             HhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhH-HHHHHHHHhcCChHHH
Q 044047          136 CKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTY-NIMIHGFCNDGQMDKA  214 (260)
Q Consensus       136 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~a  214 (260)
                      .-..++++++..++.+...-...|... ..+.++++..|++.+|.++|-.+....++ |..+| ..|.++|.+.+.++.|
T Consensus       370 FL~~qFddVl~YlnSi~sYF~NdD~Fn-~N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lA  447 (557)
T KOG3785|consen  370 FLSFQFDDVLTYLNSIESYFTNDDDFN-LNLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLA  447 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCcchhh-hHHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHH
Confidence            333445555555555444332223322 34677788888888888888777665444 44555 4566788888888888


Q ss_pred             HHHHHHHHhCCCCCChhhH-HHHHHHHHhcCchhHHHHHHHHHh
Q 044047          215 HDLFLDMEAKGVAPNCVTF-NTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       215 ~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      ++++-++..   +.+..+. ..+..-|.+.+.+--|-+.|+.+.
T Consensus       448 W~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE  488 (557)
T KOG3785|consen  448 WDMMLKTNT---PSERFSLLQLIANDCYKANEFYYAAKAFDELE  488 (557)
T ss_pred             HHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence            877665543   2233333 334466777777766666666554

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

Probab=98.69  E-value=3.8e-06  Score=55.77  Aligned_cols=124  Identities=13%  Similarity=0.064  Sum_probs=65.1

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcC---HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc--hhhHHHHH
Q 044047          128 YNTFIDGLCKNGYIVEAAELFRTLRVLKCELG---IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPN--VVTYNIMI  202 (260)
Q Consensus       128 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~  202 (260)
                      |..++..+ ..++...+...++.+.... +.+   ....-.+...+...|++++|...|+.+......|+  ......+.
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA   92 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLA   92 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHH
Confidence            33333333 3555566655566555443 222   12223344556666666666666666666542222  12333455


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHH
Q 044047          203 HGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHR  255 (260)
Q Consensus       203 ~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  255 (260)
                      ..+...|++++|+..++.....  ......+......+.+.|++++|+..|++
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            5666666666666666553322  22334445556666666666666666654

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

Probab=98.68  E-value=8.6e-05  Score=59.17  Aligned_cols=164  Identities=13%  Similarity=0.211  Sum_probs=86.5

Q ss_pred             hHHHHHHHhccccHHHHHHHHHHHhhcCCCcc---hhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCC------------
Q 044047           93 YNTLFHGLFEIHQVEHALKLFDEMQHSDVAAE---TSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCE------------  157 (260)
Q Consensus        93 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------------  157 (260)
                      |..+.+.|-..|+.+.|..+|++..+...+--   ..+|......-.+..+++.|+++.+......-.            
T Consensus       390 w~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pv  469 (835)
T KOG2047|consen  390 WVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPV  469 (835)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcH
Confidence            45566667777777788777777765443221   344555555555666777777777665322111            


Q ss_pred             -----cCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCC----------------------------------CCch-hh
Q 044047          158 -----LGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGL----------------------------------MPNV-VT  197 (260)
Q Consensus       158 -----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------------------------------~~~~-~~  197 (260)
                           -+...|+..+..--..|-++....+++.+.+..+                                  .|+. ..
T Consensus       470 Q~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~di  549 (835)
T KOG2047|consen  470 QARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDI  549 (835)
T ss_pred             HHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHH
Confidence                 1223444444444455666666666665544322                                  1221 23


Q ss_pred             HHHHHHHHHh---cCChHHHHHHHHHHHhCCCCCChhhHHHHHH--HHHhcCchhHHHHHHHHHh
Q 044047          198 YNIMIHGFCN---DGQMDKAHDLFLDMEAKGVAPNCVTFNTLML--GCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       198 ~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~--~~~~~~~~~~a~~~~~~m~  257 (260)
                      |+..+..+.+   ...++.|..+|++.++ |.+|...-+..|+-  .=-+.|....|+.++++.-
T Consensus       550 W~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat  613 (835)
T KOG2047|consen  550 WNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERAT  613 (835)
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            4443333332   2356777777777777 45554332222221  1123466667777776643

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.68  E-value=5.9e-05  Score=65.60  Aligned_cols=233  Identities=11%  Similarity=0.006  Sum_probs=150.1

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhcCCCCc----hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC---C--CccchHHH
Q 044047           26 LIDGFCLTGEIDRARELFVSMDINGCMHN----VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIR---P--TVVTYNTL   96 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~l   96 (260)
                      +...+...|++++|...++...+.-...+    ....+.+...+...|++++|...+++.......   +  ...+...+
T Consensus       458 ~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~l  537 (903)
T PRK04841        458 RAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQ  537 (903)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHH
Confidence            34556678999999999998765311112    134456667778899999999999887653111   1  12344556


Q ss_pred             HHHHhccccHHHHHHHHHHHhhc----CCC--c-chhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC--CCc--CHHHHHH
Q 044047           97 FHGLFEIHQVEHALKLFDEMQHS----DVA--A-ETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK--CEL--GIEAYSC  165 (260)
Q Consensus        97 ~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~  165 (260)
                      ...+...|+++.|...+++....    +..  + ....+..+...+...|++++|...+.......  ..+  ....+..
T Consensus       538 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  617 (903)
T PRK04841        538 SEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAM  617 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHH
Confidence            67788899999999998876442    211  1 22334455666778899999999988765421  111  2334555


Q ss_pred             HHHHHHhcCCHHHHHHHHHhhhhCCCCC-chhhH-----HHHHHHHHhcCChHHHHHHHHHHHhCCCCCC---hhhHHHH
Q 044047          166 LIDGLCKIGKLETAWELFQSLPRVGLMP-NVVTY-----NIMIHGFCNDGQMDKAHDLFLDMEAKGVAPN---CVTFNTL  236 (260)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~-----~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~---~~~~~~l  236 (260)
                      +...+...|+.+.|...+.......... ....+     ...+..+...|+.+.|...+...........   ...+..+
T Consensus       618 la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~  697 (903)
T PRK04841        618 LAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNI  697 (903)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHH
Confidence            6778889999999999988875421111 11111     1122444568999999999877654311111   1113456


Q ss_pred             HHHHHhcCchhHHHHHHHHHhh
Q 044047          237 MLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       237 ~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ..++...|++++|...+++..+
T Consensus       698 a~~~~~~g~~~~A~~~l~~al~  719 (903)
T PRK04841        698 ARAQILLGQFDEAEIILEELNE  719 (903)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Confidence            7788899999999999988654

>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=98.67  E-value=2.3e-06  Score=65.56  Aligned_cols=120  Identities=17%  Similarity=0.129  Sum_probs=61.1

Q ss_pred             HHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCC
Q 044047           96 LFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGK  175 (260)
Q Consensus        96 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  175 (260)
                      ++..+...++++.|..+++++.+..  |+  ....++..+...++..+|.+++++..... +-+...+..-...+.+.++
T Consensus       175 Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~  249 (395)
T PF09295_consen  175 LLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKK  249 (395)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence            3344444555555555555555443  22  22334455555555555555555555332 3344444444555555555


Q ss_pred             HHHHHHHHHhhhhCCCCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047          176 LETAWELFQSLPRVGLMPN-VVTYNIMIHGFCNDGQMDKAHDLFLDME  222 (260)
Q Consensus       176 ~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~  222 (260)
                      .+.|..+.+++.+..  |+ ..+|..|..+|...|+++.|+..++.+.
T Consensus       250 ~~lAL~iAk~av~ls--P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  250 YELALEIAKKAVELS--PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHHHHHHHHhC--chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            555555555555532  22 3455555555555555555555555443

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

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

Probab=98.65  E-value=1e-05  Score=66.12  Aligned_cols=210  Identities=18%  Similarity=0.154  Sum_probs=110.3

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhc-C-------C-CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDIN-G-------C-MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT   89 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-------~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   89 (260)
                      +..+|..+...|.+..+++-|.-.+-.|... |       . .++ .+=....-..+..|.+++|+.+|.+-.+      
T Consensus       756 S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR------  828 (1416)
T KOG3617|consen  756 SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR------  828 (1416)
T ss_pred             hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH------
Confidence            4456666777777666666655544444211 0       0 111 2222222333455666777766666544      


Q ss_pred             ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhh----------hcC----
Q 044047           90 VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLR----------VLK----  155 (260)
Q Consensus        90 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----------~~~----  155 (260)
                         |..|-+.|...|.|++|.++-+.--+..+   ..||.....-+-..++.+.|++.|++..          ...    
T Consensus       829 ---~DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~  902 (1416)
T KOG3617|consen  829 ---YDLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQI  902 (1416)
T ss_pred             ---HHHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHH
Confidence               23344556666777777666554322221   2356666666667777777777776531          110    


Q ss_pred             -----CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCh
Q 044047          156 -----CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNC  230 (260)
Q Consensus       156 -----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  230 (260)
                           ...|+..|......+-..|+.+.|+.++....+         |-++++..|-.|+.++|-++-++-.      |.
T Consensus       903 e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~esg------d~  967 (1416)
T KOG3617|consen  903 EQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEESG------DK  967 (1416)
T ss_pred             HHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhcc------cH
Confidence                 123555667777777778888888888776543         2334444444455555544433211      22


Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          231 VTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       231 ~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      .....|.+.|-..|++.+|..+|-+.
T Consensus       968 AAcYhlaR~YEn~g~v~~Av~FfTrA  993 (1416)
T KOG3617|consen  968 AACYHLARMYENDGDVVKAVKFFTRA  993 (1416)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            33334445555555555555555443

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

Probab=98.65  E-value=4.7e-06  Score=55.33  Aligned_cols=125  Identities=14%  Similarity=0.151  Sum_probs=54.8

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCc---hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--ccchHHH
Q 044047           22 VYSTLIDGFCLTGEIDRARELFVSMDINGCMHN---VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT--VVTYNTL   96 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l   96 (260)
                      .|..++..+ ..++...+...++.+.... +.+   ....-.+...+...|++++|...|+........|+  ......+
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            344444443 2455555555555554432 222   12222333445555555555555555555432211  1122234


Q ss_pred             HHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHH
Q 044047           97 FHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRT  150 (260)
Q Consensus        97 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  150 (260)
                      ...+...|++++|+..++.....  ......+.....++...|++++|...|+.
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            44445555555555555442221  12233344444555555555555555443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.65  E-value=4.4e-05  Score=53.80  Aligned_cols=185  Identities=15%  Similarity=0.125  Sum_probs=137.3

Q ss_pred             hhHHHHHHHHHHc---C-CCccH-HHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHH
Q 044047            2 DEASRLLDLMIQR---G-VRPNA-FVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLN   76 (260)
Q Consensus         2 ~~a~~~~~~~~~~---~-~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   76 (260)
                      ++.++++..+...   | ..++. ..|..++-+....|+.+.|...++.+...- |-+..+-..-...+-..|++++|++
T Consensus        29 eevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~~A~e  107 (289)
T KOG3060|consen   29 EEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYKEAIE  107 (289)
T ss_pred             HHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchhhHHH
Confidence            4566666666542   3 44454 366777778888999999999999987763 4344443333444556789999999


Q ss_pred             HHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCC
Q 044047           77 LYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKC  156 (260)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  156 (260)
                      +++.+.+.++ .|..++-.-+-..-..|+.-+|++-+....+. +..|...|.-+...|...|++++|.-.++++.-.. 
T Consensus       108 ~y~~lL~ddp-t~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~-  184 (289)
T KOG3060|consen  108 YYESLLEDDP-TDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQ-  184 (289)
T ss_pred             HHHHHhccCc-chhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcC-
Confidence            9999998863 36666766666666677777888888887776 47899999999999999999999999999998764 


Q ss_pred             CcCHHHHHHHHHHHHhcC---CHHHHHHHHHhhhhCC
Q 044047          157 ELGIEAYSCLIDGLCKIG---KLETAWELFQSLPRVG  190 (260)
Q Consensus       157 ~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~  190 (260)
                      |.++..+..+...+.-.|   +.+.+.+.|.+..+..
T Consensus       185 P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  185 PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            556666666666554444   6778899999888753

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.63  E-value=1.8e-06  Score=66.48  Aligned_cols=119  Identities=13%  Similarity=0.081  Sum_probs=66.4

Q ss_pred             CCccchHHHHHHHhccccHHHHHHHHHHHhhc--CCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHH
Q 044047           88 PTVVTYNTLFHGLFEIHQVEHALKLFDEMQHS--DVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSC  165 (260)
Q Consensus        88 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  165 (260)
                      .+......++..+....+.+.+..++.+++..  ....-..|..++++.|...|..+.+..+++.=...|+-||..+++.
T Consensus        64 vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~  143 (429)
T PF10037_consen   64 VSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNL  143 (429)
T ss_pred             CcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHH
Confidence            34455555555555555666666666555443  1112233445666666666666666666666666666666666666


Q ss_pred             HHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHH
Q 044047          166 LIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFC  206 (260)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  206 (260)
                      ++..+.+.|++..|.++...|...+...+..|+...+.+|.
T Consensus       144 Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~  184 (429)
T PF10037_consen  144 LMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCY  184 (429)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHH
Confidence            66666666666666666666555554444444444444333

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 [].

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

Probab=98.62  E-value=0.00014  Score=58.01  Aligned_cols=201  Identities=13%  Similarity=0.132  Sum_probs=133.6

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCc---hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC---------
Q 044047           21 FVYSTLIDGFCLTGEIDRARELFVSMDINGCMHN---VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRP---------   88 (260)
Q Consensus        21 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------   88 (260)
                      ..|..+...|-..|+++.|..+|++..+-..+.-   ..+|.....+=.+..+++.|+++++......-.|         
T Consensus       388 ~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~  467 (835)
T KOG2047|consen  388 TLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSE  467 (835)
T ss_pred             hHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCC
Confidence            4678888999999999999999999887654432   5677777788888899999999998876431111         


Q ss_pred             --------CccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCH
Q 044047           89 --------TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGI  160 (260)
Q Consensus        89 --------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  160 (260)
                              +...|...+..--..|-++....+|+.+.+..+ .++.........+-.+..++++.+++++-+..-..|+.
T Consensus       468 pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLri-aTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v  546 (835)
T KOG2047|consen  468 PVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRI-ATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNV  546 (835)
T ss_pred             cHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccH
Confidence                    122344455555566778888888888887764 34444445555566777888899888876655434543


Q ss_pred             -HHHHHHHHHHHh---cCCHHHHHHHHHhhhhCCCCCchhhHHHH--HHHHHhcCChHHHHHHHHHHHh
Q 044047          161 -EAYSCLIDGLCK---IGKLETAWELFQSLPRVGLMPNVVTYNIM--IHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       161 -~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                       ..|+..+.-+.+   ...++.|..+|++..+ |.+|...-+-.|  ...=.+.|-...|..++++...
T Consensus       547 ~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~  614 (835)
T KOG2047|consen  547 YDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS  614 (835)
T ss_pred             HHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence             355555444332   2368899999999888 555543222111  2222246777778888777544

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.60  E-value=1.4e-05  Score=59.00  Aligned_cols=199  Identities=13%  Similarity=0.140  Sum_probs=129.3

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcC-------ChHHHHHHHHHHHhcCCCCCccc-hHHH
Q 044047           25 TLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTK-------DVEESLNLYSEMLSKGIRPTVVT-YNTL   96 (260)
Q Consensus        25 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~-~~~l   96 (260)
                      .|+--|.+++++++|..+..++.    |.++.-|..-.-..+..|       ...-|.+.|+-.-+++..-|+.. -.++
T Consensus       290 NL~iYyL~q~dVqeA~~L~Kdl~----PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsm  365 (557)
T KOG3785|consen  290 NLIIYYLNQNDVQEAISLCKDLD----PTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSM  365 (557)
T ss_pred             hheeeecccccHHHHHHHHhhcC----CCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHH
Confidence            45666889999999999887765    333333322222223333       24455556655444444433332 3455


Q ss_pred             HHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCH
Q 044047           97 FHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKL  176 (260)
Q Consensus        97 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  176 (260)
                      .+.+.-..++++++-++..+..-- ..|...-..+.++++..|++.+|+++|-.+....++.+..-.+.+.++|.+.+++
T Consensus       366 As~fFL~~qFddVl~YlnSi~sYF-~NdD~Fn~N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP  444 (557)
T KOG3785|consen  366 ASYFFLSFQFDDVLTYLNSIESYF-TNDDDFNLNLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKP  444 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHh-cCcchhhhHHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCc
Confidence            666667778999999888887654 3333344468899999999999999998776554443333345677899999999


Q ss_pred             HHHHHHHHhhhhCCCCCchhhH-HHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhH
Q 044047          177 ETAWELFQSLPRVGLMPNVVTY-NIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTF  233 (260)
Q Consensus       177 ~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  233 (260)
                      +.|+.++-.+...   .+..+. ..+..-|-+.+++--|.+.|+.+...  .|++.-|
T Consensus       445 ~lAW~~~lk~~t~---~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l--DP~pEnW  497 (557)
T KOG3785|consen  445 QLAWDMMLKTNTP---SERFSLLQLIANDCYKANEFYYAAKAFDELEIL--DPTPENW  497 (557)
T ss_pred             hHHHHHHHhcCCc---hhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHcc--CCCcccc
Confidence            9999988665542   233333 34456677888888888888888764  4554443

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.60  E-value=2.2e-06  Score=66.08  Aligned_cols=124  Identities=15%  Similarity=0.161  Sum_probs=103.4

Q ss_pred             CCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhc--CCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccc
Q 044047           15 GVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDIN--GCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVT   92 (260)
Q Consensus        15 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   92 (260)
                      +.+.+......+++.+....+++.+..++......  ....-..|.+++++.|.+.|..+.++.++..=..-|+-||..+
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            44567778888889888888999999998888765  2223456677999999999999999999999999999999999


Q ss_pred             hHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhc
Q 044047           93 YNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKN  138 (260)
Q Consensus        93 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  138 (260)
                      ++.|+..+.+.|++..|.++...|...+...+..++...+.+|.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999999999999987777677777777766666655

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 [].

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.59  E-value=1.5e-07  Score=45.71  Aligned_cols=33  Identities=61%  Similarity=1.075  Sum_probs=17.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC
Q 044047           57 TYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT   89 (260)
Q Consensus        57 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   89 (260)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            345555555555555555555555555555444

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.

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.57  E-value=3.4e-05  Score=64.51  Aligned_cols=182  Identities=10%  Similarity=0.090  Sum_probs=110.8

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHH
Q 044047           54 NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFID  133 (260)
Q Consensus        54 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  133 (260)
                      .+..|..+..+-.+.|...+|++-|-+.      -|+..|..++....+.|.+++..+++...++....|...  +.++-
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~ 1174 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIF 1174 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHH
Confidence            4566888888888888888777766432      266778888888888888888888887777665555433  46777


Q ss_pred             HHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC--------------------CCC
Q 044047          134 GLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVG--------------------LMP  193 (260)
Q Consensus       134 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------------------~~~  193 (260)
                      +|++.++..+.++++.       .|+......+..-|...+.++.|.-++.......                    -..
T Consensus      1175 AyAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKAn 1247 (1666)
T KOG0985|consen 1175 AYAKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKAN 1247 (1666)
T ss_pred             HHHHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            8888887777665542       3444444444555555555555444443211100                    001


Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHH
Q 044047          194 NVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHR  255 (260)
Q Consensus       194 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  255 (260)
                      +..+|..+-.+|...+.+.-|     +|...++.....-..-++.-|...|-+++.+.+++.
T Consensus      1248 s~ktWK~VcfaCvd~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea 1304 (1666)
T KOG0985|consen 1248 STKTWKEVCFACVDKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLEA 1304 (1666)
T ss_pred             chhHHHHHHHHHhchhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHh
Confidence            344555555555554444332     223333334555567788888888888888877764

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.57  E-value=1.4e-07  Score=45.76  Aligned_cols=33  Identities=39%  Similarity=0.943  Sum_probs=22.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 044047          197 TYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPN  229 (260)
Q Consensus       197 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  229 (260)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            566667777777777777777777766666665

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

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

Probab=98.57  E-value=7.2e-05  Score=58.87  Aligned_cols=218  Identities=12%  Similarity=0.045  Sum_probs=138.8

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcccc
Q 044047           26 LIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQ  105 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  105 (260)
                      =++.+...|++++|.....++...+ |.+...+..-+-++++.+.+++|+.+.+.-...  ..+..-+-.-.-+..+.+.
T Consensus        18 ~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk   94 (652)
T KOG2376|consen   18 DLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNK   94 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHccc
Confidence            4667788899999999999998876 677788888888999999999999666543221  1111111122334457899


Q ss_pred             HHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHH--HHHHHHHHHHhcCCHHHHHHHH
Q 044047          106 VEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIE--AYSCLIDGLCKIGKLETAWELF  183 (260)
Q Consensus       106 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~  183 (260)
                      .++|+..++.+.    +.+..+...-...+.+.|++++|..+|+.+.+.+. ++..  .-..++.+-.    ...+. +.
T Consensus        95 ~Dealk~~~~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~-dd~d~~~r~nl~a~~a----~l~~~-~~  164 (652)
T KOG2376|consen   95 LDEALKTLKGLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNS-DDQDEERRANLLAVAA----ALQVQ-LL  164 (652)
T ss_pred             HHHHHHHHhccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-chHHHHHHHHHHHHHH----hhhHH-HH
Confidence            999999988332    22334666667888999999999999999987663 3322  2222222111    11111 12


Q ss_pred             HhhhhCCCCCchhhHH---HHHHHHHhcCChHHHHHHHHHHHhC-------CCCCCh------h-hHHHHHHHHHhcCch
Q 044047          184 QSLPRVGLMPNVVTYN---IMIHGFCNDGQMDKAHDLFLDMEAK-------GVAPNC------V-TFNTLMLGCIRNNET  246 (260)
Q Consensus       184 ~~~~~~~~~~~~~~~~---~l~~~~~~~g~~~~a~~~~~~~~~~-------~~~p~~------~-~~~~l~~~~~~~~~~  246 (260)
                      +   .....| ..+|.   .....+...|++.+|++++......       +-.-+.      . .-..+.-++...|+.
T Consensus       165 q---~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt  240 (652)
T KOG2376|consen  165 Q---SVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQT  240 (652)
T ss_pred             H---hccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcch
Confidence            2   222223 23443   3445566899999999999988221       111111      1 112345566788999


Q ss_pred             hHHHHHHHHHhhcC
Q 044047          247 SKVVELLHRMDERN  260 (260)
Q Consensus       247 ~~a~~~~~~m~~~~  260 (260)
                      ++|.+++...+.++
T Consensus       241 ~ea~~iy~~~i~~~  254 (652)
T KOG2376|consen  241 AEASSIYVDIIKRN  254 (652)
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999998887653

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

Probab=98.56  E-value=0.00014  Score=57.40  Aligned_cols=216  Identities=11%  Similarity=0.118  Sum_probs=134.2

Q ss_pred             ChhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHH
Q 044047            1 MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSE   80 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   80 (260)
                      +++|++....+...+ +.+...+..-+-++.+.+++++|+.+.+.-...  ..+...+-.=..+..+.+..++|+..++ 
T Consensus        28 ~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~Dealk~~~-  103 (652)
T KOG2376|consen   28 YEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKLDEALKTLK-  103 (652)
T ss_pred             HHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccHHHHHHHHh-
Confidence            367888888888776 567778888888999999999999666543221  1111111233456678899999999998 


Q ss_pred             HHhcCCCCC-ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcch-hhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCc
Q 044047           81 MLSKGIRPT-VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAET-STYNTFIDGLCKNGYIVEAAELFRTLRVLKCEL  158 (260)
Q Consensus        81 ~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  158 (260)
                          |..++ ..+...-...+.+.+++++|+.+|+.+.+.+.+... ..-..++.+-.    -..+. +.+...... ..
T Consensus       104 ----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a----~l~~~-~~q~v~~v~-e~  173 (652)
T KOG2376|consen  104 ----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAA----ALQVQ-LLQSVPEVP-ED  173 (652)
T ss_pred             ----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH----hhhHH-HHHhccCCC-cc
Confidence                33333 336666677888999999999999999887643211 11112221111    11111 222222211 22


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC-------------CCCch-hhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          159 GIEAYSCLIDGLCKIGKLETAWELFQSLPRVG-------------LMPNV-VTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------------~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      +-..+......+...|++.+|+++++...+.+             +.-.. ..-..+.-++...|+.++|..++......
T Consensus       174 syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~  253 (652)
T KOG2376|consen  174 SYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKR  253 (652)
T ss_pred             hHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh
Confidence            33344455667788999999999998883221             00001 11233445666899999999999999887


Q ss_pred             CCCCChh
Q 044047          225 GVAPNCV  231 (260)
Q Consensus       225 ~~~p~~~  231 (260)
                      . ++|..
T Consensus       254 ~-~~D~~  259 (652)
T KOG2376|consen  254 N-PADEP  259 (652)
T ss_pred             c-CCCch
Confidence            4 44543

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

Probab=98.54  E-value=0.00029  Score=58.21  Aligned_cols=216  Identities=17%  Similarity=0.148  Sum_probs=112.7

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHH--HhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHH
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDG--FCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSE   80 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   80 (260)
                      +|+...+.+.++.  |+.. |..++.+  +.+.|+.++|..+++.....+ +.|..|...+-.+|...++.++|..+|++
T Consensus        27 kal~~~~kllkk~--Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~-~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~  102 (932)
T KOG2053|consen   27 KALAKLGKLLKKH--PNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLK-GTDDLTLQFLQNVYRDLGKLDEAVHLYER  102 (932)
T ss_pred             HHHHHHHHHHHHC--CCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCC-CCchHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            4555555555542  2222 2222222  346677777776666655444 33667777777777777777777777777


Q ss_pred             HHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCc----------HHHHHHHHHH
Q 044047           81 MLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGY----------IVEAAELFRT  150 (260)
Q Consensus        81 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~  150 (260)
                      ....  .|+......+..+|.+.+.+.+-.+.=-++.+. .+-....|-++++.....-.          ..-|.+.++.
T Consensus       103 ~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~  179 (932)
T KOG2053|consen  103 ANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQK  179 (932)
T ss_pred             HHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHH
Confidence            7654  345555555666666666554433333333222 24444455555554433211          1224444444


Q ss_pred             hhhcC-CCcCHHHHHHHHHHHHhcCCHHHHHHHHH-hhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 044047          151 LRVLK-CELGIEAYSCLIDGLCKIGKLETAWELFQ-SLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKG  225 (260)
Q Consensus       151 ~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  225 (260)
                      +.+.+ .-.+..-.......+...|++++|+.++. ...+.-..-+...-+.-+..+...+++.+..++-.++...|
T Consensus       180 ~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  180 LLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            44433 11111112222333455667777777773 22222222233334455566667777777777777777664

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.53  E-value=7.7e-05  Score=57.98  Aligned_cols=205  Identities=13%  Similarity=0.074  Sum_probs=121.3

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHH-------
Q 044047           23 YSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNT-------   95 (260)
Q Consensus        23 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------   95 (260)
                      ...+.+...+..+++.|++.+.......  .+..-++....+|...|.+..+...-.+..+.|-. ...-|+.       
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r  303 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALAR  303 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHH
Confidence            4456666667777777777777766654  34455566666777777777666666665555433 2222332       


Q ss_pred             HHHHHhccccHHHHHHHHHHHhhcCCCcchhh-------------------------HHHHHHHHHhcCcHHHHHHHHHH
Q 044047           96 LFHGLFEIHQVEHALKLFDEMQHSDVAAETST-------------------------YNTFIDGLCKNGYIVEAAELFRT  150 (260)
Q Consensus        96 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------------------------~~~l~~~~~~~~~~~~a~~~~~~  150 (260)
                      +..+|.+.++.+.++..|.+.......|+...                         ...-...+.+.|++..|.+.|.+
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~Yte  383 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTE  383 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHH
Confidence            22344555666777777766544332222111                         11224445567777777777777


Q ss_pred             hhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCh
Q 044047          151 LRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNC  230 (260)
Q Consensus       151 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  230 (260)
                      ++... |.|...|+...-+|.+.|.+..|++=.+...+.. ++....|..=..++....++++|.+.|.+.++.  .|+.
T Consensus       384 AIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale~--dp~~  459 (539)
T KOG0548|consen  384 AIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALEL--DPSN  459 (539)
T ss_pred             HHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--Cchh
Confidence            77665 6667777777777777777777777666666652 122344444455555566777777777777664  3444


Q ss_pred             hhHH
Q 044047          231 VTFN  234 (260)
Q Consensus       231 ~~~~  234 (260)
                      .-+.
T Consensus       460 ~e~~  463 (539)
T KOG0548|consen  460 AEAI  463 (539)
T ss_pred             HHHH
Confidence            3333

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.53  E-value=2.4e-07  Score=44.61  Aligned_cols=31  Identities=35%  Similarity=0.709  Sum_probs=14.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 044047           57 TYNTLINGYCKTKDVEESLNLYSEMLSKGIR   87 (260)
Q Consensus        57 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   87 (260)
                      +|+.++.+|++.|+++.|.++|++|.+.|++
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~   33 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVK   33 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            3444444444444444444444444444443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.53  E-value=8.3e-06  Score=52.05  Aligned_cols=99  Identities=12%  Similarity=0.001  Sum_probs=58.8

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHhhcCC--CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC--CccchHHHH
Q 044047           22 VYSTLIDGFCLTGEIDRARELFVSMDINGC--MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRP--TVVTYNTLF   97 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~   97 (260)
                      ++..++..+.+.|++++|...|+.+.....  +.....+..+..++.+.|+++.|...++++.......  ....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            445566666667777777777776655421  1113345556666777777777777777666542221  133455556


Q ss_pred             HHHhccccHHHHHHHHHHHhhcC
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSD  120 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~  120 (260)
                      .++...|+.++|...++++.+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHC
Confidence            66666677777777777666653

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.

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.52  E-value=6e-05  Score=63.13  Aligned_cols=204  Identities=11%  Similarity=0.105  Sum_probs=137.6

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      .+..|..+..+-.+.|.+.+|.+-|-+.      .|+..|..++....+.|.+++-.+.+...++..-.|...  ..|+-
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~ 1174 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIF 1174 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHH
Confidence            4667888888888889888888766432      377889999999999999999999998877775555444  57888


Q ss_pred             HHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC--------------------CCc
Q 044047           99 GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK--------------------CEL  158 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------------------~~~  158 (260)
                      +|++.++..+...++       .-|+......+..-|...+.++.|.-++.......                    -..
T Consensus      1175 AyAkt~rl~elE~fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKAn 1247 (1666)
T KOG0985|consen 1175 AYAKTNRLTELEEFI-------AGPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKAN 1247 (1666)
T ss_pred             HHHHhchHHHHHHHh-------cCCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999999988766654       13555555666666666666666655554322100                    012


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 044047          159 GIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLML  238 (260)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  238 (260)
                      +..+|..+..+|...+.+.-|     +|...++.....-...++..|...|.+++.+.+++..+.. -+.....|+-|..
T Consensus      1248 s~ktWK~VcfaCvd~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGL-ERAHMgmfTELai 1321 (1666)
T KOG0985|consen 1248 STKTWKEVCFACVDKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGL-ERAHMGMFTELAI 1321 (1666)
T ss_pred             chhHHHHHHHHHhchhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhch-hHHHHHHHHHHHH
Confidence            334455555555444443322     2333333345566788999999999999999998876643 1345667777877


Q ss_pred             HHHhc
Q 044047          239 GCIRN  243 (260)
Q Consensus       239 ~~~~~  243 (260)
                      .|.+-
T Consensus      1322 LYsky 1326 (1666)
T KOG0985|consen 1322 LYSKY 1326 (1666)
T ss_pred             HHHhc
Confidence            77664

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.51  E-value=2.7e-07  Score=44.45  Aligned_cols=33  Identities=36%  Similarity=0.636  Sum_probs=20.0

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 044047          196 VTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAP  228 (260)
Q Consensus       196 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  228 (260)
                      .+|+.++.+|.+.|+++.|.++|++|.+.|+.|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            356666666666666666666666666665554

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.50  E-value=0.00026  Score=55.20  Aligned_cols=184  Identities=17%  Similarity=0.168  Sum_probs=136.0

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHH-------HHHhcCChHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLIN-------GYCKTKDVEES   74 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-------~~~~~~~~~~a   74 (260)
                      +.|++-++...+..  -+..-++....++...|.+.+......+..+.| .-...-|+.+..       ++.+.++++.+
T Consensus       241 ~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~g-re~rad~klIak~~~r~g~a~~k~~~~~~a  317 (539)
T KOG0548|consen  241 ETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVG-RELRADYKLIAKALARLGNAYTKREDYEGA  317 (539)
T ss_pred             HHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHh-HHHHHHHHHHHHHHHHhhhhhhhHHhHHHH
Confidence            34566666666654  466677788888999999998888888777665 223334444333       45556788899


Q ss_pred             HHHHHHHHhcCCCCCccch-------------------------HHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHH
Q 044047           75 LNLYSEMLSKGIRPTVVTY-------------------------NTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYN  129 (260)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~-------------------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  129 (260)
                      +..|.+.......|+...-                         ..-...+.+.|++..|+..|.++++.. |.|...|.
T Consensus       318 i~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYs  396 (539)
T KOG0548|consen  318 IKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYS  396 (539)
T ss_pred             HHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHH
Confidence            9998887665444333221                         112344667899999999999999987 88899999


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC
Q 044047          130 TFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVG  190 (260)
Q Consensus       130 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  190 (260)
                      .-..+|.+.|.+..|++-.+...+.. ++....|.-=..++....++++|.+.|.+..+..
T Consensus       397 NRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  397 NRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            99999999999999999988888774 5555566666667777789999999999998864

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.49  E-value=2.6e-06  Score=52.05  Aligned_cols=79  Identities=23%  Similarity=0.427  Sum_probs=53.7

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHhhcCC-CCchhhHHHHHHHHHhcC--------ChHHHHHHHHHHHhcCCCCCccchH
Q 044047           24 STLIDGFCLTGEIDRARELFVSMDINGC-MHNVVTYNTLINGYCKTK--------DVEESLNLYSEMLSKGIRPTVVTYN   94 (260)
Q Consensus        24 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~   94 (260)
                      ...|..+...+++.....+|+.+++.|+ -|+..+|+.++.+.++..        +....+.+|+.|...+++|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3445556666777777777777777777 677777877777766543        2335566777777777777777777


Q ss_pred             HHHHHHhc
Q 044047           95 TLFHGLFE  102 (260)
Q Consensus        95 ~l~~~~~~  102 (260)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            77666543

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.48  E-value=1.1e-05  Score=53.07  Aligned_cols=94  Identities=14%  Similarity=0.035  Sum_probs=53.7

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhc
Q 044047           23 YSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFE  102 (260)
Q Consensus        23 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  102 (260)
                      .-.+...+...|++++|..+|+.+...+ +.+..-|-.|..++-..|++++|+..|.......+. ++..+-.+..++..
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c~L~  115 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAECYLA  115 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHH
Confidence            3334444555666666666666655554 445555555666666666666666666665555432 55555556666666


Q ss_pred             cccHHHHHHHHHHHhh
Q 044047          103 IHQVEHALKLFDEMQH  118 (260)
Q Consensus       103 ~~~~~~a~~~~~~~~~  118 (260)
                      .|+.+.|.+.|+..+.
T Consensus       116 lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        116 CDNVCYAIKALKAVVR  131 (157)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            6666666666655443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.47  E-value=5.7e-05  Score=63.03  Aligned_cols=217  Identities=11%  Similarity=0.029  Sum_probs=148.8

Q ss_pred             CHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHH
Q 044047           35 EIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFD  114 (260)
Q Consensus        35 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  114 (260)
                      +...|...|-+..+.. +.-...|..|...|....|...|.+.|++..+.... +..........|+...+++.|..+.-
T Consensus       473 ~~~~al~ali~alrld-~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~l  550 (1238)
T KOG1127|consen  473 NSALALHALIRALRLD-VSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEICL  550 (1238)
T ss_pred             hHHHHHHHHHHHHhcc-cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHHH
Confidence            3566666666655554 334567888888888888889999999998876433 67778888899999999999988843


Q ss_pred             HHhhcC-CCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCC
Q 044047          115 EMQHSD-VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMP  193 (260)
Q Consensus       115 ~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  193 (260)
                      ..-+.. ...-...|....-.|...++..++...|+...... |.|...|..+..+|..+|++..|.++|.++...  .|
T Consensus       551 ~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP  627 (1238)
T KOG1127|consen  551 RAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RP  627 (1238)
T ss_pred             HHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--Cc
Confidence            322221 00112223345556778889999999998888765 668889999999999999999999999988875  34


Q ss_pred             chhhHHHH--HHHHHhcCChHHHHHHHHHHHhC------CCCCChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          194 NVVTYNIM--IHGFCNDGQMDKAHDLFLDMEAK------GVAPNCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       194 ~~~~~~~l--~~~~~~~g~~~~a~~~~~~~~~~------~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      + ..|...  .-..+..|.+.+|...+......      +...-..++..+...+...|-..++..++++-+
T Consensus       628 ~-s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksi  698 (1238)
T KOG1127|consen  628 L-SKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSI  698 (1238)
T ss_pred             H-hHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            3 233222  23345688999998888877542      112234455555555556666666666666544

>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=98.47  E-value=5.9e-06  Score=50.12  Aligned_cols=94  Identities=21%  Similarity=0.254  Sum_probs=50.2

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhc
Q 044047           23 YSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFE  102 (260)
Q Consensus        23 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  102 (260)
                      +..+...+...|++++|...++...+.. +.+...+..+..++...+++++|.+.++........ +..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPD-NAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-chhHHHHHHHHHHH
Confidence            3344555555666666666666655443 333345555555566666666666666655554322 23344555555555


Q ss_pred             cccHHHHHHHHHHHhh
Q 044047          103 IHQVEHALKLFDEMQH  118 (260)
Q Consensus       103 ~~~~~~a~~~~~~~~~  118 (260)
                      .|+++.|...+....+
T Consensus        81 ~~~~~~a~~~~~~~~~   96 (100)
T cd00189          81 LGKYEEALEAYEKALE   96 (100)
T ss_pred             HHhHHHHHHHHHHHHc
Confidence            5555555555555443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.45  E-value=2e-05  Score=58.33  Aligned_cols=129  Identities=16%  Similarity=0.152  Sum_probs=61.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHH-HhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHH
Q 044047           57 TYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHG-LFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGL  135 (260)
Q Consensus        57 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  135 (260)
                      +|..+++..-+.+..+.|..+|.+..+.+ ..+..+|...... +...++.+.|.++|+...+. .+.+...|...+..+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            45555555555555566666666555332 1123333333333 22234444456666555544 344555555555555


Q ss_pred             HhcCcHHHHHHHHHHhhhcCCCcC---HHHHHHHHHHHHhcCCHHHHHHHHHhhhh
Q 044047          136 CKNGYIVEAAELFRTLRVLKCELG---IEAYSCLIDGLCKIGKLETAWELFQSLPR  188 (260)
Q Consensus       136 ~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (260)
                      ...++.+.|..+|++.... ++++   ...|...+..-.+.|+.+.+.++.+++.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5556666666666555543 1211   13555555555555555555555555554

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=98.43  E-value=8.1e-06  Score=49.49  Aligned_cols=24  Identities=13%  Similarity=0.249  Sum_probs=9.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHH
Q 044047          198 YNIMIHGFCNDGQMDKAHDLFLDM  221 (260)
Q Consensus       198 ~~~l~~~~~~~g~~~~a~~~~~~~  221 (260)
                      +..+...+...|++++|...+...
T Consensus        71 ~~~~~~~~~~~~~~~~a~~~~~~~   94 (100)
T cd00189          71 YYNLGLAYYKLGKYEEALEAYEKA   94 (100)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHH
Confidence            333333444444444444444333

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.42  E-value=3.2e-05  Score=49.31  Aligned_cols=98  Identities=14%  Similarity=0.038  Sum_probs=55.5

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHhhhcCC--CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC--CchhhHHHHH
Q 044047          127 TYNTFIDGLCKNGYIVEAAELFRTLRVLKC--ELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM--PNVVTYNIMI  202 (260)
Q Consensus       127 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~  202 (260)
                      ++..++..+...|++++|.+.+..+.....  +.....+..+..++.+.|+++.|...++.+......  ....++..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344555556666666666666666654321  111334555666666666666666666666553211  1134455556


Q ss_pred             HHHHhcCChHHHHHHHHHHHhC
Q 044047          203 HGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       203 ~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      .++...|++++|...++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            6666666666666666666664

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.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.41  E-value=1.8e-05  Score=58.65  Aligned_cols=145  Identities=13%  Similarity=0.089  Sum_probs=109.2

Q ss_pred             cchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHh-cCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHH
Q 044047           91 VTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCK-NGYIVEAAELFRTLRVLKCELGIEAYSCLIDG  169 (260)
Q Consensus        91 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  169 (260)
                      .+|..+++...+.+..+.|..+|.+..+.+ ..+..+|......-.. .++.+.|.++|+...+. ++.+...|...+..
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            468889999999999999999999998654 4455666666666334 67777799999998865 47788889999999


Q ss_pred             HHhcCCHHHHHHHHHhhhhCCCCCch---hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 044047          170 LCKIGKLETAWELFQSLPRVGLMPNV---VTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGC  240 (260)
Q Consensus       170 ~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  240 (260)
                      +...++.+.|..+|++.... +.++.   ..|...+..=.+.|+.+.+..+.+++.+.  .|+...+..++.-|
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~ry  150 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDRY  150 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCCT
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHHh
Confidence            99999999999999998876 33222   48888898888999999999999999885  45545444444433

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.39  E-value=7.2e-05  Score=49.24  Aligned_cols=95  Identities=9%  Similarity=-0.003  Sum_probs=54.5

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHh
Q 044047          128 YNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCN  207 (260)
Q Consensus       128 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  207 (260)
                      .-.+...+...|++++|.++|+.+.... +-+..-|..|..++-..|++++|+..|.......+ -|+..+-.+..++..
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~  115 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLA  115 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHH
Confidence            3344444555666666666666655544 34445555566666666666666666666655542 245555556666666


Q ss_pred             cCChHHHHHHHHHHHhC
Q 044047          208 DGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       208 ~g~~~~a~~~~~~~~~~  224 (260)
                      .|+.+.|.+.|+..+..
T Consensus       116 lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        116 CDNVCYAIKALKAVVRI  132 (157)
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            66666666666655543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.38  E-value=0.00032  Score=50.77  Aligned_cols=184  Identities=8%  Similarity=-0.029  Sum_probs=113.6

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccch---HHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHH
Q 044047           54 NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTY---NTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNT  130 (260)
Q Consensus        54 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  130 (260)
                      +...+-.....+...|++++|.+.|+++...-+.+ ....   -.+..++.+.++++.|...+++..+........-+..
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~  109 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVL  109 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHH
Confidence            33334345555677899999999999998863332 2222   3456778899999999999999887642222223333


Q ss_pred             HHHHHHh--cC---------------cH---HHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC
Q 044047          131 FIDGLCK--NG---------------YI---VEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVG  190 (260)
Q Consensus       131 l~~~~~~--~~---------------~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  190 (260)
                      .+.+.+.  .+               +.   ..|+..               +..++.-|-.+.-..+|...+..+... 
T Consensus       110 Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~---------------~~~li~~yP~S~ya~~A~~rl~~l~~~-  173 (243)
T PRK10866        110 YMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRD---------------FSKLVRGYPNSQYTTDATKRLVFLKDR-  173 (243)
T ss_pred             HHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHH---------------HHHHHHHCcCChhHHHHHHHHHHHHHH-
Confidence            3333321  11               11   122233               333444444444455665555555432 


Q ss_pred             CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC--CCCCChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          191 LMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK--GVAPNCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       191 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                        . ...--.+.+-|.+.|.+..|..-++.+.+.  +.+........+..+|...|..++|..+.+.+.
T Consensus       174 --l-a~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        174 --L-AKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             --H-HHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence              1 111225667788899999999999999875  334455667788899999999999988776654

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

Probab=98.36  E-value=2.7e-05  Score=59.74  Aligned_cols=93  Identities=9%  Similarity=0.014  Sum_probs=74.3

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcccc
Q 044047           26 LIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQ  105 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  105 (260)
                      -...+...|++++|++.|+++.+.+ +.+...|..+..++...|++++|+..++++.+.... +...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~-~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDPS-LAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCC
Confidence            3455667888888988888888776 567778888888888888999998888888876433 56677788888888889


Q ss_pred             HHHHHHHHHHHhhcC
Q 044047          106 VEHALKLFDEMQHSD  120 (260)
Q Consensus       106 ~~~a~~~~~~~~~~~  120 (260)
                      +++|...|++..+.+
T Consensus        86 ~~eA~~~~~~al~l~  100 (356)
T PLN03088         86 YQTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHHhC
Confidence            988988888887764

>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=1.3e-05  Score=49.06  Aligned_cols=78  Identities=21%  Similarity=0.361  Sum_probs=55.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhhhCCC-CCchhhHHHHHHHHHhcC--------ChHHHHHHHHHHHhCCCCCChhhHHH
Q 044047          165 CLIDGLCKIGKLETAWELFQSLPRVGL-MPNVVTYNIMIHGFCNDG--------QMDKAHDLFLDMEAKGVAPNCVTFNT  235 (260)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g--------~~~~a~~~~~~~~~~~~~p~~~~~~~  235 (260)
                      ..|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +.-+.+.+|+.|+..++.|+..+|+.
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            344455555777777777777777777 677777777777766432        24456778888888888888888888


Q ss_pred             HHHHHHh
Q 044047          236 LMLGCIR  242 (260)
Q Consensus       236 l~~~~~~  242 (260)
                      ++..+.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            8877654

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 [, , ].

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

Probab=98.35  E-value=4.3e-05  Score=58.67  Aligned_cols=92  Identities=16%  Similarity=0.077  Sum_probs=64.9

Q ss_pred             HHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCH
Q 044047           97 FHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKL  176 (260)
Q Consensus        97 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  176 (260)
                      ...+...|+++.|+..|++..+.. +.+...+..+..+|...|++++|+..++.+.... +.+...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCH
Confidence            344556677777777777777665 4566667777777777777777777777777654 44566677777777777777


Q ss_pred             HHHHHHHHhhhhCC
Q 044047          177 ETAWELFQSLPRVG  190 (260)
Q Consensus       177 ~~a~~~~~~~~~~~  190 (260)
                      ++|...|+......
T Consensus        87 ~eA~~~~~~al~l~  100 (356)
T PLN03088         87 QTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHhC
Confidence            77777777777653

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.35  E-value=2e-05  Score=53.71  Aligned_cols=81  Identities=14%  Similarity=0.007  Sum_probs=43.5

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC--CccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHH
Q 044047           55 VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRP--TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFI  132 (260)
Q Consensus        55 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  132 (260)
                      ...|..+...+...|++++|+..+++.......+  ...++..+...+...|++++|+..+++..... +....++..+.
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            4445555566666666666666666665442221  12355556666666666666666666655442 23333444444


Q ss_pred             HHHH
Q 044047          133 DGLC  136 (260)
Q Consensus       133 ~~~~  136 (260)
                      ..+.
T Consensus       114 ~i~~  117 (168)
T CHL00033        114 VICH  117 (168)
T ss_pred             HHHH
Confidence            4444

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.34  E-value=0.00042  Score=50.18  Aligned_cols=185  Identities=12%  Similarity=0.077  Sum_probs=115.2

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhH---HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTY---NTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNT   95 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   95 (260)
                      ++..+-.....+.+.|++++|.+.|+.+.... |-+...-   -.++.++.+.+++++|...+++..+..+......+..
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~y-P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~  109 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRY-PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVL  109 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHH
Confidence            34444445666778999999999999998764 3233332   4567888999999999999999998754433444444


Q ss_pred             HHHHHhc--cc---------------c---HHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC
Q 044047           96 LFHGLFE--IH---------------Q---VEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK  155 (260)
Q Consensus        96 l~~~~~~--~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  155 (260)
                      .+.+.+.  .+               +   ...|+..|+.+.+.               |-...-..+|...+..+... 
T Consensus       110 Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~---------------yP~S~ya~~A~~rl~~l~~~-  173 (243)
T PRK10866        110 YMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG---------------YPNSQYTTDATKRLVFLKDR-  173 (243)
T ss_pred             HHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH---------------CcCChhHHHHHHHHHHHHHH-
Confidence            4444331  11               1   12344444444443               33333344454444433321 


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC--CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          156 CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVG--LMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       156 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                        .-..- -.+...|.+.|.+..|..-++.+.+.-  .+........++.+|...|..++|..+...+..
T Consensus       174 --la~~e-~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~~  240 (243)
T PRK10866        174 --LAKYE-LSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIAA  240 (243)
T ss_pred             --HHHHH-HHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHhc
Confidence              11111 246677888888888888888877652  122345677788888889999988887766543

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

Probab=98.33  E-value=1.5e-06  Score=51.77  Aligned_cols=79  Identities=22%  Similarity=0.269  Sum_probs=30.7

Q ss_pred             ccHHHHHHHHHHHhhcCCC-cchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHH
Q 044047          104 HQVEHALKLFDEMQHSDVA-AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL  182 (260)
Q Consensus       104 ~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  182 (260)
                      |+++.|+.+++++.+.... ++...+..+..++.+.|++++|..+++. ...+ +.+......+..++.+.|++++|+++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            3444444444444443211 1222333344444444555444444444 1111 11122222334444444555554444


Q ss_pred             HH
Q 044047          183 FQ  184 (260)
Q Consensus       183 ~~  184 (260)
                      ++
T Consensus        81 l~   82 (84)
T PF12895_consen   81 LE   82 (84)
T ss_dssp             HH
T ss_pred             Hh
Confidence            43

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.33  E-value=6.5e-05  Score=51.45  Aligned_cols=88  Identities=16%  Similarity=0.084  Sum_probs=51.8

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHH
Q 044047           55 VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT--VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFI  132 (260)
Q Consensus        55 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  132 (260)
                      ...+..+...+...|++++|...+++..+....+.  ...+..+...+.+.|++++|...+++..+.. +.+...+..+.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence            34455666666666777777777776665432221  2455666666667777777777776666543 33445555555


Q ss_pred             HHHHhcCcHHH
Q 044047          133 DGLCKNGYIVE  143 (260)
Q Consensus       133 ~~~~~~~~~~~  143 (260)
                      .++...|+...
T Consensus       114 ~~~~~~g~~~~  124 (172)
T PRK02603        114 VIYHKRGEKAE  124 (172)
T ss_pred             HHHHHcCChHh
Confidence            66665555443

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

Probab=98.33  E-value=3.5e-06  Score=50.14  Aligned_cols=81  Identities=19%  Similarity=0.160  Sum_probs=43.5

Q ss_pred             cCcHHHHHHHHHHhhhcCCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHH
Q 044047          138 NGYIVEAAELFRTLRVLKCE-LGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHD  216 (260)
Q Consensus       138 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  216 (260)
                      .|+++.|+.+++++...... ++...+..+..++.+.|++++|..+++. .+.+. .+......+..++.+.|++++|+.
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            45666666666666655421 1333444466666666666666666666 22211 122333344666666666666666


Q ss_pred             HHHH
Q 044047          217 LFLD  220 (260)
Q Consensus       217 ~~~~  220 (260)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6654

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.31  E-value=0.00034  Score=54.79  Aligned_cols=150  Identities=11%  Similarity=0.123  Sum_probs=83.8

Q ss_pred             HHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CccchHHHHHHHhccccHHHHHHHHH
Q 044047           36 IDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRP-TVVTYNTLFHGLFEIHQVEHALKLFD  114 (260)
Q Consensus        36 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~  114 (260)
                      .+.....++++...-...-.-+|..+++.-.+..-+..|..+|.++.+.+..+ ++.+.++++..++. ++.+-|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHH
Confidence            44444555555443222233455666666666666666666666666665544 44555555555543 55566666666


Q ss_pred             HHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcC--HHHHHHHHHHHHhcCCHHHHHHHHHhhh
Q 044047          115 EMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELG--IEAYSCLIDGLCKIGKLETAWELFQSLP  187 (260)
Q Consensus       115 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~  187 (260)
                      -=.+. ...++.-....+..+...++-..+..+|++....+.+++  ...|..++..-..-|+...+.++-+++.
T Consensus       426 LGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~  499 (656)
T KOG1914|consen  426 LGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRF  499 (656)
T ss_pred             HHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            53332 123344445556666666666666666666666543333  3466666666666666666666655543

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

Probab=98.30  E-value=0.0014  Score=54.44  Aligned_cols=223  Identities=12%  Similarity=0.071  Sum_probs=146.6

Q ss_pred             hccCCHHHHHHHHHHHhhcCCCCchhhHHHHHH--HHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHH
Q 044047           31 CLTGEIDRARELFVSMDINGCMHNVVTYNTLIN--GYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEH  108 (260)
Q Consensus        31 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  108 (260)
                      ...+++..|..-..++.+..  |+.. |..++.  ...+.|+.++|..+++.....+.. |..|...+-..|...++.++
T Consensus        20 ld~~qfkkal~~~~kllkk~--Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKH--PNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHC--CCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhH
Confidence            36678999999998887763  3332 233333  356789999999999888776555 88899999999999999999


Q ss_pred             HHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcC----------CHHH
Q 044047          109 ALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIG----------KLET  178 (260)
Q Consensus       109 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------~~~~  178 (260)
                      |..+|++.....  |+......+..+|.+.+.+.+-.+.--++-+ ..+-.+..+=++++.+.+.-          -..-
T Consensus        96 ~~~~Ye~~~~~~--P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~L  172 (932)
T KOG2053|consen   96 AVHLYERANQKY--PSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLAL  172 (932)
T ss_pred             HHHHHHHHHhhC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHHH
Confidence            999999998764  5577777888888888887764433322222 22334444434444443321          1234


Q ss_pred             HHHHHHhhhhCC-CCCchhhHHHHHHHHHhcCChHHHHHHHH-HHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          179 AWELFQSLPRVG-LMPNVVTYNIMIHGFCNDGQMDKAHDLFL-DMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       179 a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~-~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      |.+.++.+.+.+ ..-+..-...-...+...|.+++|.+++. ...+.-..-+...-+.-+..+...++|.+..++-.++
T Consensus       173 A~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~L  252 (932)
T KOG2053|consen  173 AEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRL  252 (932)
T ss_pred             HHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            677777776654 22222333333445567889999999994 4444323334444445667777788888888777777


Q ss_pred             hhcC
Q 044047          257 DERN  260 (260)
Q Consensus       257 ~~~~  260 (260)
                      .++|
T Consensus       253 l~k~  256 (932)
T KOG2053|consen  253 LEKG  256 (932)
T ss_pred             HHhC
Confidence            6654

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.29  E-value=0.00015  Score=58.34  Aligned_cols=143  Identities=12%  Similarity=0.089  Sum_probs=96.9

Q ss_pred             CCCCccchHHHHHHHhcc-----ccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhc--------CcHHHHHHHHHHhh
Q 044047           86 IRPTVVTYNTLFHGLFEI-----HQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKN--------GYIVEAAELFRTLR  152 (260)
Q Consensus        86 ~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~  152 (260)
                      .+.+...|...+++....     +..+.|..+|++..+.. |.....+..+..++...        .+...+.+......
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld-P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE-PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            445667788877775432     23668888898888875 44445555444433221        12233344444333


Q ss_pred             hc-CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChh
Q 044047          153 VL-KCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCV  231 (260)
Q Consensus       153 ~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  231 (260)
                      .. ..+.++..|..+.......|++++|...++++....  |+...|..+...+...|+.++|.+.+++....  .|...
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~p  487 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGEN  487 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCc
Confidence            32 124456778777777777899999999999998865  67888999999999999999999999988874  55555


Q ss_pred             hH
Q 044047          232 TF  233 (260)
Q Consensus       232 ~~  233 (260)
                      +|
T Consensus       488 t~  489 (517)
T PRK10153        488 TL  489 (517)
T ss_pred             hH
Confidence            54

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.29  E-value=0.001  Score=52.30  Aligned_cols=152  Identities=13%  Similarity=0.090  Sum_probs=117.4

Q ss_pred             hHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCc-chhhHHHHHHHHHhcCcHHHHHHHHH
Q 044047           71 VEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAA-ETSTYNTFIDGLCKNGYIVEAAELFR  149 (260)
Q Consensus        71 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~  149 (260)
                      .+.....++++...-..--+.+|..+++...+..-++.|..+|.++.+.+..+ +..+.++++..+| .++..-|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHH
Confidence            55566677776654333345678888888889999999999999998887666 6667777777665 577889999998


Q ss_pred             HhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc--hhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          150 TLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPN--VVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       150 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      .-...- ..++.-....+..+...++-..+..+|++....++.|+  ...|..++..=..-|+...+.++-+++...
T Consensus       426 LGLkkf-~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  426 LGLKKF-GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             HHHHhc-CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            766542 45566667788888899999999999999988866655  468999999888999999998888877643

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.27  E-value=1.1e-06  Score=41.21  Aligned_cols=29  Identities=28%  Similarity=0.540  Sum_probs=16.3

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHhhcC
Q 044047          232 TFNTLMLGCIRNNETSKVVELLHRMDERN  260 (260)
Q Consensus       232 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  260 (260)
                      +|+.++++|.+.|++++|.+++++|.++|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555543

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.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.27  E-value=0.00017  Score=60.35  Aligned_cols=166  Identities=14%  Similarity=0.107  Sum_probs=124.9

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcC-CCCCccchHHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKG-IRPTVVTYNTLFH   98 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~   98 (260)
                      ...|..|...|....+...|...|+...+.+ +.+...+......|+...+++.|..+.-..-+.. ...-...|....-
T Consensus       492 apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~  570 (1238)
T KOG1127|consen  492 APAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGP  570 (1238)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccc
Confidence            4578889999988888999999999988776 6678889999999999999999998843322221 1111233444555


Q ss_pred             HHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHH
Q 044047           99 GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLET  178 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  178 (260)
                      .|...++...++.-|+...+.. |.|...|..+..+|.++|.+..|.++|.+..... |.+...-.-.....+..|.+.+
T Consensus       571 yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~Lr-P~s~y~~fk~A~~ecd~GkYke  648 (1238)
T KOG1127|consen  571 YYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLR-PLSKYGRFKEAVMECDNGKYKE  648 (1238)
T ss_pred             cccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcC-cHhHHHHHHHHHHHHHhhhHHH
Confidence            6778889999999999988876 6788899999999999999999999998887653 2232222223344567888999


Q ss_pred             HHHHHHhhhh
Q 044047          179 AWELFQSLPR  188 (260)
Q Consensus       179 a~~~~~~~~~  188 (260)
                      |...+.....
T Consensus       649 ald~l~~ii~  658 (1238)
T KOG1127|consen  649 ALDALGLIIY  658 (1238)
T ss_pred             HHHHHHHHHH
Confidence            8888877653

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

Probab=98.27  E-value=0.00038  Score=51.80  Aligned_cols=168  Identities=15%  Similarity=0.147  Sum_probs=88.7

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHhh----cCCC-CchhhHHHHHHHHHhcCChHHHHHHHHHHHhc----CCC-CCc
Q 044047           21 FVYSTLIDGFCLTGEIDRARELFVSMDI----NGCM-HNVVTYNTLINGYCKTKDVEESLNLYSEMLSK----GIR-PTV   90 (260)
Q Consensus        21 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~   90 (260)
                      ..|......|...|++++|.+.|.....    .+-+ .-...|.....+|.+. ++++|+..+++..+.    |-. .-.
T Consensus        36 ~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~aA  114 (282)
T PF14938_consen   36 DLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGRFSQAA  114 (282)
T ss_dssp             HHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHHH
T ss_pred             HHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            4566667777777888888777776632    1211 1123344544554444 777777777766542    211 012


Q ss_pred             cchHHHHHHHhcc-ccHHHHHHHHHHHhhc----CCC-cchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCC-----CcC
Q 044047           91 VTYNTLFHGLFEI-HQVEHALKLFDEMQHS----DVA-AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKC-----ELG  159 (260)
Q Consensus        91 ~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~  159 (260)
                      ..+..+...|... |+++.|++.|++..+.    +.+ .-...+..+...+.+.|++++|.++|+++.....     ..+
T Consensus       115 ~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~  194 (282)
T PF14938_consen  115 KCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYS  194 (282)
T ss_dssp             HHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchh
Confidence            3455566666666 7777777777765332    211 1123455566667777777777777776654321     111


Q ss_pred             HH-HHHHHHHHHHhcCCHHHHHHHHHhhhhC
Q 044047          160 IE-AYSCLIDGLCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       160 ~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  189 (260)
                      .. .+...+-++...|+...|...+++....
T Consensus       195 ~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~  225 (282)
T PF14938_consen  195 AKEYFLKAILCHLAMGDYVAARKALERYCSQ  225 (282)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHGTT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            21 2233344555667777777777766544

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.26  E-value=0.00023  Score=48.80  Aligned_cols=85  Identities=14%  Similarity=-0.005  Sum_probs=41.1

Q ss_pred             chHHHHHHHhccccHHHHHHHHHHHhhcCCCc--chhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHH
Q 044047           92 TYNTLFHGLFEIHQVEHALKLFDEMQHSDVAA--ETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDG  169 (260)
Q Consensus        92 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  169 (260)
                      .+..+...+...|++++|...|++..+....+  ....+..+..++...|++++|...+++..... +.+...+..+...
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~  115 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            34444555555566666666665554432111  12344555555555555555555555555432 2234444444445


Q ss_pred             HHhcCCHH
Q 044047          170 LCKIGKLE  177 (260)
Q Consensus       170 ~~~~~~~~  177 (260)
                      +...|+..
T Consensus       116 ~~~~g~~~  123 (172)
T PRK02603        116 YHKRGEKA  123 (172)
T ss_pred             HHHcCChH
Confidence            54444433

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.26  E-value=0.00018  Score=58.67  Aligned_cols=78  Identities=18%  Similarity=0.204  Sum_probs=36.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcH
Q 044047           62 INGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYI  141 (260)
Q Consensus        62 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  141 (260)
                      +.+....+.|.+|+.+++.+..+..  -..-|..+...|+..|+++.|.++|-+.         ..++-.|.+|.+.|+|
T Consensus       739 ieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccH
Confidence            3444444555555555555544321  2233444445555555555555554331         1233444555555555


Q ss_pred             HHHHHHHHH
Q 044047          142 VEAAELFRT  150 (260)
Q Consensus       142 ~~a~~~~~~  150 (260)
                      .+|.++-.+
T Consensus       808 ~da~kla~e  816 (1636)
T KOG3616|consen  808 EDAFKLAEE  816 (1636)
T ss_pred             HHHHHHHHH
Confidence            555554443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.25  E-value=4.7e-05  Score=51.94  Aligned_cols=108  Identities=14%  Similarity=-0.002  Sum_probs=74.1

Q ss_pred             HHHHHHHH-HcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCC--chhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            5 SRLLDLMI-QRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMH--NVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         5 ~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      .+.+..+. ..+..-....|..+...+...|++++|...|+........+  ...+|..+..++...|++++|+..+++.
T Consensus        19 ~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~A   98 (168)
T CHL00033         19 ADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQA   98 (168)
T ss_pred             hhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34444443 23323346677888888999999999999999997653222  2458889999999999999999999999


Q ss_pred             HhcCCCCCccchHHHHHHHh-------ccccHHHHHHHH
Q 044047           82 LSKGIRPTVVTYNTLFHGLF-------EIHQVEHALKLF  113 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~~~~-------~~~~~~~a~~~~  113 (260)
                      ...... ...++..+...+.       ..|+++.|...+
T Consensus        99 l~~~~~-~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~  136 (168)
T CHL00033         99 LERNPF-LPQALNNMAVICHYRGEQAIEQGDSEIAEAWF  136 (168)
T ss_pred             HHhCcC-cHHHHHHHHHHHHHhhHHHHHcccHHHHHHHH
Confidence            876322 3445555665665       445555444333

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.23  E-value=2.2e-06  Score=40.14  Aligned_cols=26  Identities=50%  Similarity=0.985  Sum_probs=10.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047           58 YNTLINGYCKTKDVEESLNLYSEMLS   83 (260)
Q Consensus        58 ~~~l~~~~~~~~~~~~a~~~~~~~~~   83 (260)
                      |+.++++|++.|++++|.++|++|.+
T Consensus         3 y~~li~~~~~~~~~~~a~~~~~~M~~   28 (31)
T PF01535_consen    3 YNSLISGYCKMGQFEEALEVFDEMRE   28 (31)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHhH
Confidence            33333333333333333333333333

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.

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

Probab=98.22  E-value=0.00014  Score=59.80  Aligned_cols=209  Identities=14%  Similarity=0.119  Sum_probs=143.3

Q ss_pred             cHHHHHHHHH--HHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc-C--------CC
Q 044047           19 NAFVYSTLID--GFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK-G--------IR   87 (260)
Q Consensus        19 ~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~--------~~   87 (260)
                      |..|-..+++  .|..-|+.+.|.+-.+.+.      +...|..|.++|.+..+.+-|.-.+-.|... |        ..
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~  798 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQN  798 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhC
Confidence            4555555554  4677899999988877665      4568999999999999988887777666432 1        11


Q ss_pred             CCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHH
Q 044047           88 PTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLI  167 (260)
Q Consensus        88 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  167 (260)
                      |+ .+-....-.....|..++|..+|.+.++.         ..+=..|...|.+++|.++-+.--...   =..||....
T Consensus       799 ~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA  865 (1416)
T KOG3617|consen  799 GE-EDEAKVAVLAIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYA  865 (1416)
T ss_pred             Cc-chhhHHHHHHHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHH
Confidence            22 22233334456789999999999997653         355567788999999998876432221   234677777


Q ss_pred             HHHHhcCCHHHHHHHHHhhhhC----------C---------CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 044047          168 DGLCKIGKLETAWELFQSLPRV----------G---------LMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAP  228 (260)
Q Consensus       168 ~~~~~~~~~~~a~~~~~~~~~~----------~---------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  228 (260)
                      ..+-..++.+.|++.|++....          .         -..|...|..-...+...|+.+.|+.+|....+     
T Consensus       866 ~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D-----  940 (1416)
T KOG3617|consen  866 KYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD-----  940 (1416)
T ss_pred             HHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh-----
Confidence            7777888888888888764211          0         012445566666677788899999988887664     


Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHH
Q 044047          229 NCVTFNTLMLGCIRNNETSKVVELLHR  255 (260)
Q Consensus       229 ~~~~~~~l~~~~~~~~~~~~a~~~~~~  255 (260)
                          |-++++..+-.|+.++|-++-++
T Consensus       941 ----~fs~VrI~C~qGk~~kAa~iA~e  963 (1416)
T KOG3617|consen  941 ----YFSMVRIKCIQGKTDKAARIAEE  963 (1416)
T ss_pred             ----hhhheeeEeeccCchHHHHHHHh
Confidence                44566667777888887777654

>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=98.14  E-value=0.00017  Score=49.95  Aligned_cols=103  Identities=24%  Similarity=0.281  Sum_probs=56.0

Q ss_pred             CcchhhHHHHHHHHHh-----cCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchh
Q 044047          122 AAETSTYNTFIDGLCK-----NGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVV  196 (260)
Q Consensus       122 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  196 (260)
                      ..+-.+|..++..|.+     .|.++=....++.|.+.|+.-|..+|+.|+..+=+ |.+-               |. .
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---------------PR-N  106 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc---------------cc-c
Confidence            3456677777777654     35666666667777777777777777777766543 2110               00 0


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc
Q 044047          197 TYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRN  243 (260)
Q Consensus       197 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  243 (260)
                      .+..+...  ...+-+-|++++++|...|+-||..++..+++.+.+.
T Consensus       107 ~fQ~~F~h--yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~  151 (228)
T PF06239_consen  107 FFQAEFMH--YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRK  151 (228)
T ss_pred             HHHHHhcc--CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccc
Confidence            00000000  1123344666666666666666666666666665433

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

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

Probab=98.13  E-value=2.2e-05  Score=44.68  Aligned_cols=65  Identities=25%  Similarity=0.240  Sum_probs=49.4

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcC-ChHHHHHHHHHHHhc
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTK-DVEESLNLYSEMLSK   84 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~   84 (260)
                      ++..|..+...+...|++++|+..|++..+.+ +.+...|..+..++...| ++++|++.+++..+.
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            45677777888888888888888888877765 556777778888888887 688888888777653

...

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.13  E-value=0.00039  Score=55.96  Aligned_cols=142  Identities=12%  Similarity=0.035  Sum_probs=83.6

Q ss_pred             CCchhhHHHHHHHHHhcC-----ChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcc--------ccHHHHHHHHHHHhh
Q 044047           52 MHNVVTYNTLINGYCKTK-----DVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEI--------HQVEHALKLFDEMQH  118 (260)
Q Consensus        52 ~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~  118 (260)
                      +.+...|...+++.....     +...|..+|++..+..+. ....|..+..++...        .+...+.+..++...
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~-~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPD-FTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            455566666665543321     255666666666665222 223333322222111        123344444444333


Q ss_pred             c-CCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhh
Q 044047          119 S-DVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVT  197 (260)
Q Consensus       119 ~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  197 (260)
                      . ..+.+...+..+.......|++++|...+++.....  |+...|..+...+...|+.++|.+.+++.....  |...+
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~--P~~pt  488 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR--PGENT  488 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCch
Confidence            2 123455667766666667788888888888888765  477788888888888888888888888877754  44444


Q ss_pred             H
Q 044047          198 Y  198 (260)
Q Consensus       198 ~  198 (260)
                      |
T Consensus       489 ~  489 (517)
T PRK10153        489 L  489 (517)
T ss_pred             H
Confidence            3

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

Probab=98.13  E-value=0.00052  Score=49.93  Aligned_cols=105  Identities=11%  Similarity=0.097  Sum_probs=85.9

Q ss_pred             hhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcC---CHHHHHHHHHhhhhCCCCC
Q 044047          117 QHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIG---KLETAWELFQSLPRVGLMP  193 (260)
Q Consensus       117 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~  193 (260)
                      ...+ |.|...|..|...|...|+.+.|..-|....+.. ++++..+..+..++....   ...++..+|+++..... -
T Consensus       149 L~~n-P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~-~  225 (287)
T COG4235         149 LQQN-PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDP-A  225 (287)
T ss_pred             HHhC-CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCC-c
Confidence            3444 7788899999999999999999999999988775 677887777777665443   35688999999988753 3


Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          194 NVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       194 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      |..+...|...+...|++.+|...|+.|.+.
T Consensus       226 ~iral~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         226 NIRALSLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             cHHHHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            6778888889999999999999999999986

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

Probab=98.11  E-value=0.0011  Score=49.35  Aligned_cols=196  Identities=13%  Similarity=0.140  Sum_probs=114.1

Q ss_pred             CCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-----CCccchHHHHHHHhccccHHH
Q 044047           34 GEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIR-----PTVVTYNTLFHGLFEIHQVEH  108 (260)
Q Consensus        34 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~  108 (260)
                      .++++|.++|.+.               ...|-..|++++|...|.+..+....     .-...|......|.+. ++++
T Consensus        29 ~~~e~Aa~~y~~A---------------a~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~   92 (282)
T PF14938_consen   29 PDYEEAADLYEKA---------------ANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDE   92 (282)
T ss_dssp             HHHHHHHHHHHHH---------------HHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHH
T ss_pred             CCHHHHHHHHHHH---------------HHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHH
Confidence            3666666666554               34455556666666666555332110     0122333344444333 7777


Q ss_pred             HHHHHHHHh----hcCCCcc--hhhHHHHHHHHHhc-CcHHHHHHHHHHhhhc----CCC-cCHHHHHHHHHHHHhcCCH
Q 044047          109 ALKLFDEMQ----HSDVAAE--TSTYNTFIDGLCKN-GYIVEAAELFRTLRVL----KCE-LGIEAYSCLIDGLCKIGKL  176 (260)
Q Consensus       109 a~~~~~~~~----~~~~~~~--~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~  176 (260)
                      |+..+++..    +.| .++  ...+..+...|... |+++.|.+.|++....    +.+ .-...+..+...+.+.|++
T Consensus        93 Ai~~~~~A~~~y~~~G-~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y  171 (282)
T PF14938_consen   93 AIECYEKAIEIYREAG-RFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRY  171 (282)
T ss_dssp             HHHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHHHHHhcC-cHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCH
Confidence            777777654    334 222  34666777888888 8999999999887542    211 1134567788899999999


Q ss_pred             HHHHHHHHhhhhCCCC-----Cchh-hHHHHHHHHHhcCChHHHHHHHHHHHhC--CCCCC--hhhHHHHHHHHHhcCch
Q 044047          177 ETAWELFQSLPRVGLM-----PNVV-TYNIMIHGFCNDGQMDKAHDLFLDMEAK--GVAPN--CVTFNTLMLGCIRNNET  246 (260)
Q Consensus       177 ~~a~~~~~~~~~~~~~-----~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~p~--~~~~~~l~~~~~~~~~~  246 (260)
                      ++|.++|++.......     ++.. .+-..+-++...|++..|...+++....  ++..+  ......|+.++- .||.
T Consensus       172 ~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~-~~D~  250 (282)
T PF14938_consen  172 EEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYE-EGDV  250 (282)
T ss_dssp             HHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHH-TT-C
T ss_pred             HHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHH-hCCH
Confidence            9999999988764322     2222 2333444666789999999999998764  23222  344556666664 4444


Q ss_pred             h
Q 044047          247 S  247 (260)
Q Consensus       247 ~  247 (260)
                      +
T Consensus       251 e  251 (282)
T PF14938_consen  251 E  251 (282)
T ss_dssp             C
T ss_pred             H
Confidence            3

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.11  E-value=9.7e-05  Score=53.42  Aligned_cols=85  Identities=18%  Similarity=0.147  Sum_probs=40.1

Q ss_pred             ccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 044047          102 EIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWE  181 (260)
Q Consensus       102 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  181 (260)
                      +.+++++|+..|.+.++.. |-|...|..-..+|.+.|.++.|++-.+..+..+ +-...+|..|..+|...|++++|.+
T Consensus        93 ~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A~~  170 (304)
T KOG0553|consen   93 KNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEAIE  170 (304)
T ss_pred             HhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHHHH
Confidence            3444555555555544443 3344444444455555555555554444444332 2233445555555555555555555


Q ss_pred             HHHhhhh
Q 044047          182 LFQSLPR  188 (260)
Q Consensus       182 ~~~~~~~  188 (260)
                      .|++..+
T Consensus       171 aykKaLe  177 (304)
T KOG0553|consen  171 AYKKALE  177 (304)
T ss_pred             HHHhhhc
Confidence            5444444

>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=98.10  E-value=1.1e-05  Score=45.80  Aligned_cols=52  Identities=23%  Similarity=0.224  Sum_probs=33.5

Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044047           32 LTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK   84 (260)
Q Consensus        32 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   84 (260)
                      +.|++++|.++|+.+.... |.+...+..+..+|.+.|++++|.++++++...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4566677777777666554 446666666667777777777777777666654

...

>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=98.10  E-value=8e-05  Score=51.50  Aligned_cols=89  Identities=16%  Similarity=0.230  Sum_probs=55.9

Q ss_pred             CCchhhHHHHHHHHHhc-----CChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcc----------------ccHHHHH
Q 044047           52 MHNVVTYNTLINGYCKT-----KDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEI----------------HQVEHAL  110 (260)
Q Consensus        52 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------------~~~~~a~  110 (260)
                      ..+..+|..++..+.+.     |..+-....+..|.+-|+.-|..+|+.|+..+=+.                .+.+-|+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            34555666666655443     55566666666666667766777777776655431                2345567


Q ss_pred             HHHHHHhhcCCCcchhhHHHHHHHHHhcCc
Q 044047          111 KLFDEMQHSDVAAETSTYNTFIDGLCKNGY  140 (260)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  140 (260)
                      +++++|...|+-||..++..+++.+++.+.
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            777777777777777777777777766554

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=98.06  E-value=0.00014  Score=52.64  Aligned_cols=103  Identities=17%  Similarity=0.203  Sum_probs=87.1

Q ss_pred             HHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc-hhhHHHHHHHHHhcCCh
Q 044047          133 DGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPN-VVTYNIMIHGFCNDGQM  211 (260)
Q Consensus       133 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~  211 (260)
                      .-+.+.+++.+|+..|.+.+... +-|...|..-..+|.+.|.++.|++-.+......  |. ..+|..|..+|...|++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD--p~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID--PHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC--hHHHHHHHHHHHHHHccCcH
Confidence            44567899999999999999876 6788888999999999999999999888888753  44 57899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 044047          212 DKAHDLFLDMEAKGVAPNCVTFNTLMLGC  240 (260)
Q Consensus       212 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  240 (260)
                      ++|.+.|++.++  +.|+-.+|..=+...
T Consensus       166 ~~A~~aykKaLe--ldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  166 EEAIEAYKKALE--LDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHHHHhhhc--cCCCcHHHHHHHHHH
Confidence            999999999988  578877776555443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=98.05  E-value=0.00088  Score=42.51  Aligned_cols=21  Identities=19%  Similarity=0.351  Sum_probs=8.6

Q ss_pred             HHHHHhcCCHHHHHHHHHhhh
Q 044047          167 IDGLCKIGKLETAWELFQSLP  187 (260)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~  187 (260)
                      ...+...|++++|..+++...
T Consensus        45 astlr~LG~~deA~~~L~~~~   65 (120)
T PF12688_consen   45 ASTLRNLGRYDEALALLEEAL   65 (120)
T ss_pred             HHHHHHcCCHHHHHHHHHHHH
Confidence            333444444444444444333

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

Probab=98.04  E-value=4.4e-05  Score=42.86  Aligned_cols=58  Identities=19%  Similarity=0.174  Sum_probs=43.3

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044047           26 LIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK   84 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   84 (260)
                      +...+.+.|++++|.+.|+.+.+.. |-+...+..+..++...|++++|...|+++.+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4556777788888888888887765 557777778888888888888888888877664

>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=98.03  E-value=7.1e-05  Score=42.39  Aligned_cols=51  Identities=27%  Similarity=0.188  Sum_probs=24.5

Q ss_pred             cCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC
Q 044047          138 NGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       138 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  189 (260)
                      .|++++|++.|+.+.... +.+...+..+..+|.+.|++++|..+++.+...
T Consensus         4 ~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             ccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            445555555555544433 334444444555555555555555555554443

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=98.02  E-value=0.00073  Score=42.88  Aligned_cols=22  Identities=27%  Similarity=0.305  Sum_probs=8.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHH
Q 044047           61 LINGYCKTKDVEESLNLYSEML   82 (260)
Q Consensus        61 l~~~~~~~~~~~~a~~~~~~~~   82 (260)
                      +...+...|++++|+.++++..
T Consensus        44 lastlr~LG~~deA~~~L~~~~   65 (120)
T PF12688_consen   44 LASTLRNLGRYDEALALLEEAL   65 (120)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Confidence            3333344444444444444333

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.01  E-value=0.00061  Score=48.65  Aligned_cols=131  Identities=14%  Similarity=0.086  Sum_probs=86.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHH-----H
Q 044047           58 YNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTF-----I  132 (260)
Q Consensus        58 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-----~  132 (260)
                      -+.++.++...|.+.-....+.+.++...+.++.....|++.-.+.|+.+.|...|+...+..-..+..+++.+     .
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            34556666666777777777887777665556777777777777888888888888866554334444343333     3


Q ss_pred             HHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC
Q 044047          133 DGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       133 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  189 (260)
                      ..|.-.+++..|...+.++...+ +-++...|.-.-+..-.|+...|.+.++.+...
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            34555667777777777776655 445555555555555677788888888877765

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.97  E-value=0.0018  Score=53.13  Aligned_cols=192  Identities=17%  Similarity=0.148  Sum_probs=118.5

Q ss_pred             HHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHH
Q 044047           29 GFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEH  108 (260)
Q Consensus        29 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  108 (260)
                      +.....+|.+|+.+++.+....  .-..-|..+...|+..|+++.|.++|.+.         ..++-.+..|.+.|+|+.
T Consensus       741 aai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~d  809 (1636)
T KOG3616|consen  741 AAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWED  809 (1636)
T ss_pred             HHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHH
Confidence            3344556666666666665542  23344666677777788888887777542         234456677788888888


Q ss_pred             HHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhh
Q 044047          109 ALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPR  188 (260)
Q Consensus       109 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (260)
                      |.++-++...  .......|-.-..-+-..|++.+|.+++-.+.    .|+.     .|.+|-+.|..+..+++..+-..
T Consensus       810 a~kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~~-----aiqmydk~~~~ddmirlv~k~h~  878 (1636)
T KOG3616|consen  810 AFKLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPDK-----AIQMYDKHGLDDDMIRLVEKHHG  878 (1636)
T ss_pred             HHHHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhheeEEcc----CchH-----HHHHHHhhCcchHHHHHHHHhCh
Confidence            7777665532  23344455555555667777777777664433    3332     45677777777777776665432


Q ss_pred             CCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHH
Q 044047          189 VGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLH  254 (260)
Q Consensus       189 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  254 (260)
                      ..   -..|...+..-+...|+...|..-|-+..+         |.+-+..|..++.|++|.++-+
T Consensus       879 d~---l~dt~~~f~~e~e~~g~lkaae~~flea~d---------~kaavnmyk~s~lw~dayriak  932 (1636)
T KOG3616|consen  879 DH---LHDTHKHFAKELEAEGDLKAAEEHFLEAGD---------FKAAVNMYKASELWEDAYRIAK  932 (1636)
T ss_pred             hh---hhHHHHHHHHHHHhccChhHHHHHHHhhhh---------HHHHHHHhhhhhhHHHHHHHHh
Confidence            21   134555666777777888877776654433         4455666777777777766644

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

Probab=97.96  E-value=0.0019  Score=45.56  Aligned_cols=62  Identities=18%  Similarity=0.118  Sum_probs=38.7

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhcC--CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044047           23 YSTLIDGFCLTGEIDRARELFVSMDING--CMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK   84 (260)
Q Consensus        23 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   84 (260)
                      +-.....+...|++.+|...|+.+...-  -+-.....-.++.++.+.|+++.|...++++.+.
T Consensus         8 lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen    8 LYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3345556667777888888887776542  1223344556667777777777777777777665

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

Probab=97.93  E-value=0.0017  Score=47.31  Aligned_cols=111  Identities=16%  Similarity=0.141  Sum_probs=91.0

Q ss_pred             CccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcC---cHHHHHHHHHHhhhcCCCcCHHHHHH
Q 044047           89 TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNG---YIVEAAELFRTLRVLKCELGIEAYSC  165 (260)
Q Consensus        89 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~  165 (260)
                      |...|..|...|...|+.+.|..-|.+..+.. ++++..+..+..++....   ...++..+|+++...+ +.++.....
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHHH
Confidence            78899999999999999999999999998875 677778877777765443   3457899999999876 778888899


Q ss_pred             HHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHH
Q 044047          166 LIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIH  203 (260)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  203 (260)
                      +...+...|++.+|...|+.|.+..  |....+..++.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~l--p~~~~rr~~ie  268 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLL--PADDPRRSLIE  268 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcC--CCCCchHHHHH
Confidence            9999999999999999999999874  33344445544

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

Probab=97.93  E-value=8e-05  Score=41.76  Aligned_cols=58  Identities=16%  Similarity=0.194  Sum_probs=37.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          166 LIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      +...+...|++++|...|+.+.+... -+...+..+..++...|++++|...|+++.+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDP-DNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCST-THHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34556667777777777777766542 24566666677777777777777777776653

>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=97.91  E-value=9.2e-05  Score=42.07  Aligned_cols=61  Identities=11%  Similarity=0.177  Sum_probs=28.0

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC-chhHHHHHHHHHh
Q 044047          196 VTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNN-ETSKVVELLHRMD  257 (260)
Q Consensus       196 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~m~  257 (260)
                      .+|..+...+...|++++|+..|++..+.. +.+...+..+..++...| ++++|++.+++.+
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            344444444444555555555555444431 223444444444444444 4455554444443

...

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

Probab=97.90  E-value=0.0034  Score=44.27  Aligned_cols=183  Identities=13%  Similarity=0.061  Sum_probs=106.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCC--CCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHH
Q 044047           57 TYNTLINGYCKTKDVEESLNLYSEMLSKGIR--PTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDG  134 (260)
Q Consensus        57 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  134 (260)
                      .+-.....+...|++.+|...|+++...-+.  --....-.++.++.+.|+++.|...++++.+.-......-+...+.+
T Consensus         7 ~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g   86 (203)
T PF13525_consen    7 ALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLG   86 (203)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHH
Confidence            3344455677889999999999999876322  12344556778888999999999999998876411111222222222


Q ss_pred             HHhcCcHHHHHHHHHHhhhcCC---CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCCh
Q 044047          135 LCKNGYIVEAAELFRTLRVLKC---ELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQM  211 (260)
Q Consensus       135 ~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  211 (260)
                      .+.........     ....+.   ..-...+..++.-|-.+....+|...+..+.+.    =...--.+.+.|.+.|.+
T Consensus        87 ~~~~~~~~~~~-----~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y~~~~~y  157 (203)
T PF13525_consen   87 LSYYKQIPGIL-----RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIARFYYKRGKY  157 (203)
T ss_dssp             HHHHHHHHHHH------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHCTT-H
T ss_pred             HHHHHhCccch-----hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHcccH
Confidence            22211111110     000000   001234556666666777777777777666542    112223467788999999


Q ss_pred             HHHHHHHHHHHhCCCCCC----hhhHHHHHHHHHhcCchhHHH
Q 044047          212 DKAHDLFLDMEAKGVAPN----CVTFNTLMLGCIRNNETSKVV  250 (260)
Q Consensus       212 ~~a~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~  250 (260)
                      ..|..-++.+++.  -|+    ......++.++.+.|..+.+.
T Consensus       158 ~aA~~r~~~v~~~--yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  158 KAAIIRFQYVIEN--YPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            9999999999876  233    345577889999999887544

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.90  E-value=0.0046  Score=47.14  Aligned_cols=249  Identities=12%  Similarity=-0.039  Sum_probs=129.8

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEML   82 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   82 (260)
                      +|+..+....+.. +.++.-|..-+..+...|++++|.--.++..+.. +-........-+++...++..+|.+.++.-.
T Consensus        67 nal~~yt~Ai~~~-pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~k-d~~~k~~~r~~~c~~a~~~~i~A~~~~~~~~  144 (486)
T KOG0550|consen   67 NALKNYTFAIDMC-PDNASYYSNRAATLMMLGRFEEALGDARQSVRLK-DGFSKGQLREGQCHLALSDLIEAEEKLKSKQ  144 (486)
T ss_pred             HHHHHHHHHHHhC-ccchhhhchhHHHHHHHHhHhhcccchhhheecC-CCccccccchhhhhhhhHHHHHHHHHhhhhh
Confidence            4555566666554 3345555555666666667776665555444332 1122233333344444444444443333211


Q ss_pred             ---------------hcCC-CCCccchHHH-HHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHH
Q 044047           83 ---------------SKGI-RPTVVTYNTL-FHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAA  145 (260)
Q Consensus        83 ---------------~~~~-~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  145 (260)
                                     .... +|...++..+ ..++.-.++.++|.+.--...+.. +.+......=..++.-.++.+.+.
T Consensus       145 ~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~~yy~~~~~ka~  223 (486)
T KOG0550|consen  145 AYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLCLYYNDNADKAI  223 (486)
T ss_pred             hhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc-cchhHHHHhcccccccccchHHHH
Confidence                           1100 1111222221 133445667777766655554443 222222222223344566777777


Q ss_pred             HHHHHhhhcCCCcCHH-------------HHHHHHHHHHhcCCHHHHHHHHHhhhhCC---CCCchhhHHHHHHHHHhcC
Q 044047          146 ELFRTLRVLKCELGIE-------------AYSCLIDGLCKIGKLETAWELFQSLPRVG---LMPNVVTYNIMIHGFCNDG  209 (260)
Q Consensus       146 ~~~~~~~~~~~~~~~~-------------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g  209 (260)
                      ..|++.+..+  |+..             .+..-.+-..+.|++..|.+.+.+.....   ..|+...|.....+..+.|
T Consensus       224 ~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLg  301 (486)
T KOG0550|consen  224 NHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLG  301 (486)
T ss_pred             HHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccC
Confidence            7777766543  2221             11122233457788888888888877643   3355666777777777888


Q ss_pred             ChHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          210 QMDKAHDLFLDMEAKGVAPN-CVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       210 ~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      +..+|+.--++..+.  .|. ...+..-..++...++|++|.+-+++..+
T Consensus       302 rl~eaisdc~~Al~i--D~syikall~ra~c~l~le~~e~AV~d~~~a~q  349 (486)
T KOG0550|consen  302 RLREAISDCNEALKI--DSSYIKALLRRANCHLALEKWEEAVEDYEKAMQ  349 (486)
T ss_pred             Cchhhhhhhhhhhhc--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            888888887777663  211 12223333566667888888877776543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.89  E-value=0.0012  Score=47.28  Aligned_cols=133  Identities=10%  Similarity=0.011  Sum_probs=104.4

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH----
Q 044047           22 VYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF----   97 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----   97 (260)
                      +.+.++.++.-.|.+.-....+.+..+.+-+.++.....+++.-.+.||.+.|...|++..+..-+.+..+++.++    
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            3356677777788999999999999887767788888999999999999999999999876654444555555443    


Q ss_pred             -HHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC
Q 044047           98 -HGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK  155 (260)
Q Consensus        98 -~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  155 (260)
                       ..+.-.+++..|...+.++...+ +.++...|.-.-+..-.|+..+|.+.++.+....
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~  316 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQD  316 (366)
T ss_pred             hhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhccC
Confidence             34556778888999998888776 5566666766666677899999999999998763

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.88  E-value=0.0053  Score=45.80  Aligned_cols=206  Identities=11%  Similarity=0.051  Sum_probs=144.3

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchH-HH
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYN-TL   96 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l   96 (260)
                      .++.-..-+...+...|++..|+.-|....+-+ |.+-.++-.-...|...|+...|+.=+.+..+.  +||-..-. --
T Consensus        36 advekhlElGk~lla~~Q~sDALt~yHaAve~d-p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQR  112 (504)
T KOG0624|consen   36 ADVEKHLELGKELLARGQLSDALTHYHAAVEGD-PNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQR  112 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCC-chhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHh
Confidence            345555567777888899999998888877553 333344444556788888888888888887764  55532211 12


Q ss_pred             HHHHhccccHHHHHHHHHHHhhcCCCcc--h------------hhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHH
Q 044047           97 FHGLFEIHQVEHALKLFDEMQHSDVAAE--T------------STYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEA  162 (260)
Q Consensus        97 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  162 (260)
                      ...+.+.|.++.|..=|+...+......  .            ......+..+...|+...|+.....+.+.. +-+...
T Consensus       113 g~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l  191 (504)
T KOG0624|consen  113 GVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASL  191 (504)
T ss_pred             chhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHH
Confidence            3456688999999999998877642111  1            112233455667788889998888888765 667778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCh
Q 044047          163 YSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNC  230 (260)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  230 (260)
                      +..-..+|...|++..|+.=++...+..- .+..++-.+-..+...|+.+.++...++.++.  .||.
T Consensus       192 ~~~Rakc~i~~~e~k~AI~Dlk~askLs~-DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdH  256 (504)
T KOG0624|consen  192 RQARAKCYIAEGEPKKAIHDLKQASKLSQ-DNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDH  256 (504)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhccc-cchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--Ccch
Confidence            88888999999999999888877766532 35566666777778889999999888888874  5554

>PRK15331 chaperone protein SicA; Provisional

Probab=97.83  E-value=0.0024  Score=42.52  Aligned_cols=91  Identities=14%  Similarity=0.067  Sum_probs=55.6

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcccc
Q 044047           26 LIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQ  105 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  105 (260)
                      ...-+...|++++|..+|..+...+ +.+..-|..|..++-..+++++|+..|......+.. |+..+-....++...|+
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhCC
Confidence            3344456677777777776665554 445555666666666666777777766665544332 44445556666666677


Q ss_pred             HHHHHHHHHHHhh
Q 044047          106 VEHALKLFDEMQH  118 (260)
Q Consensus       106 ~~~a~~~~~~~~~  118 (260)
                      .+.|...|+....
T Consensus       121 ~~~A~~~f~~a~~  133 (165)
T PRK15331        121 AAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHHh
Confidence            7777776666655

>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=97.82  E-value=0.00017  Score=47.95  Aligned_cols=74  Identities=18%  Similarity=0.247  Sum_probs=52.2

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHh-----hcCCCcchhhHH
Q 044047           55 VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQ-----HSDVAAETSTYN  129 (260)
Q Consensus        55 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~~  129 (260)
                      ..+...++..+...|++++|..+.+.+....+- +...|..+|.++...|+...|.+.|+++.     +.|+.|+..+-.
T Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~-~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   62 LDALERLAEALLEAGDYEEALRLLQRALALDPY-DEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT--HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            345667777888889999999999988887443 77788889999999999999998888763     357888776543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.80  E-value=0.0011  Score=48.42  Aligned_cols=98  Identities=16%  Similarity=0.019  Sum_probs=59.5

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCc--CHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC--CchhhHHHHH
Q 044047          127 TYNTFIDGLCKNGYIVEAAELFRTLRVLKCEL--GIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM--PNVVTYNIMI  202 (260)
Q Consensus       127 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~  202 (260)
                      .|...+..+.+.|++++|...|+.+.......  .+..+..+...|...|++++|...|+.+.+....  .....+-.+.
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            34444444455677777777777776543111  1346666777777777777777777777654211  1134444555


Q ss_pred             HHHHhcCChHHHHHHHHHHHhC
Q 044047          203 HGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       203 ~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      .++...|+.++|..+|+++.+.
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            6666777777777777777664

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.73  E-value=0.0056  Score=41.58  Aligned_cols=133  Identities=14%  Similarity=0.123  Sum_probs=81.3

Q ss_pred             CCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCC-cCHHHHHH
Q 044047           87 RPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCE-LGIEAYSC  165 (260)
Q Consensus        87 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~  165 (260)
                      -|+...-..|..+....|+..+|...|++....-...|......+.++....+++..|...++++-+.+.. -++.+.-.
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            45565566677777777777777777777665444456666666777777777777777777776654310 12233445


Q ss_pred             HHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047          166 LIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDM  221 (260)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  221 (260)
                      +.+.+...|....|...|+...+.  -|+...-......+.+.|+.+++..-+..+
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            667777777777777777777664  344443333344455666555554444333

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.72  E-value=0.00026  Score=40.69  Aligned_cols=56  Identities=11%  Similarity=-0.012  Sum_probs=35.1

Q ss_pred             HHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044047           28 DGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK   84 (260)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   84 (260)
                      ..|.+.+++++|.++++.+...+ |.+...|.....++.+.|++++|.+.++...+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            34556666666666666666654 445566666666666666666666666666654

>PRK15331 chaperone protein SicA; Provisional

Probab=97.71  E-value=0.0036  Score=41.70  Aligned_cols=92  Identities=13%  Similarity=0.012  Sum_probs=69.7

Q ss_pred             HHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCC
Q 044047          131 FIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQ  210 (260)
Q Consensus       131 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  210 (260)
                      ..--+...|++++|..+|+.+...+ +-++.-+..|..++-..+++++|...|......+. -|+..+-....++...|+
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCC
Confidence            3344557889999999998887766 55666677788888888899999988887766543 245555667788888899


Q ss_pred             hHHHHHHHHHHHhC
Q 044047          211 MDKAHDLFLDMEAK  224 (260)
Q Consensus       211 ~~~a~~~~~~~~~~  224 (260)
                      .+.|...|....+.
T Consensus       121 ~~~A~~~f~~a~~~  134 (165)
T PRK15331        121 AAKARQCFELVNER  134 (165)
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999988888873

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.69  E-value=0.0024  Score=46.74  Aligned_cols=95  Identities=14%  Similarity=0.101  Sum_probs=61.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc----hhhHHHHHHHHHhcCChHHHHHHHHHHHhC--CCCCChhhHHH
Q 044047          162 AYSCLIDGLCKIGKLETAWELFQSLPRVGLMPN----VVTYNIMIHGFCNDGQMDKAHDLFLDMEAK--GVAPNCVTFNT  235 (260)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~p~~~~~~~  235 (260)
                      .|...+....+.|++++|...|+.+.+..  |+    ..++..+...|...|++++|...|..+.+.  +-+.....+..
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            34444444455677788877777777653  33    246667777777788888888888777754  11112344445


Q ss_pred             HHHHHHhcCchhHHHHHHHHHhh
Q 044047          236 LMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       236 l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      +..++...|+.++|..+++++++
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            56667777888888887777664

>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=97.62  E-value=0.002  Score=41.31  Aligned_cols=78  Identities=9%  Similarity=0.077  Sum_probs=38.1

Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHhh---------------hcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC-
Q 044047          126 STYNTFIDGLCKNGYIVEAAELFRTLR---------------VLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRV-  189 (260)
Q Consensus       126 ~~~~~l~~~~~~~~~~~~a~~~~~~~~---------------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  189 (260)
                      .++..++.++++.|+.+....+++..-               .....|+..+..+++.+|+..|++..|.++++...+. 
T Consensus         3 ~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y   82 (126)
T PF12921_consen    3 ELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKY   82 (126)
T ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHc
Confidence            344455555555555555555554332               1223355555555555555555555555555554332 


Q ss_pred             CCCCchhhHHHHHH
Q 044047          190 GLMPNVVTYNIMIH  203 (260)
Q Consensus       190 ~~~~~~~~~~~l~~  203 (260)
                      +++.+..+|..|+.
T Consensus        83 ~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   83 PIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCCHHHHHHHHH
Confidence            33333445555444

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.61  E-value=0.018  Score=44.15  Aligned_cols=33  Identities=18%  Similarity=0.106  Sum_probs=15.7

Q ss_pred             cccHHHHHHHHHHHhhcCCCcchhhHHHHHHHH
Q 044047          103 IHQVEHALKLFDEMQHSDVAAETSTYNTFIDGL  135 (260)
Q Consensus       103 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  135 (260)
                      .|+.++|++++..+......+++.++..+.+.|
T Consensus       195 ~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIy  227 (374)
T PF13281_consen  195 PGDREKALQILLPVLESDENPDPDTLGLLGRIY  227 (374)
T ss_pred             CCCHHHHHHHHHHHHhccCCCChHHHHHHHHHH
Confidence            455555555555533333344455555555444

>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=97.59  E-value=0.0035  Score=40.20  Aligned_cols=87  Identities=17%  Similarity=0.139  Sum_probs=71.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhhh---------------hCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          159 GIEAYSCLIDGLCKIGKLETAWELFQSLP---------------RVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---------------~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      |..++.+++.++++.|+.+....+++..=               .....|+..+..+++.+|+..|++..|.++.+...+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            45788999999999999999999887641               123458889999999999999999999999999876


Q ss_pred             C-CCCCChhhHHHHHHHHHhcCc
Q 044047          224 K-GVAPNCVTFNTLMLGCIRNNE  245 (260)
Q Consensus       224 ~-~~~p~~~~~~~l~~~~~~~~~  245 (260)
                      . +++.+..+|..|++-+...-+
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~v~s~  103 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAYVLSS  103 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHHHhcC
Confidence            5 788889999999976655433

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>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=97.58  E-value=0.0017  Score=43.15  Aligned_cols=56  Identities=23%  Similarity=0.346  Sum_probs=25.5

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhh
Q 044047          130 TFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSL  186 (260)
Q Consensus       130 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  186 (260)
                      .++..+...|+++.|..+.+.+.... |.+...|..++.+|...|+...|.++|+.+
T Consensus        67 ~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   67 RLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            34444444555555555555444443 344444555555555555555555554443

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.54  E-value=0.012  Score=40.10  Aligned_cols=133  Identities=18%  Similarity=0.174  Sum_probs=99.7

Q ss_pred             CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCC-cchhhHH
Q 044047           51 CMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA-AETSTYN  129 (260)
Q Consensus        51 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~  129 (260)
                      ..|+...-..+..+....|+..+|...|++...--.-.|......+.++....+++..+...++.+-+.+.. .++.+..
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            357777778889999999999999999999876544556677777888888999999999999998765311 2344556


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHh
Q 044047          130 TFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQS  185 (260)
Q Consensus       130 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  185 (260)
                      .+.+.+...|.+.+|+.-|+.....  -|+...-......+.+.|+.+++..-+..
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            7888999999999999999988865  45555444445566777776665544433

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.53  E-value=0.0013  Score=50.16  Aligned_cols=51  Identities=24%  Similarity=0.397  Sum_probs=38.3

Q ss_pred             HHHhccCCHHHHHHHHHHHhhcCCCCc----hhhHHHHHHHHHhcCChHHHHHHHH
Q 044047           28 DGFCLTGEIDRARELFVSMDINGCMHN----VVTYNTLINGYCKTKDVEESLNLYS   79 (260)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~   79 (260)
                      .-+++.|+.+....+|+...+.| ..|    ..+|..+..+|.-.+++++|+++..
T Consensus        25 ERLck~gdcraGv~ff~aA~qvG-TeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~   79 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVG-TEDLSTLSAIYSQLGNAYFYLKDYEKALKYHT   79 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhc-chHHHHHHHHHHHhcchhhhHhhHHHHHhhhh
Confidence            34788899999999998888877 333    3456777778888888888887654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.53  E-value=0.027  Score=44.07  Aligned_cols=67  Identities=10%  Similarity=-0.046  Sum_probs=55.7

Q ss_pred             CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCch---hhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044047           17 RPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNV---VTYNTLINGYCKTKDVEESLNLYSEMLSK   84 (260)
Q Consensus        17 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   84 (260)
                      +.++..++.+..+|.+.|++++|+..|++..+.+ |.+.   .+|..+..+|...|+.++|+..+++..+.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~-Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELN-PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4467788899999999999999999999988775 3233   35889999999999999999999998875

>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=97.51  E-value=0.0004  Score=40.50  Aligned_cols=60  Identities=22%  Similarity=0.289  Sum_probs=26.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhC----CC-CCC-hhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          197 TYNIMIHGFCNDGQMDKAHDLFLDMEAK----GV-APN-CVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       197 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~-~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      +++.+...|...|++++|+..|++..+.    |- .|+ ..++..+..++...|++++|.+++++.
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444444445555555555554444321    10 011 233444445555555555555555443

...

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.50  E-value=0.027  Score=43.28  Aligned_cols=100  Identities=11%  Similarity=0.065  Sum_probs=70.3

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcC---CCCchhhHHHHHHHHHh---cCChHHHHHHHHHHHhcCCCCCccc
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDING---CMHNVVTYNTLINGYCK---TKDVEESLNLYSEMLSKGIRPTVVT   92 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~   92 (260)
                      ++.+...++-+|....+++...++++.+....   +..+...-....-++.+   .|+.++|++++..+......+++.+
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            34445566777889999999999999997652   22233333355566667   8999999999999776667778899


Q ss_pred             hHHHHHHHhc---------cccHHHHHHHHHHHhh
Q 044047           93 YNTLFHGLFE---------IHQVEHALKLFDEMQH  118 (260)
Q Consensus        93 ~~~l~~~~~~---------~~~~~~a~~~~~~~~~  118 (260)
                      +..+...|-.         ....++|+..|.+.-+
T Consensus       220 ~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe  254 (374)
T PF13281_consen  220 LGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFE  254 (374)
T ss_pred             HHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHc
Confidence            9888877643         2235666666666544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.49  E-value=0.0013  Score=37.68  Aligned_cols=51  Identities=10%  Similarity=0.032  Sum_probs=19.4

Q ss_pred             HhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047          171 CKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDME  222 (260)
Q Consensus       171 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  222 (260)
                      .+.+++++|.++++.+...+. .+...+.....++...|++++|.+.|+...
T Consensus         6 ~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l   56 (73)
T PF13371_consen    6 LQQEDYEEALEVLERALELDP-DDPELWLQRARCLFQLGRYEEALEDLERAL   56 (73)
T ss_pred             HhCCCHHHHHHHHHHHHHhCc-ccchhhHHHHHHHHHhccHHHHHHHHHHHH
Confidence            333444444444444433321 122333333333444444444444444443

>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=97.47  E-value=0.00043  Score=40.38  Aligned_cols=64  Identities=27%  Similarity=0.290  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhc----CC-CC-chhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDIN----GC-MH-NVVTYNTLINGYCKTKDVEESLNLYSEMLS   83 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   83 (260)
                      ..+|+.+...|...|++++|+..|++..+.    |- .| ...++..+..++...|++++|++.+++..+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            467888888888999999999888887542    21 12 255677888888888888888888887654

...

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.47  E-value=0.03  Score=45.64  Aligned_cols=191  Identities=17%  Similarity=0.199  Sum_probs=100.2

Q ss_pred             HHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHH----------
Q 044047            9 DLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLY----------   78 (260)
Q Consensus         9 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~----------   78 (260)
                      ++++++|-.|+...   +...++-.|.+.+|.++|.+--..         +..+..|.....++.|.+++          
T Consensus       624 ~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~e---------nRAlEmyTDlRMFD~aQE~~~~g~~~eKKm  691 (1081)
T KOG1538|consen  624 EERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRSGHE---------NRALEMYTDLRMFDYAQEFLGSGDPKEKKM  691 (1081)
T ss_pred             HHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHcCch---------hhHHHHHHHHHHHHHHHHHhhcCChHHHHH
Confidence            44555565565543   455566677777777777543221         12233333333333333333          


Q ss_pred             --HHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHH------HhhcCC---CcchhhHHHHHHHHHhcCcHHHHHHH
Q 044047           79 --SEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDE------MQHSDV---AAETSTYNTFIDGLCKNGYIVEAAEL  147 (260)
Q Consensus        79 --~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~------~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~  147 (260)
                        ++-.+.  .-+..--.+....+...|+.++|..+.-.      +.+.+.   ..+..+...+...+.+...+.-|-++
T Consensus       692 L~RKRA~W--Ar~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeI  769 (1081)
T KOG1538|consen  692 LIRKRADW--ARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEI  769 (1081)
T ss_pred             HHHHHHHH--hhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHH
Confidence              221111  01111112334445566666666554321      111111   12334455555555666677777777


Q ss_pred             HHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchh-----------hHHHHHHHHHhcCChHHHHH
Q 044047          148 FRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVV-----------TYNIMIHGFCNDGQMDKAHD  216 (260)
Q Consensus       148 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----------~~~~l~~~~~~~g~~~~a~~  216 (260)
                      |.++-..         ..+++.....++|.+|..+-+...+.  .|+..           -|...-++|.+.|+-.+|..
T Consensus       770 F~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~  838 (1081)
T KOG1538|consen  770 FLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQ  838 (1081)
T ss_pred             HHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHH
Confidence            7766432         35677778889999998888876653  23321           12333456667777777777


Q ss_pred             HHHHHHhC
Q 044047          217 LFLDMEAK  224 (260)
Q Consensus       217 ~~~~~~~~  224 (260)
                      +++++...
T Consensus       839 vLeQLtnn  846 (1081)
T KOG1538|consen  839 VLEQLTNN  846 (1081)
T ss_pred             HHHHhhhh
Confidence            77776544

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.39  E-value=0.025  Score=46.50  Aligned_cols=122  Identities=14%  Similarity=0.107  Sum_probs=63.4

Q ss_pred             CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhc-CCCC--------chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 044047           17 RPNAFVYSTLIDGFCLTGEIDRARELFVSMDIN-GCMH--------NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIR   87 (260)
Q Consensus        17 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   87 (260)
                      .|.+..|..+.......-.++.|...|-+.... |++.        +...-.+=+.+  --|++++|.++|-++.++.  
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~--~~g~feeaek~yld~drrD--  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISA--FYGEFEEAEKLYLDADRRD--  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhh--hhcchhHhhhhhhccchhh--
Confidence            577888988888877777888888877665442 2211        01111111222  2478888888887765542  


Q ss_pred             CCccchHHHHHHHhccccHHHHHHHHHHHhhc-CCCcchhhHHHHHHHHHhcCcHHHHHHHHH
Q 044047           88 PTVVTYNTLFHGLFEIHQVEHALKLFDEMQHS-DVAAETSTYNTFIDGLCKNGYIVEAAELFR  149 (260)
Q Consensus        88 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  149 (260)
                             ..+..+.+.|+|-.+.++++.--.. .-..-...|+.+...+.....+++|.+.+.
T Consensus       765 -------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~  820 (1189)
T KOG2041|consen  765 -------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYS  820 (1189)
T ss_pred             -------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                   2344455556665555544321000 000012344455555555555555554443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.39  E-value=0.036  Score=42.32  Aligned_cols=120  Identities=13%  Similarity=0.104  Sum_probs=73.0

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC-CCCC-chhhHHHHHHHHHh
Q 044047          130 TFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRV-GLMP-NVVTYNIMIHGFCN  207 (260)
Q Consensus       130 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~-~~~~~~~l~~~~~~  207 (260)
                      ....++.+.|+..++-.+++.+-+..  |.+.++.  +..+.+.|+.  +..=++..... .++| +..+...+..+...
T Consensus       268 ~AAralf~d~~~rKg~~ilE~aWK~e--PHP~ia~--lY~~ar~gdt--a~dRlkRa~~L~slk~nnaes~~~va~aAld  341 (531)
T COG3898         268 VAARALFRDGNLRKGSKILETAWKAE--PHPDIAL--LYVRARSGDT--ALDRLKRAKKLESLKPNNAESSLAVAEAALD  341 (531)
T ss_pred             HHHHHHHhccchhhhhhHHHHHHhcC--CChHHHH--HHHHhcCCCc--HHHHHHHHHHHHhcCccchHHHHHHHHHHHh
Confidence            34456777788888888888777653  4443332  2223444443  22222222211 1233 35566667777778


Q ss_pred             cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh-cCchhHHHHHHHHHh
Q 044047          208 DGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR-NNETSKVVELLHRMD  257 (260)
Q Consensus       208 ~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~~~~~~a~~~~~~m~  257 (260)
                      .|++..|..--+....  ..|....|..|.+.-.. .||-.++.+++.+..
T Consensus       342 a~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav  390 (531)
T COG3898         342 AGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAV  390 (531)
T ss_pred             ccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHh
Confidence            8888888776666555  47788888777765544 588888888876654

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.30  E-value=0.049  Score=41.89  Aligned_cols=226  Identities=13%  Similarity=-0.011  Sum_probs=138.4

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcccc
Q 044047           26 LIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQ  105 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  105 (260)
                      ....+.+..++..|+..+....+.. +.+..-|..-+..+...|++++|.--.++-++.... ........-+++...++
T Consensus        55 ~gn~~yk~k~Y~nal~~yt~Ai~~~-pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~-~~k~~~r~~~c~~a~~~  132 (486)
T KOG0550|consen   55 EGNAFYKQKTYGNALKNYTFAIDMC-PDNASYYSNRAATLMMLGRFEEALGDARQSVRLKDG-FSKGQLREGQCHLALSD  132 (486)
T ss_pred             hcchHHHHhhHHHHHHHHHHHHHhC-ccchhhhchhHHHHHHHHhHhhcccchhhheecCCC-ccccccchhhhhhhhHH
Confidence            4455666778888888888888775 555667777777777888888887766655543211 12233333334444444


Q ss_pred             HHHHHHHHH---------------HHhhcC-CCcchhhHHHH-HHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHH
Q 044047          106 VEHALKLFD---------------EMQHSD-VAAETSTYNTF-IDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLID  168 (260)
Q Consensus       106 ~~~a~~~~~---------------~~~~~~-~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  168 (260)
                      ..+|...++               ...... -+|.-.++..+ ..++...|++++|...--.+.+.. ..+......-..
T Consensus       133 ~i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~  211 (486)
T KOG0550|consen  133 LIEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD-ATNAEALYVRGL  211 (486)
T ss_pred             HHHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc-cchhHHHHhccc
Confidence            444433332               111111 11222333322 345677889999988877776554 333333322233


Q ss_pred             HHHhcCCHHHHHHHHHhhhhCCCCCchh---h----------HHHHHHHHHhcCChHHHHHHHHHHHhC---CCCCChhh
Q 044047          169 GLCKIGKLETAWELFQSLPRVGLMPNVV---T----------YNIMIHGFCNDGQMDKAHDLFLDMEAK---GVAPNCVT  232 (260)
Q Consensus       169 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~----------~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~p~~~~  232 (260)
                      ++-..++.+.+...|++....+  |+-.   +          +..-..-..+.|++.+|.+.|.+.+..   +..|+...
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            4456788999999999888764  4322   1          112223345789999999999999864   35566777


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHH
Q 044047          233 FNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       233 ~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      |.....+..+.|+.++|+.--++.
T Consensus       290 Y~nra~v~~rLgrl~eaisdc~~A  313 (486)
T KOG0550|consen  290 YGNRALVNIRLGRLREAISDCNEA  313 (486)
T ss_pred             HHHhHhhhcccCCchhhhhhhhhh
Confidence            877778888899999888665544

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.23  E-value=0.054  Score=41.05  Aligned_cols=82  Identities=15%  Similarity=0.136  Sum_probs=40.7

Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhc
Q 044047          129 NTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCND  208 (260)
Q Consensus       129 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  208 (260)
                      +..+.-+...|+...|.++-.+..    -|+...|...+.+++..++|++-.++...   .   -++.-|..++.+|...
T Consensus       181 ~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s---k---KsPIGyepFv~~~~~~  250 (319)
T PF04840_consen  181 NDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS---K---KSPIGYEPFVEACLKY  250 (319)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C---CCCCChHHHHHHHHHC
Confidence            333444444555555555444432    34555555555566666665555443321   1   1234455555555555


Q ss_pred             CChHHHHHHHHH
Q 044047          209 GQMDKAHDLFLD  220 (260)
Q Consensus       209 g~~~~a~~~~~~  220 (260)
                      |+..+|..+..+
T Consensus       251 ~~~~eA~~yI~k  262 (319)
T PF04840_consen  251 GNKKEASKYIPK  262 (319)
T ss_pred             CCHHHHHHHHHh
Confidence            555555555544

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

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.22  E-value=0.055  Score=41.01  Aligned_cols=83  Identities=12%  Similarity=0.277  Sum_probs=45.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 044047          163 YSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR  242 (260)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  242 (260)
                      .+..+.-+...|+...|.++-.+..    .|+..-|..-+.+++..++|++-..+...   .   -++.-|..++.+|.+
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s---k---KsPIGyepFv~~~~~  249 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS---K---KSPIGYEPFVEACLK  249 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C---CCCCChHHHHHHHHH
Confidence            3444555555666666665554443    25666666666666666666655554321   1   123455556666666


Q ss_pred             cCchhHHHHHHHH
Q 044047          243 NNETSKVVELLHR  255 (260)
Q Consensus       243 ~~~~~~a~~~~~~  255 (260)
                      .|+..+|..++.+
T Consensus       250 ~~~~~eA~~yI~k  262 (319)
T PF04840_consen  250 YGNKKEASKYIPK  262 (319)
T ss_pred             CCCHHHHHHHHHh
Confidence            6666666655554

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

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.22  E-value=0.028  Score=46.94  Aligned_cols=177  Identities=11%  Similarity=0.125  Sum_probs=106.2

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHhhcCCCCc--hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHh
Q 044047           24 STLIDGFCLTGEIDRARELFVSMDINGCMHN--VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLF  101 (260)
Q Consensus        24 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  101 (260)
                      ..-+..+.+..-++.|..+-+.   .+.+++  ..........+.+.|++++|...|-+.... +.|     ..++.-|.
T Consensus       338 e~kL~iL~kK~ly~~Ai~LAk~---~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfL  408 (933)
T KOG2114|consen  338 ETKLDILFKKNLYKVAINLAKS---QHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFL  408 (933)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHh---cCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhc
Confidence            3456666677777777766543   222222  234445556677789999998888776543 222     23556667


Q ss_pred             ccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 044047          102 EIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWE  181 (260)
Q Consensus       102 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  181 (260)
                      ...+....-.+++.+.+.|+ .+...-..|+.+|.+.++.++..++.+.....-...|.   ...+..+.+.+-.+.|..
T Consensus       409 daq~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~---e~al~Ilr~snyl~~a~~  484 (933)
T KOG2114|consen  409 DAQRIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDV---ETALEILRKSNYLDEAEL  484 (933)
T ss_pred             CHHHHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeH---HHHHHHHHHhChHHHHHH
Confidence            77788888888888888884 45556678889999988888877776654411111122   334555556666666655


Q ss_pred             HHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047          182 LFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDM  221 (260)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  221 (260)
                      +-.....     +......++   ...+++++|.+.+..+
T Consensus       485 LA~k~~~-----he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  485 LATKFKK-----HEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            5544332     222223322   3456666666665543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.19  E-value=0.014  Score=45.51  Aligned_cols=63  Identities=19%  Similarity=0.081  Sum_probs=32.5

Q ss_pred             ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcch---hhHHHHHHHHHhcCcHHHHHHHHHHhhh
Q 044047           90 VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAET---STYNTFIDGLCKNGYIVEAAELFRTLRV  153 (260)
Q Consensus        90 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~  153 (260)
                      ...++.+..+|...|++++|+..|++..+.+ |.+.   .+|..+..+|...|+.++|+..+++..+
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~-Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELN-PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445555555555555555555555555443 1122   2355555555555555555555555554

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.16  E-value=0.014  Score=42.26  Aligned_cols=96  Identities=21%  Similarity=0.171  Sum_probs=47.9

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhhcCC--CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC-C-chhhHHHHHH
Q 044047          128 YNTFIDGLCKNGYIVEAAELFRTLRVLKC--ELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM-P-NVVTYNIMIH  203 (260)
Q Consensus       128 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~  203 (260)
                      |+..+..+ ..|++..|...|...++...  ...+..+.+|..++...|+++.|..+|..+.+.-.. | -+.++-.|..
T Consensus       145 Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~  223 (262)
T COG1729         145 YNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGV  223 (262)
T ss_pred             HHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHH
Confidence            44444333 44446666666655554321  122334555566666666666666655555443211 1 1234445555


Q ss_pred             HHHhcCChHHHHHHHHHHHhC
Q 044047          204 GFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       204 ~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      +..+.|+.++|..+|++..+.
T Consensus       224 ~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         224 SLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHhcCHHHHHHHHHHHHHH
Confidence            555566666666666665554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.15  E-value=0.02  Score=43.75  Aligned_cols=124  Identities=18%  Similarity=0.110  Sum_probs=84.2

Q ss_pred             HHHhccccHHHHHHHHHHHhhc-----CC---------CcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHH
Q 044047           98 HGLFEIHQVEHALKLFDEMQHS-----DV---------AAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAY  163 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~-----~~---------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  163 (260)
                      +.+.+.|++..|..-|++....     +.         ..-...+..+..++.+.+++..|++.-......+ +.|+...
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            3456667777776666664321     11         1123467778888889999999999988888877 7788887


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhH-HHHHHHHHhcCC-hHHHHHHHHHHHhC
Q 044047          164 SCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTY-NIMIHGFCNDGQ-MDKAHDLFLDMEAK  224 (260)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~-~~~a~~~~~~~~~~  224 (260)
                      .--..++...|+++.|+..|+.+.+.  .|+-... +.++..-.+... .+...++|..|...
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            77888899999999999999998885  4554443 444444333333 34457778877653

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=97.11  E-value=0.1  Score=42.04  Aligned_cols=157  Identities=15%  Similarity=0.068  Sum_probs=102.6

Q ss_pred             HHHhccccHHHHHHHHHHHhhcC-CCcch-----hhHHHHHHHHHh----cCcHHHHHHHHHHhhhcCCCcCHHHHHHH-
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSD-VAAET-----STYNTFIDGLCK----NGYIVEAAELFRTLRVLKCELGIEAYSCL-  166 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-----~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-  166 (260)
                      ....-.|+-+.+++.+.+..+.+ +....     -.|...+..++.    ..+.+.+.+++..+...  -|+...|... 
T Consensus       196 ~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~~~  273 (468)
T PF10300_consen  196 SFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLFFE  273 (468)
T ss_pred             hhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHHHH
Confidence            44455688888888888765533 22111     123333333332    45677899999988875  4666555443 


Q ss_pred             HHHHHhcCCHHHHHHHHHhhhhCC---CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHH-HHHHh
Q 044047          167 IDGLCKIGKLETAWELFQSLPRVG---LMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLM-LGCIR  242 (260)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~-~~~~~  242 (260)
                      .+.+...|++++|.+.++......   .+.....+.-+..++....+|++|.+.|..+.+.. .-+..+|..+. .++..
T Consensus       274 gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~  352 (468)
T PF10300_consen  274 GRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAACLLM  352 (468)
T ss_pred             HHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHh
Confidence            567778999999999999765321   11233456667777888999999999999999753 22444454443 34455


Q ss_pred             cCch-------hHHHHHHHHHh
Q 044047          243 NNET-------SKVVELLHRMD  257 (260)
Q Consensus       243 ~~~~-------~~a~~~~~~m~  257 (260)
                      .|+.       ++|.++++++.
T Consensus       353 l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  353 LGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             hccchhhhhhHHHHHHHHHHHH
Confidence            7777       88888887764

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.

>PRK11906 transcriptional regulator; Provisional

Probab=97.07  E-value=0.075  Score=41.77  Aligned_cols=113  Identities=13%  Similarity=-0.045  Sum_probs=67.5

Q ss_pred             ChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHH
Q 044047           70 DVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFR  149 (260)
Q Consensus        70 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  149 (260)
                      +..+|.++.++..+.+.. |......+..+....++.+.+...|++....+ |....+|....-.+.-+|+.++|.+.++
T Consensus       319 ~~~~a~~~A~rAveld~~-Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~  396 (458)
T PRK11906        319 AAQKALELLDYVSDITTV-DGKILAIMGLITGLSGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICID  396 (458)
T ss_pred             HHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            345666666666666544 66666666666667777777777777777665 4455566666666667777777777777


Q ss_pred             HhhhcCC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHh
Q 044047          150 TLRVLKC-ELGIEAYSCLIDGLCKIGKLETAWELFQS  185 (260)
Q Consensus       150 ~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  185 (260)
                      ...+... ..........+..|+.. ..+.|.+++.+
T Consensus       397 ~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  432 (458)
T PRK11906        397 KSLQLEPRRRKAVVIKECVDMYVPN-PLKNNIKLYYK  432 (458)
T ss_pred             HHhccCchhhHHHHHHHHHHHHcCC-chhhhHHHHhh
Confidence            7554421 11122233334455444 45566666544

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.07  E-value=0.012  Score=45.14  Aligned_cols=254  Identities=14%  Similarity=0.032  Sum_probs=149.4

Q ss_pred             HHHHHHHHHHcCC---CccHHHHHHHHHHHhccCCHHHHHHHHHHH--hhc--CCC-CchhhHHHHHHHHHhcCChHHHH
Q 044047            4 ASRLLDLMIQRGV---RPNAFVYSTLIDGFCLTGEIDRARELFVSM--DIN--GCM-HNVVTYNTLINGYCKTKDVEESL   75 (260)
Q Consensus         4 a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--~~~--~~~-~~~~~~~~l~~~~~~~~~~~~a~   75 (260)
                      .+.+|+...+.|-   +.=...|..|..+|.-.+++++|+++...=  ...  |-. -...+-..+...+--.|.+++|+
T Consensus        36 Gv~ff~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtlKv~G~fdeA~  115 (639)
T KOG1130|consen   36 GVDFFKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTLKVKGAFDEAL  115 (639)
T ss_pred             hHHHHHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchhhhhcccchHH
Confidence            4567777777762   222356777888888889999998865321  110  100 01112223333444456666665


Q ss_pred             HHHHHH----HhcCCC-CCccchHHHHHHHhccc--------------------cHHHHHHHHHHHhh----cCC-Ccch
Q 044047           76 NLYSEM----LSKGIR-PTVVTYNTLFHGLFEIH--------------------QVEHALKLFDEMQH----SDV-AAET  125 (260)
Q Consensus        76 ~~~~~~----~~~~~~-~~~~~~~~l~~~~~~~~--------------------~~~~a~~~~~~~~~----~~~-~~~~  125 (260)
                      -.-.+-    .+.|-+ .....+..+...|...|                    .++.|.++|..-.+    .|- -...
T Consensus       116 ~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~~~lgDr~aqG  195 (639)
T KOG1130|consen  116 TCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELSEKLGDRLAQG  195 (639)
T ss_pred             HHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhc
Confidence            433221    111110 12233444555554333                    23445555554222    110 1123


Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHhh----hcCC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhh----CCCC-Cch
Q 044047          126 STYNTFIDGLCKNGYIVEAAELFRTLR----VLKC-ELGIEAYSCLIDGLCKIGKLETAWELFQSLPR----VGLM-PNV  195 (260)
Q Consensus       126 ~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~-~~~  195 (260)
                      ..|..+...|.-.|+++.|+...+.-.    +.|- ......++.+.+++.-.|+++.|.+.|+....    .|-+ ...
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            456667777777889999987765422    2221 12345788899999999999999998876432    2211 234


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhC-----CCCCChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          196 VTYNIMIHGFCNDGQMDKAHDLFLDMEAK-----GVAPNCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       196 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      .+..+|...|.-..++++|+.++.+-+..     ...-....+.+|..++...|..++|+.+...-.
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            55667888888888899999888765421     122356788899999999999999998776543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=97.06  E-value=0.12  Score=41.74  Aligned_cols=160  Identities=19%  Similarity=0.073  Sum_probs=104.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCc------cchHHHHHHHhc----cccHHHHHHHHHHHhhcCCCcchhhHH
Q 044047           60 TLINGYCKTKDVEESLNLYSEMLSKGIRPTV------VTYNTLFHGLFE----IHQVEHALKLFDEMQHSDVAAETSTYN  129 (260)
Q Consensus        60 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  129 (260)
                      .++....=.||-+.+++.+.+..+.+--..+      ..|+..+..+..    ....+.+.++++.+.+.-  |+...|.
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~y--P~s~lfl  270 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRY--PNSALFL  270 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhC--CCcHHHH
Confidence            3444445568889999998887654211122      223333333333    456788999999998763  4544443


Q ss_pred             -HHHHHHHhcCcHHHHHHHHHHhhhcC---CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHH-H
Q 044047          130 -TFIDGLCKNGYIVEAAELFRTLRVLK---CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIH-G  204 (260)
Q Consensus       130 -~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-~  204 (260)
                       .-.+.+...|++++|++.|+......   .+.....+--+...+.-.++|++|...|..+.+.. ..+...|..+.. +
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHH
Confidence             44567788999999999999765321   12233345566777888999999999999998864 224445544443 3


Q ss_pred             HHhcCCh-------HHHHHHHHHHH
Q 044047          205 FCNDGQM-------DKAHDLFLDME  222 (260)
Q Consensus       205 ~~~~g~~-------~~a~~~~~~~~  222 (260)
                      +...|+.       ++|.++|.+..
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHH
Confidence            4457777       88888888764

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.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.04  E-value=0.045  Score=40.97  Aligned_cols=154  Identities=10%  Similarity=0.019  Sum_probs=103.8

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhc---CCCcchhhHHHHHHHHHhcCcHH
Q 044047           66 CKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHS---DVAAETSTYNTFIDGLCKNGYIV  142 (260)
Q Consensus        66 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~  142 (260)
                      -..|+..+|-..++++.+. .+.|...+...=.++...|+.+.-...++++...   ++|-....-..+.-++..+|.++
T Consensus       114 ~~~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  114 WGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             hccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccch
Confidence            3457777787888888776 3446667777777888888888888888887543   33322333334455566789999


Q ss_pred             HHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC---CCCchhhHHHHHHHHHhcCChHHHHHHHH
Q 044047          143 EAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVG---LMPNVVTYNIMIHGFCNDGQMDKAHDLFL  219 (260)
Q Consensus       143 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  219 (260)
                      +|++.-++..+.+ +.|.-...+....+-..|+..++.++..+-...=   .-.-...|-...-.+...+.++.|+++|+
T Consensus       193 dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  193 DAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            9999888887766 6677677777777888888888888776543320   00012234444445566788999999887


Q ss_pred             HH
Q 044047          220 DM  221 (260)
Q Consensus       220 ~~  221 (260)
                      .-
T Consensus       272 ~e  273 (491)
T KOG2610|consen  272 RE  273 (491)
T ss_pred             HH
Confidence            54

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.98  E-value=0.032  Score=42.69  Aligned_cols=62  Identities=13%  Similarity=0.060  Sum_probs=31.4

Q ss_pred             chHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhc
Q 044047           92 TYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus        92 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  154 (260)
                      ++..+.-++.+.+++..|+....+....+ ++|.....--..++...|+++.|+..|+.+.+.
T Consensus       259 ~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~  320 (397)
T KOG0543|consen  259 CHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKL  320 (397)
T ss_pred             HhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            34444445555555555555555554444 444444444455555555555555555555544

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.95  E-value=0.061  Score=40.34  Aligned_cols=153  Identities=12%  Similarity=0.043  Sum_probs=110.2

Q ss_pred             ccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhc---CCCcCHHHHHHHHHHHHhcCCHHH
Q 044047          102 EIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVL---KCELGIEAYSCLIDGLCKIGKLET  178 (260)
Q Consensus       102 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~  178 (260)
                      ..|++.+|-..++++.+. .|.|...+...=.+|...|+.......++++...   +.|..+.....+.-++..+|-+++
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            457777888888888876 4778888888888999999999999888888754   222223334455566678999999


Q ss_pred             HHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC---CCCCChhhHHHHHHHHHhcCchhHHHHHHHH
Q 044047          179 AWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK---GVAPNCVTFNTLMLGCIRNNETSKVVELLHR  255 (260)
Q Consensus       179 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  255 (260)
                      |++.-++..+.+ +.|.-+-......+.-.|++.++.++..+-.+.   +.-.-..-|-...-.+...+.++.|.++|++
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            999999888764 235556677777888899999999988765433   1111123344455566777999999999876


Q ss_pred             H
Q 044047          256 M  256 (260)
Q Consensus       256 m  256 (260)
                      -
T Consensus       273 e  273 (491)
T KOG2610|consen  273 E  273 (491)
T ss_pred             H
Confidence            3

>PRK11906 transcriptional regulator; Provisional

Probab=96.94  E-value=0.13  Score=40.44  Aligned_cols=114  Identities=12%  Similarity=0.062  Sum_probs=85.2

Q ss_pred             ccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 044047          104 HQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELF  183 (260)
Q Consensus       104 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  183 (260)
                      ....+|.++-+...+.+ +.|+.....+..+....++++.|..+|++....+ +....+|......+.-.|+.++|.+.+
T Consensus       318 ~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i  395 (458)
T PRK11906        318 LAAQKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICI  395 (458)
T ss_pred             HHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            44567788888888887 7788888888888888999999999999998875 555667777777888899999999999


Q ss_pred             HhhhhCCCCCch---hhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047          184 QSLPRVGLMPNV---VTYNIMIHGFCNDGQMDKAHDLFLDME  222 (260)
Q Consensus       184 ~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~  222 (260)
                      ++..+..  |..   ......+..|+.. ..+.|..++-+-.
T Consensus       396 ~~alrLs--P~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~  434 (458)
T PRK11906        396 DKSLQLE--PRRRKAVVIKECVDMYVPN-PLKNNIKLYYKET  434 (458)
T ss_pred             HHHhccC--chhhHHHHHHHHHHHHcCC-chhhhHHHHhhcc
Confidence            9977753  432   2333334455544 5677777775433

>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=96.91  E-value=0.15  Score=40.59  Aligned_cols=159  Identities=16%  Similarity=0.190  Sum_probs=88.9

Q ss_pred             HHHHhccCCHHHHHHHHHHH-hhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcccc
Q 044047           27 IDGFCLTGEIDRARELFVSM-DINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQ  105 (260)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  105 (260)
                      .....-.++++.+.+....- .-..+  +..-.+.++..+-+.|-.+.|+++...-.            .-.....+.|+
T Consensus       268 fk~av~~~d~~~v~~~i~~~~ll~~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~  333 (443)
T PF04053_consen  268 FKTAVLRGDFEEVLRMIAASNLLPNI--PKDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGN  333 (443)
T ss_dssp             HHHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-
T ss_pred             HHHHHHcCChhhhhhhhhhhhhcccC--ChhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCC
Confidence            34444567777766666411 11111  24446777777777788877776654321            22334556777


Q ss_pred             HHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHh
Q 044047          106 VEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQS  185 (260)
Q Consensus       106 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  185 (260)
                      .+.|.++-++.      .+...|..|.......|+++-|++.+.+...         +..++-.|...|+.+...++.+.
T Consensus       334 L~~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~  398 (443)
T PF04053_consen  334 LDIALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKI  398 (443)
T ss_dssp             HHHHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHH
Confidence            77777665442      3556788888888888888888877776542         45566667777777777777766


Q ss_pred             hhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHH
Q 044047          186 LPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLD  220 (260)
Q Consensus       186 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  220 (260)
                      ....|      -++....++.-.|+.++..+++.+
T Consensus       399 a~~~~------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  399 AEERG------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHcc------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            66543      234444455556676666666543

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.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.90  E-value=0.1  Score=38.42  Aligned_cols=50  Identities=14%  Similarity=0.068  Sum_probs=22.9

Q ss_pred             hccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047           31 CLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus        31 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ...|++.+|..+|....... +-+...--.++.+|...|+.+.|..++..+
T Consensus       145 ~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~l  194 (304)
T COG3118         145 IEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAAL  194 (304)
T ss_pred             hhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhC
Confidence            34444455555444444332 223334444444555555555555544444

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.88  E-value=0.0049  Score=31.31  Aligned_cols=39  Identities=15%  Similarity=0.181  Sum_probs=22.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHH
Q 044047           22 VYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTL   61 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   61 (260)
                      ++..+...|.+.|++++|.++|+++.+.. |-|...+..+
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~-P~~~~a~~~L   41 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALD-PDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCCHHHHHHh
Confidence            45556666666666666666666666554 4444444433

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.86  E-value=0.11  Score=38.25  Aligned_cols=152  Identities=13%  Similarity=0.099  Sum_probs=103.9

Q ss_pred             HHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHH
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLE  177 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  177 (260)
                      ......|+..+|..+|+...... +-+......++.+|...|+.+.|..++..+....-.........-+..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            34567789999999999887765 44566777889999999999999999998765432222233333445555555555


Q ss_pred             HHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC--CCCCChhhHHHHHHHHHhcCchhHHHHHH
Q 044047          178 TAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK--GVAPNCVTFNTLMLGCIRNNETSKVVELL  253 (260)
Q Consensus       178 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  253 (260)
                      +...+-......  +-|...-..+...+...|+.+.|.+.+-.+...  |.. |...-..+++.+.--|.-+.+..-+
T Consensus       221 ~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g~~Dp~~~~~  295 (304)
T COG3118         221 EIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFGPADPLVLAY  295 (304)
T ss_pred             CHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcCCCCHHHHHH
Confidence            555555555543  125666677888899999999999988877655  333 5566677888887777544443333

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.76  E-value=0.19  Score=39.48  Aligned_cols=146  Identities=17%  Similarity=0.127  Sum_probs=96.7

Q ss_pred             ccchHHHHHHHhccccHHHHHHHHHHHhhcC-CCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHH
Q 044047           90 VVTYNTLFHGLFEIHQVEHALKLFDEMQHSD-VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLID  168 (260)
Q Consensus        90 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  168 (260)
                      ..+|...+....+..-.+.|..+|-++.+.+ +.++...+++++..++ .|++..|.++|+.-...- +.++.-.+-.+.
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f-~d~~~y~~kyl~  474 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKF-PDSTLYKEKYLL  474 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhC-CCchHHHHHHHH
Confidence            3456667777777778888888888888877 5567777777777654 577788888887655432 333333455667


Q ss_pred             HHHhcCCHHHHHHHHHhhhhCCCCCc--hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 044047          169 GLCKIGKLETAWELFQSLPRVGLMPN--VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGC  240 (260)
Q Consensus       169 ~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  240 (260)
                      .+...++-+.|..+|+..... +..+  ...|..++..-..-|+...+..+=++|...  .|...+......-|
T Consensus       475 fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry  545 (660)
T COG5107         475 FLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRY  545 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHH
Confidence            777888888888888855443 1112  457788888777788887777777777653  44444433333333

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.74  E-value=0.15  Score=38.24  Aligned_cols=24  Identities=21%  Similarity=0.353  Sum_probs=12.8

Q ss_pred             HHHHHHHHhhhcCCCcCHHHHHHH
Q 044047          143 EAAELFRTLRVLKCELGIEAYSCL  166 (260)
Q Consensus       143 ~a~~~~~~~~~~~~~~~~~~~~~l  166 (260)
                      .+.++++.+.+.++++....|..+
T Consensus       200 r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  200 RVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHcCCccccccccHH
Confidence            455555555555555555544443

>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=96.74  E-value=0.21  Score=39.84  Aligned_cols=157  Identities=19%  Similarity=0.179  Sum_probs=104.5

Q ss_pred             HHHHhcCChHHHHHHHH--HHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCc
Q 044047           63 NGYCKTKDVEESLNLYS--EMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGY  140 (260)
Q Consensus        63 ~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  140 (260)
                      +...-.++++++.++.+  ++... +  +..-.+.++..+.+.|.++.|+++-..         +.   .-.....+.|+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~-i--~~~~~~~i~~fL~~~G~~e~AL~~~~D---------~~---~rFeLAl~lg~  333 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPN-I--PKDQGQSIARFLEKKGYPELALQFVTD---------PD---HRFELALQLGN  333 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG-----HHHHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-
T ss_pred             HHHHHcCChhhhhhhhhhhhhccc-C--ChhHHHHHHHHHHHCCCHHHHHhhcCC---------hH---HHhHHHHhcCC
Confidence            44455788888877775  22211 2  244577888889999999999887433         21   22345567899


Q ss_pred             HHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHH
Q 044047          141 IVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLD  220 (260)
Q Consensus       141 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  220 (260)
                      ++.|.++.++      ..++..|..|.......|+++-|.+.+.+..+         +..|+-.|...|+.+.-.++.+.
T Consensus       334 L~~A~~~a~~------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~  398 (443)
T PF04053_consen  334 LDIALEIAKE------LDDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKI  398 (443)
T ss_dssp             HHHHHHHCCC------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHh------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHH
Confidence            9999876543      34778999999999999999999999987653         45667778889999888888887


Q ss_pred             HHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHH
Q 044047          221 MEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHR  255 (260)
Q Consensus       221 ~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  255 (260)
                      ....|-      ++....++.-.|+.++..+++.+
T Consensus       399 a~~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  399 AEERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            776642      45566667777888888777765

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.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.72  E-value=0.062  Score=38.98  Aligned_cols=97  Identities=19%  Similarity=0.196  Sum_probs=63.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC--CchhhHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCC-ChhhHHHHH
Q 044047          162 AYSCLIDGLCKIGKLETAWELFQSLPRVGLM--PNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK-GVAP-NCVTFNTLM  237 (260)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~p-~~~~~~~l~  237 (260)
                      .|+.-+. +.+.|++..|...|....+....  -....+-+|..++...|+++.|..+|..+.+. +-.| -+..+-.|.
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 LYNAALD-LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            4554444 34566688888888777765321  11345667778888888888888888777654 1122 235666777


Q ss_pred             HHHHhcCchhHHHHHHHHHhhc
Q 044047          238 LGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       238 ~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      .+..+.|+.++|..+|++++++
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            7777788888888888777653

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.70  E-value=0.075  Score=34.08  Aligned_cols=64  Identities=13%  Similarity=0.175  Sum_probs=38.5

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhcC
Q 044047          196 VTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDERN  260 (260)
Q Consensus       196 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  260 (260)
                      ......+..+..+|+-++-.+++.++.+. -.+++...-.+..+|.+.|+..++.+++++.-++|
T Consensus        87 e~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   87 EYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            34455556666777777777777776643 35566666777777777777777777777766654

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.67  E-value=0.036  Score=40.74  Aligned_cols=79  Identities=5%  Similarity=0.112  Sum_probs=56.3

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhh-----cCCCcchhhHH
Q 044047           55 VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQH-----SDVAAETSTYN  129 (260)
Q Consensus        55 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  129 (260)
                      ..++..++..+...|+++.+.+.++++....+. +...|..++.+|.+.|+...|+..|+++.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~-~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPY-DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            445667777777777777777777777776443 677777777788888877777777777643     56777766666


Q ss_pred             HHHHH
Q 044047          130 TFIDG  134 (260)
Q Consensus       130 ~l~~~  134 (260)
                      .....
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            66555

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.65  E-value=0.23  Score=39.04  Aligned_cols=131  Identities=15%  Similarity=0.170  Sum_probs=99.4

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcC-CCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHH
Q 044047           56 VTYNTLINGYCKTKDVEESLNLYSEMLSKG-IRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDG  134 (260)
Q Consensus        56 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  134 (260)
                      .+|...+....+..-.+.|..+|-++.+.| +.+++..+++++..++. |+..-|..+|+--... .+.++.-....+..
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~-f~d~~~y~~kyl~f  475 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK-FPDSTLYKEKYLLF  475 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh-CCCchHHHHHHHHH
Confidence            346667777777778899999999999998 66788889999987765 7778899999875443 23444445567778


Q ss_pred             HHhcCcHHHHHHHHHHhhhcCCCcC--HHHHHHHHHHHHhcCCHHHHHHHHHhhhhC
Q 044047          135 LCKNGYIVEAAELFRTLRVLKCELG--IEAYSCLIDGLCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       135 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  189 (260)
                      +...++-+.|..+|+..+..- ..+  ...|..++..-..-|+...+..+=+.+...
T Consensus       476 Li~inde~naraLFetsv~r~-~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~  531 (660)
T COG5107         476 LIRINDEENARALFETSVERL-EKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL  531 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHHH-HHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH
Confidence            888999999999999665431 223  568889999888999998887777776654

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.65  E-value=0.14  Score=36.66  Aligned_cols=195  Identities=14%  Similarity=0.180  Sum_probs=86.7

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchh------hHHHHHHHHHhcCChHHHHHHHHHHHh----cCCCCC
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVV------TYNTLINGYCKTKDVEESLNLYSEMLS----KGIRPT   89 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~   89 (260)
                      ...|..-..+|....++++|...+.+..+. ...+..      .|...+...-....+.++..++++...    .| .|+
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhAAKayEqaamLake~~klsEvvdl~eKAs~lY~E~G-spd  108 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHAAKAYEQAAMLAKELSKLSEVVDLYEKASELYVECG-SPD  108 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhC-Ccc
Confidence            445666677777788888888777666421 122222      233333333444455556665555432    22 122


Q ss_pred             ccch--HHHHHHHhccccHHHHHHHHHHHhhc---C--CCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhc----CCCc
Q 044047           90 VVTY--NTLFHGLFEIHQVEHALKLFDEMQHS---D--VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVL----KCEL  158 (260)
Q Consensus        90 ~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~---~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~  158 (260)
                      +..-  .-..+ ....-+++.|+++|++....   +  ...-...+....+.+.+...+++|-..+.+-...    .--+
T Consensus       109 tAAmaleKAak-~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~  187 (308)
T KOG1585|consen  109 TAAMALEKAAK-ALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYN  187 (308)
T ss_pred             hHHHHHHHHHH-HhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcc
Confidence            2111  11111 12334556666666554221   1  0011223334444455555555544443322110    0011


Q ss_pred             CH-HHHHHHHHHHHhcCCHHHHHHHHHhhhhCC---CCCchhhHHHHHHHHHhcCChHHHHHHH
Q 044047          159 GI-EAYSCLIDGLCKIGKLETAWELFQSLPRVG---LMPNVVTYNIMIHGFCNDGQMDKAHDLF  218 (260)
Q Consensus       159 ~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~a~~~~  218 (260)
                      +. ..|-..|-.+....++..|...++.-.+.+   -.-+..+...|+.+| ..|+.+++..++
T Consensus       188 ~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  188 SQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             cHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            11 223444445555556666666666533321   111344555555554 345555554443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.63  E-value=0.097  Score=34.42  Aligned_cols=84  Identities=12%  Similarity=0.079  Sum_probs=44.3

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccc
Q 044047           25 TLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIH  104 (260)
Q Consensus        25 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  104 (260)
                      .++..+.+.+.......+++.+...+ +.+...++.++..|++.+. ++.+..++.      .++.......++.|.+.+
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~~-~~ll~~l~~------~~~~yd~~~~~~~c~~~~   83 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYDP-QKEIERLDN------KSNHYDIEKVGKLCEKAK   83 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHCH-HHHHHHHHh------ccccCCHHHHHHHHHHcC
Confidence            35555555566666666666666555 3555566666666665432 333333331      112333344555555555


Q ss_pred             cHHHHHHHHHHH
Q 044047          105 QVEHALKLFDEM  116 (260)
Q Consensus       105 ~~~~a~~~~~~~  116 (260)
                      .++++..++.++
T Consensus        84 l~~~~~~l~~k~   95 (140)
T smart00299       84 LYEEAVELYKKD   95 (140)
T ss_pred             cHHHHHHHHHhh
Confidence            555555555543

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.54  E-value=0.25  Score=38.08  Aligned_cols=79  Identities=14%  Similarity=0.129  Sum_probs=36.6

Q ss_pred             HHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcC
Q 044047          167 IDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK-GVAP-NCVTFNTLMLGCIRNN  244 (260)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~p-~~~~~~~l~~~~~~~~  244 (260)
                      ..++.+.|+..++-.+++.+-+....|+  .+..  -...+.|+.  +..-+++.... .+.| +......+.++....|
T Consensus       270 Aralf~d~~~rKg~~ilE~aWK~ePHP~--ia~l--Y~~ar~gdt--a~dRlkRa~~L~slk~nnaes~~~va~aAlda~  343 (531)
T COG3898         270 ARALFRDGNLRKGSKILETAWKAEPHPD--IALL--YVRARSGDT--ALDRLKRAKKLESLKPNNAESSLAVAEAALDAG  343 (531)
T ss_pred             HHHHHhccchhhhhhHHHHHHhcCCChH--HHHH--HHHhcCCCc--HHHHHHHHHHHHhcCccchHHHHHHHHHHHhcc
Confidence            4556666666666666666665543333  2211  122334432  23333322211 1233 3344445556666666


Q ss_pred             chhHHHH
Q 044047          245 ETSKVVE  251 (260)
Q Consensus       245 ~~~~a~~  251 (260)
                      ++..|..
T Consensus       344 e~~~ARa  350 (531)
T COG3898         344 EFSAARA  350 (531)
T ss_pred             chHHHHH
Confidence            6655543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.54  E-value=0.028  Score=40.95  Aligned_cols=90  Identities=13%  Similarity=0.158  Sum_probs=69.2

Q ss_pred             CccHHHHHHHHHHHhcc-----CCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcC----------------ChHHHH
Q 044047           17 RPNAFVYSTLIDGFCLT-----GEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTK----------------DVEESL   75 (260)
Q Consensus        17 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------~~~~a~   75 (260)
                      ..|-.+|-..+..+...     +.++-....++.|.+.|+..|..+|+.|+..+-+-.                +-+-++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            34666777777776543     566767777888889999999999999998765432                234678


Q ss_pred             HHHHHHHhcCCCCCccchHHHHHHHhccccH
Q 044047           76 NLYSEMLSKGIRPTVVTYNTLFHGLFEIHQV  106 (260)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  106 (260)
                      .++++|...|+.||..+-..++.++.+.+-.
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            8999999999999999999999998877653

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.50  E-value=0.1  Score=33.39  Aligned_cols=90  Identities=21%  Similarity=0.162  Sum_probs=43.9

Q ss_pred             HhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHH---HHHHHHHHHhcCCH
Q 044047          100 LFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEA---YSCLIDGLCKIGKL  176 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~  176 (260)
                      ++..|+.+.|++.|.+....- |-..+.||.-..++.-.|+.++|+.-+++..+..-+-+...   |..-...|...|+-
T Consensus        53 laE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~d  131 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGND  131 (175)
T ss_pred             HHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCch
Confidence            444555555555555554432 33445555555555555555555555555444321222221   22223344455555


Q ss_pred             HHHHHHHHhhhhCC
Q 044047          177 ETAWELFQSLPRVG  190 (260)
Q Consensus       177 ~~a~~~~~~~~~~~  190 (260)
                      +.|..=|+...+.|
T Consensus       132 d~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  132 DAARADFEAAAQLG  145 (175)
T ss_pred             HHHHHhHHHHHHhC
Confidence            55555555555444

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.50  E-value=0.015  Score=29.42  Aligned_cols=22  Identities=23%  Similarity=0.181  Sum_probs=8.7

Q ss_pred             HHHHHHhcCcHHHHHHHHHHhh
Q 044047          131 FIDGLCKNGYIVEAAELFRTLR  152 (260)
Q Consensus       131 l~~~~~~~~~~~~a~~~~~~~~  152 (260)
                      +...|...|++++|+++++++.
T Consensus         7 la~~~~~~G~~~~A~~~~~~~l   28 (44)
T PF13428_consen    7 LARAYRRLGQPDEAERLLRRAL   28 (44)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Confidence            3333333444444444443333

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=96.49  E-value=0.14  Score=34.63  Aligned_cols=32  Identities=19%  Similarity=0.429  Sum_probs=15.2

Q ss_pred             HHHHHhhcCCCcchhhHHHHHHHHHhcCcHHH
Q 044047          112 LFDEMQHSDVAAETSTYNTFIDGLCKNGYIVE  143 (260)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  143 (260)
                      +++.+.+.+++|+...+..++..+.+.|++..
T Consensus        16 YirSl~~~~i~~~~~L~~lli~lLi~~~~~~~   47 (167)
T PF07035_consen   16 YIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ   47 (167)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Confidence            33334444445555555555555555554443

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=96.43  E-value=0.25  Score=36.86  Aligned_cols=223  Identities=12%  Similarity=0.105  Sum_probs=123.8

Q ss_pred             HhccCCHHHHHHHHHHHhhcC--CCCchh------hHHHHHHHHHhcC-ChHHHHHHHHHHHhc----C----CCCC---
Q 044047           30 FCLTGEIDRARELFVSMDING--CMHNVV------TYNTLINGYCKTK-DVEESLNLYSEMLSK----G----IRPT---   89 (260)
Q Consensus        30 ~~~~~~~~~a~~~~~~~~~~~--~~~~~~------~~~~l~~~~~~~~-~~~~a~~~~~~~~~~----~----~~~~---   89 (260)
                      ..+.|+.+.|..++.+.....  ..|+..      .|+.-.. ....+ +++.|..++++..+.    +    ..|+   
T Consensus         3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~-l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~e   81 (278)
T PF08631_consen    3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKS-LLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSE   81 (278)
T ss_pred             chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHH-HHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHH
Confidence            356899999999998886532  223221      2333333 34455 888888887776443    1    1222   


Q ss_pred             --ccchHHHHHHHhccccHH---HHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHH
Q 044047           90 --VVTYNTLFHGLFEIHQVE---HALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYS  164 (260)
Q Consensus        90 --~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  164 (260)
                        ..+...++.+|...+..+   +|..+++.+... .+..+..+..-+..+.+.++.+.+.+.+..|...- ......+.
T Consensus        82 lr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~  159 (278)
T PF08631_consen   82 LRLSILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFD  159 (278)
T ss_pred             HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHH
Confidence              234556777777766654   455566666443 24445666677788888899999999999998753 22333444


Q ss_pred             HHHHHH---HhcCCHHHHHHHHHhhhhCCCCCchh-hHHH-HH-HHH--HhcCC------hHHHHHHHHHHHhC-CCCCC
Q 044047          165 CLIDGL---CKIGKLETAWELFQSLPRVGLMPNVV-TYNI-MI-HGF--CNDGQ------MDKAHDLFLDMEAK-GVAPN  229 (260)
Q Consensus       165 ~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~-l~-~~~--~~~g~------~~~a~~~~~~~~~~-~~~p~  229 (260)
                      .++..+   .... ...+...+..+....+.|... .... ++ ..+  .+.++      .+....+++...+. +.+.+
T Consensus       160 ~~l~~i~~l~~~~-~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls  238 (278)
T PF08631_consen  160 SILHHIKQLAEKS-PELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLS  238 (278)
T ss_pred             HHHHHHHHHHhhC-cHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCC
Confidence            444444   3333 345555665555444444443 1111 11 111  12211      44455555543332 33444


Q ss_pred             hhhHHHHH-------HHHHhcCchhHHHHHHHHH
Q 044047          230 CVTFNTLM-------LGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       230 ~~~~~~l~-------~~~~~~~~~~~a~~~~~~m  256 (260)
                      ..+-..+.       ..+.+.++++.|.++++-.
T Consensus       239 ~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  239 AEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHH
Confidence            44433322       3456789999999998743

It is also involved in sporulation [].

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.39  E-value=0.046  Score=39.93  Aligned_cols=91  Identities=12%  Similarity=0.205  Sum_probs=72.8

Q ss_pred             CCchhhHHHHHHHHHhc-----CChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccc----------------cHHHHH
Q 044047           52 MHNVVTYNTLINGYCKT-----KDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIH----------------QVEHAL  110 (260)
Q Consensus        52 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------~~~~a~  110 (260)
                      +.|..+|-..+..+...     +.++-....++.|.+-|+.-|..+|+.|+..+-+..                +-+-++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            45667777777666543     567777888899999999999999999998765432                334578


Q ss_pred             HHHHHHhhcCCCcchhhHHHHHHHHHhcCcHH
Q 044047          111 KLFDEMQHSDVAAETSTYNTFIDGLCKNGYIV  142 (260)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  142 (260)
                      .++++|...|+.||..+-..+++++.+.+..-
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~  175 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNFPT  175 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccccH
Confidence            99999999999999999999999999887654

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.36  E-value=0.4  Score=39.91  Aligned_cols=183  Identities=18%  Similarity=0.139  Sum_probs=103.0

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc-CCCCCccchHHHHH----------HHhccccHHHHHHHHHHHhhcC
Q 044047           52 MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK-GIRPTVVTYNTLFH----------GLFEIHQVEHALKLFDEMQHSD  120 (260)
Q Consensus        52 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~----------~~~~~~~~~~a~~~~~~~~~~~  120 (260)
                      .|.+..|..+.......-+++.|...|-+...- |++    ....|-.          .-+--|++++|.++|-.+-+.+
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik----~vkrl~~i~s~~~q~aei~~~~g~feeaek~yld~drrD  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIK----LVKRLRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRRD  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchh----HHHHhhhhhhHHHHhHhHhhhhcchhHhhhhhhccchhh
Confidence            588999999998888777888888777655431 221    1111111          1123478889988887775543


Q ss_pred             CCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC-CCcCHHHHHHHHHHHHhcCCHHHHHHHHHh-------------h
Q 044047          121 VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK-CELGIEAYSCLIDGLCKIGKLETAWELFQS-------------L  186 (260)
Q Consensus       121 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-------------~  186 (260)
                               ..+..+.+.|++-...++++.--... -..-...++.+...+.....|++|.+.+..             +
T Consensus       765 ---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~e~~~ecly~l  835 (1189)
T KOG2041|consen  765 ---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDTENQIECLYRL  835 (1189)
T ss_pred             ---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHhHHHHHHHH
Confidence                     34455566666666655554311000 000112344444444444444444443322             1


Q ss_pred             hh--------CCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          187 PR--------VGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       187 ~~--------~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      ..        ..++-+....-.+..++.+.|.-++|.+.+-+.-.    |     ...+..|...++|.+|.++-++.
T Consensus       836 e~f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~----p-----kaAv~tCv~LnQW~~avelaq~~  904 (1189)
T KOG2041|consen  836 ELFGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYLRRSL----P-----KAAVHTCVELNQWGEAVELAQRF  904 (1189)
T ss_pred             HhhhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHHhccC----c-----HHHHHHHHHHHHHHHHHHHHHhc
Confidence            11        11333455566677788888888888777644321    1     24567788888888888877653

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.27  E-value=0.44  Score=38.01  Aligned_cols=59  Identities=17%  Similarity=0.168  Sum_probs=35.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhhhCCCC-CchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          165 CLIDGLCKIGKLETAWELFQSLPRVGLM-PNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      .+..++-+.|+.++|.+.++++.+.... .+......|+.++...+.+.++..++.+-.+
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            3455555667777777777666543211 1234555666667777777777776666543

The molecular function of this protein is uncertain.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.21  E-value=0.18  Score=33.08  Aligned_cols=85  Identities=13%  Similarity=0.090  Sum_probs=44.0

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhc
Q 044047           59 NTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKN  138 (260)
Q Consensus        59 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  138 (260)
                      ..++..+...+.......+++.+...+. .+...++.++..|++.+ .......++.      ..+......+++.|.+.
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            3445555555666666666666666553 35556666666666543 2333333331      11223334455555566


Q ss_pred             CcHHHHHHHHHHh
Q 044047          139 GYIVEAAELFRTL  151 (260)
Q Consensus       139 ~~~~~a~~~~~~~  151 (260)
                      +.++++.-++..+
T Consensus        83 ~l~~~~~~l~~k~   95 (140)
T smart00299       83 KLYEEAVELYKKD   95 (140)
T ss_pred             CcHHHHHHHHHhh
Confidence            6555555555543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.18  E-value=0.12  Score=38.03  Aligned_cols=58  Identities=19%  Similarity=0.224  Sum_probs=29.2

Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhh
Q 044047          129 NTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLP  187 (260)
Q Consensus       129 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  187 (260)
                      ..++..+...|+.+.+...++++.... +.+...|..++.+|.+.|+...|+..|+.+.
T Consensus       157 ~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~  214 (280)
T COG3629         157 TKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLK  214 (280)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHH
Confidence            334444444555555555555555443 4444555555555555555555555554443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.18  E-value=0.17  Score=32.47  Aligned_cols=93  Identities=19%  Similarity=0.067  Sum_probs=71.4

Q ss_pred             HHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCch---hhHHHHHHHHHhc
Q 044047          132 IDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNV---VTYNIMIHGFCND  208 (260)
Q Consensus       132 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~  208 (260)
                      .-++...|+.+.|++.|......- +.....||.-..++.-.|+.++|+.=+++..+..-.-..   .+|..-...|...
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            346678899999999998887654 667888999999999999999999988887765211122   3344445567788


Q ss_pred             CChHHHHHHHHHHHhCC
Q 044047          209 GQMDKAHDLFLDMEAKG  225 (260)
Q Consensus       209 g~~~~a~~~~~~~~~~~  225 (260)
                      |+-+.|..=|....+.|
T Consensus       129 g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLG  145 (175)
T ss_pred             CchHHHHHhHHHHHHhC
Confidence            99999999999888876

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.12  E-value=0.3  Score=34.68  Aligned_cols=167  Identities=19%  Similarity=0.093  Sum_probs=67.0

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhc-CCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHH-
Q 044047           56 VTYNTLINGYCKTKDVEESLNLYSEMLSK-GIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFID-  133 (260)
Q Consensus        56 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-  133 (260)
                      ..+......+...+++..+...+...... ........+......+...+....+...+.........+ ......... 
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  138 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALG  138 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHH
Confidence            34444444444445554444444444331 112223333344444444444445555544444332111 111111122 


Q ss_pred             HHHhcCcHHHHHHHHHHhhhcCC--CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCCh
Q 044047          134 GLCKNGYIVEAAELFRTLRVLKC--ELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQM  211 (260)
Q Consensus       134 ~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  211 (260)
                      .+...|+++.+...+........  ......+......+...++.+.+...+..............+..+...+...+++
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  218 (291)
T COG0457         139 ALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKY  218 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccH
Confidence            34445555555555554433110  0112222222333444445555555555444432110133444444444445555


Q ss_pred             HHHHHHHHHHHh
Q 044047          212 DKAHDLFLDMEA  223 (260)
Q Consensus       212 ~~a~~~~~~~~~  223 (260)
                      +.+...+.....
T Consensus       219 ~~a~~~~~~~~~  230 (291)
T COG0457         219 EEALEYYEKALE  230 (291)
T ss_pred             HHHHHHHHHHHh
Confidence            555555555444

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.08  E-value=0.34  Score=35.05  Aligned_cols=158  Identities=14%  Similarity=0.106  Sum_probs=75.3

Q ss_pred             HhcCChHHHHHHHHHHHhcCCC--CCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHh------
Q 044047           66 CKTKDVEESLNLYSEMLSKGIR--PTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCK------  137 (260)
Q Consensus        66 ~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~------  137 (260)
                      .+.|++++|.+.|+.+....+-  -...+-..++.++.+.++++.|+..+++............|...|.+++.      
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~~  124 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQIDD  124 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCCc
Confidence            4556666666666666544211  11233334445555666666666666665544322222233333333331      


Q ss_pred             -cCcHHHH---HHHHHHhhh----cCCCcCHHHH------------HHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc---
Q 044047          138 -NGYIVEA---AELFRTLRV----LKCELGIEAY------------SCLIDGLCKIGKLETAWELFQSLPRVGLMPN---  194 (260)
Q Consensus       138 -~~~~~~a---~~~~~~~~~----~~~~~~~~~~------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---  194 (260)
                       ..+...+   ..-|++++.    +...+|...-            ..+.+.|.+.|.+..|..-++.+.+. .+-.   
T Consensus       125 ~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~~  203 (254)
T COG4105         125 VTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLEN-YPDTSAV  203 (254)
T ss_pred             cccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhc-cccccch
Confidence             1222222   222222222    1112222110            23455667777777777777776665 1111   


Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          195 VVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       195 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      ...+-.+..+|...|-.++|...-.-+...
T Consensus       204 ~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         204 REALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            234555566677777777776665555443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.01  E-value=0.23  Score=32.50  Aligned_cols=86  Identities=19%  Similarity=0.138  Sum_probs=62.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHhhcC--CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHH
Q 044047           22 VYSTLIDGFCLTGEIDRARELFVSMDING--CMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHG   99 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   99 (260)
                      .+-.-.....+.|++++|.+.|+.+...-  -+-...+--.++.+|.+.+++++|...+++.++..+......|...+.+
T Consensus        12 ~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~g   91 (142)
T PF13512_consen   12 ELYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRG   91 (142)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHH
Confidence            33345566678899999999999887652  1334556678888999999999999999999987666556667777777


Q ss_pred             HhccccHH
Q 044047          100 LFEIHQVE  107 (260)
Q Consensus       100 ~~~~~~~~  107 (260)
                      ++.-...+
T Consensus        92 L~~~~~~~   99 (142)
T PF13512_consen   92 LSYYEQDE   99 (142)
T ss_pred             HHHHHHhh
Confidence            66544433

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.98  E-value=0.35  Score=34.28  Aligned_cols=201  Identities=20%  Similarity=0.100  Sum_probs=150.2

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhc-CCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDIN-GCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      ...+......+...+.+..+...+...... ..+.....+......+...+++..+...+.........+ .........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHH
Confidence            567777888888999999999988887652 235566778888888888899999999999988764443 222333333


Q ss_pred             -HHhccccHHHHHHHHHHHhhcCC--CcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCc-CHHHHHHHHHHHHhcC
Q 044047           99 -GLFEIHQVEHALKLFDEMQHSDV--AAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCEL-GIEAYSCLIDGLCKIG  174 (260)
Q Consensus        99 -~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~  174 (260)
                       .+...|+++.+...+.+......  ......+......+...++.+.+...+....... +. ....+..+...+...+
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         138 GALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLN-PDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhC-cccchHHHHHhhHHHHHcc
Confidence             78899999999999999865321  1233444445555677899999999999988764 33 4677888889999999


Q ss_pred             CHHHHHHHHHhhhhCCCCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          175 KLETAWELFQSLPRVGLMPN-VVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       175 ~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      +++.+...+.......  |+ ...+..+...+...+..+.+...+......
T Consensus       217 ~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         217 KYEEALEYYEKALELD--PDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             cHHHHHHHHHHHHhhC--cccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999988753  33 344555555555777899999999888875

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=95.96  E-value=0.44  Score=35.24  Aligned_cols=146  Identities=10%  Similarity=0.114  Sum_probs=101.3

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhh-cCCCCchhhHHHHHHHHHh-cC-ChHHHHHHHHHHHh-cCCCCCccchHHHHH
Q 044047           23 YSTLIDGFCLTGEIDRARELFVSMDI-NGCMHNVVTYNTLINGYCK-TK-DVEESLNLYSEMLS-KGIRPTVVTYNTLFH   98 (260)
Q Consensus        23 ~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~-~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~   98 (260)
                      |..++.   +...+.+|+.+|+.... ..+-.|..+...+++.... .+ ....-.++.+-+.. .|-.++..+...++.
T Consensus       134 Y~~LVk---~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~  210 (292)
T PF13929_consen  134 YWDLVK---RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILE  210 (292)
T ss_pred             HHHHHH---hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHH
Confidence            555543   44567888888885433 3455678888888877766 22 22222333333332 345678888889999


Q ss_pred             HHhccccHHHHHHHHHHHhhc-CCCcchhhHHHHHHHHHhcCcHHHHHHHHHH-----hhhcCCCcCHHHHHHHHHHHH
Q 044047           99 GLFEIHQVEHALKLFDEMQHS-DVAAETSTYNTFIDGLCKNGYIVEAAELFRT-----LRVLKCELGIEAYSCLIDGLC  171 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~~~~~~~~~~~~l~~~~~  171 (260)
                      .++..+++....++++..... +...|...|..++......|+..-..++..+     +.+.+++.+...-..+-..+.
T Consensus       211 ~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~  289 (292)
T PF13929_consen  211 ILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFK  289 (292)
T ss_pred             HHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHH
Confidence            999999999999999987655 4556788899999999999999988888776     345666777666555544443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.92  E-value=0.12  Score=38.36  Aligned_cols=127  Identities=14%  Similarity=0.142  Sum_probs=78.3

Q ss_pred             HHHHHhccccHHHHHHHHHHHh----------hcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC---CCcCHHH
Q 044047           96 LFHGLFEIHQVEHALKLFDEMQ----------HSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK---CELGIEA  162 (260)
Q Consensus        96 l~~~~~~~~~~~~a~~~~~~~~----------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~  162 (260)
                      |.++|.....|+.-....-.+-          ..|.+.+..+...++..-....+++.+...+-++....   ..++...
T Consensus        25 LsS~fs~e~~w~~r~~~~~kla~~g~~~~kkF~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~  104 (418)
T KOG4570|consen   25 LSSAFSDEHKWEAREKEHYKLADLGSLMDKKFERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI  104 (418)
T ss_pred             hHHHhhhhhhhhHHHHHHHHHhcccccchhhhhcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH
Confidence            4555665555554333332221          12344455556666666666677888877776665432   1122222


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          163 YSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                       ..+++.+. .-+.++++.++..=.+.|+-||..+++.++..+.+.+++.+|..+...|...
T Consensus       105 -~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  105 -HTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             -HHHHHHHH-ccChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence             22333333 3366788888888888888888888888888888888888888888777655

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.91  E-value=0.55  Score=39.85  Aligned_cols=179  Identities=11%  Similarity=0.061  Sum_probs=118.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHH
Q 044047           57 TYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT--VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDG  134 (260)
Q Consensus        57 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  134 (260)
                      ....-+..+.+...++-|+.+.+.-.   ..++  ..........+.+.|++++|...|-+-+..- .|     ..++.-
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~~---~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~l-e~-----s~Vi~k  406 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQH---LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFL-EP-----SEVIKK  406 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhcC---CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccC-Ch-----HHHHHH
Confidence            45566777788888888888775532   2222  2233344455668899999998887765431 22     245566


Q ss_pred             HHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHH
Q 044047          135 LCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKA  214 (260)
Q Consensus       135 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  214 (260)
                      |........-..+++.+.+.| -.+...-+.|+.+|.+.++.++-.++.+... .|..  ..-....+..+.+.+-.++|
T Consensus       407 fLdaq~IknLt~YLe~L~~~g-la~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a  482 (933)
T KOG2114|consen  407 FLDAQRIKNLTSYLEALHKKG-LANSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEA  482 (933)
T ss_pred             hcCHHHHHHHHHHHHHHHHcc-cccchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHH
Confidence            667777777788888998888 4566677889999999999999888887665 3322  11234566777778888888


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          215 HDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       215 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      ..+-.+...     +......+   +-..|++++|++++..+
T Consensus       483 ~~LA~k~~~-----he~vl~il---le~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  483 ELLATKFKK-----HEWVLDIL---LEDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHHhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcC
Confidence            776655433     22332333   34567788888777654

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.90  E-value=0.41  Score=34.44  Aligned_cols=91  Identities=12%  Similarity=0.131  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhhhC----CCCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHhCC---CCCChhhH
Q 044047          162 AYSCLIDGLCKIGKLETAWELFQSLPRV----GLMPN-VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKG---VAPNCVTF  233 (260)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~p~~~~~  233 (260)
                      .+....+.+.+...+++|-..+.+-...    .--++ -..|...|-.+....++..|...++.-.+.+   -+-+..+.
T Consensus       152 l~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~l  231 (308)
T KOG1585|consen  152 LYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSL  231 (308)
T ss_pred             HHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHH
Confidence            3444445555555555544433322111    00112 2334444555555556666666666543321   12244555


Q ss_pred             HHHHHHHHhcCchhHHHHHH
Q 044047          234 NTLMLGCIRNNETSKVVELL  253 (260)
Q Consensus       234 ~~l~~~~~~~~~~~~a~~~~  253 (260)
                      ..|+.+| ..||.+++..++
T Consensus       232 enLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  232 ENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHh-ccCCHHHHHHHH
Confidence            5555555 345555554443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.85  E-value=0.86  Score=37.74  Aligned_cols=192  Identities=15%  Similarity=0.139  Sum_probs=105.3

Q ss_pred             HHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHH------
Q 044047           43 FVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEM------  116 (260)
Q Consensus        43 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~------  116 (260)
                      ++++.++|-.|+...   +...++-.|++.+|-++|.+-   |..      +..+..|...+.++.|.+++..-      
T Consensus       623 L~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~---G~e------nRAlEmyTDlRMFD~aQE~~~~g~~~eKK  690 (1081)
T KOG1538|consen  623 LEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRS---GHE------NRALEMYTDLRMFDYAQEFLGSGDPKEKK  690 (1081)
T ss_pred             HHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHc---Cch------hhHHHHHHHHHHHHHHHHHhhcCChHHHH
Confidence            445556664465533   345566678888888877653   222      12333344444444443333210      


Q ss_pred             ---hh-cCCCcchhhHHHHHHHHHhcCcHHHHHHHHHH------hhhcCC---CcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 044047          117 ---QH-SDVAAETSTYNTFIDGLCKNGYIVEAAELFRT------LRVLKC---ELGIEAYSCLIDGLCKIGKLETAWELF  183 (260)
Q Consensus       117 ---~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~------~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~  183 (260)
                         ++ .....+..--.+....+...|+..+|..+.-+      +...+.   ..+..+...+...+.+...+.-|-++|
T Consensus       691 mL~RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF  770 (1081)
T KOG1538|consen  691 MLIRKRADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIF  770 (1081)
T ss_pred             HHHHHHHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHH
Confidence               00 00001111112344555667777776665321      111111   223344555555556666777777787


Q ss_pred             HhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChh-----------hHHHHHHHHHhcCchhHHHHH
Q 044047          184 QSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCV-----------TFNTLMLGCIRNNETSKVVEL  252 (260)
Q Consensus       184 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-----------~~~~l~~~~~~~~~~~~a~~~  252 (260)
                      ..|-..         ..++......++|++|..+-+...+.  .||..           -|...-.+|.+.|+..+|.++
T Consensus       771 ~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~v  839 (1081)
T KOG1538|consen  771 LKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQV  839 (1081)
T ss_pred             HHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHH
Confidence            766532         35667778899999999988876653  33322           234455788889999999998


Q ss_pred             HHHHh
Q 044047          253 LHRMD  257 (260)
Q Consensus       253 ~~~m~  257 (260)
                      ++++.
T Consensus       840 LeQLt  844 (1081)
T KOG1538|consen  840 LEQLT  844 (1081)
T ss_pred             HHHhh
Confidence            88764

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.81  E-value=0.75  Score=36.77  Aligned_cols=56  Identities=11%  Similarity=0.156  Sum_probs=26.4

Q ss_pred             HHHHhccccHHHHHHHHHHHhhcCCC-cchhhHHHHHHHHHhcCcHHHHHHHHHHhh
Q 044047           97 FHGLFEIHQVEHALKLFDEMQHSDVA-AETSTYNTFIDGLCKNGYIVEAAELFRTLR  152 (260)
Q Consensus        97 ~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  152 (260)
                      ..++.+.|+.++|++.+++|.+.... ........|+.++...+.+.++..++.+..
T Consensus       266 AmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd  322 (539)
T PF04184_consen  266 AMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD  322 (539)
T ss_pred             HHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence            33444455555555555555433211 122344455555555555555555555543

The molecular function of this protein is uncertain.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=95.75  E-value=0.39  Score=33.08  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=9.7

Q ss_pred             HHHHHHhccccHHHHHHHHHHHh
Q 044047           95 TLFHGLFEIHQVEHALKLFDEMQ  117 (260)
Q Consensus        95 ~l~~~~~~~~~~~~a~~~~~~~~  117 (260)
                      .+...|.+.|+.+.|++.|.++.
T Consensus        41 ~l~~~~~~~Gd~~~A~k~y~~~~   63 (177)
T PF10602_consen   41 DLADHYCKIGDLEEALKAYSRAR   63 (177)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHh
Confidence            33344444444444444444443

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.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=95.74  E-value=0.4  Score=38.08  Aligned_cols=112  Identities=11%  Similarity=0.040  Sum_probs=73.7

Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044047            5 SRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK   84 (260)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   84 (260)
                      .++++.++.....|+..  ..........|+++.+...+...... +.....+...+++...+.|++++|..+-+-|...
T Consensus       310 ~~~~~~lr~~~~~p~~i--~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~  386 (831)
T PRK15180        310 QQLFAALRNQQQDPVLI--QLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSN  386 (831)
T ss_pred             HHHHHHHHhCCCCchhh--HHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhcc
Confidence            34555555543333333  33344456678888888877665433 2345667778888888888888888888888776


Q ss_pred             CCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcC
Q 044047           85 GIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD  120 (260)
Q Consensus        85 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  120 (260)
                      .++ ++..........-..|-++++...|+++...+
T Consensus       387 eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        387 EIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             ccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccC
Confidence            665 55555544445556677888888888876655

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

Probab=95.72  E-value=0.034  Score=26.70  Aligned_cols=25  Identities=16%  Similarity=0.211  Sum_probs=15.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHH
Q 044047          198 YNIMIHGFCNDGQMDKAHDLFLDME  222 (260)
Q Consensus       198 ~~~l~~~~~~~g~~~~a~~~~~~~~  222 (260)
                      |..|...|.+.|++++|.+++++.+
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5566666667777777777766643

>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=95.71  E-value=0.32  Score=33.52  Aligned_cols=96  Identities=17%  Similarity=0.149  Sum_probs=57.2

Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcC--HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHH---H
Q 044047          126 STYNTFIDGLCKNGYIVEAAELFRTLRVLKCELG--IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYN---I  200 (260)
Q Consensus       126 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~  200 (260)
                      ..+..+...|.+.|+.+.|.+.+.++......+.  ...+-.+++.....+++..+...+.++...--.+......   .
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            4566777778888888888888887776544433  2345666777777788887777776665432121111111   1


Q ss_pred             HHH--HHHhcCChHHHHHHHHHH
Q 044047          201 MIH--GFCNDGQMDKAHDLFLDM  221 (260)
Q Consensus       201 l~~--~~~~~g~~~~a~~~~~~~  221 (260)
                      ...  .+...+++..|-+.|-..
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHcc
Confidence            111  223466677777666543

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.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.68  E-value=0.53  Score=34.10  Aligned_cols=168  Identities=16%  Similarity=0.108  Sum_probs=115.2

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcC--CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDING--CMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF   97 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   97 (260)
                      ...|+ -+..-.+.|++++|.+.|+.+....  -+-...+--.++.++.+.++++.|+..+++....-+......|...|
T Consensus        35 ~~LY~-~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Yl  113 (254)
T COG4105          35 SELYN-EGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYL  113 (254)
T ss_pred             HHHHH-HHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHH
Confidence            33454 4555668999999999999998653  23345566777888999999999999999998875554555666666


Q ss_pred             HHHhcc-------ccHHH---HHHHHHHHhhc----CCCcchhh------------HHHHHHHHHhcCcHHHHHHHHHHh
Q 044047           98 HGLFEI-------HQVEH---ALKLFDEMQHS----DVAAETST------------YNTFIDGLCKNGYIVEAAELFRTL  151 (260)
Q Consensus        98 ~~~~~~-------~~~~~---a~~~~~~~~~~----~~~~~~~~------------~~~l~~~~~~~~~~~~a~~~~~~~  151 (260)
                      .+++.-       .+...   |..-|+.+...    ...+|...            =..+.+.|.+.|.+..|..-++.+
T Consensus       114 kgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v  193 (254)
T COG4105         114 KGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEV  193 (254)
T ss_pred             HHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            665532       23333   44444444443    12222211            124567788999999999999999


Q ss_pred             hhcCCCcC---HHHHHHHHHHHHhcCCHHHHHHHHHhhhhC
Q 044047          152 RVLKCELG---IEAYSCLIDGLCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       152 ~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  189 (260)
                      .+. .+-+   ...+-.+..+|...|-.++|...-.-+...
T Consensus       194 ~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         194 LEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             Hhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            876 2333   345666788999999999998887776665

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

Probab=95.53  E-value=0.045  Score=26.25  Aligned_cols=23  Identities=26%  Similarity=0.414  Sum_probs=12.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHH
Q 044047           58 YNTLINGYCKTKDVEESLNLYSE   80 (260)
Q Consensus        58 ~~~l~~~~~~~~~~~~a~~~~~~   80 (260)
                      |..|...|.+.|++++|++++++
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            44455555555555555555555

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=95.47  E-value=0.87  Score=35.18  Aligned_cols=54  Identities=13%  Similarity=0.143  Sum_probs=33.3

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047           26 LIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLS   83 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   83 (260)
                      ...+..+.|+++...+........  .++...+..+...  +.++++++...+++...
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~   57 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQ   57 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHH
Confidence            355667788888865555544432  2344444444443  77888888888777655

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=95.43  E-value=0.022  Score=27.02  Aligned_cols=22  Identities=41%  Similarity=0.552  Sum_probs=9.8

Q ss_pred             CchhhHHHHHHHHHhcCChHHH
Q 044047           53 HNVVTYNTLINGYCKTKDVEES   74 (260)
Q Consensus        53 ~~~~~~~~l~~~~~~~~~~~~a   74 (260)
                      -+..+|+.+...|...|++++|
T Consensus        11 ~n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   11 NNAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CCHHHHHHHHHHHHHCcCHHhh
Confidence            3444444444444444444444

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=95.39  E-value=0.62  Score=32.98  Aligned_cols=183  Identities=14%  Similarity=-0.010  Sum_probs=103.7

Q ss_pred             cCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHH
Q 044047           33 TGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKL  112 (260)
Q Consensus        33 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  112 (260)
                      .|-+..|.-=|.+..... |.-+.+||-+.-.+...|+++.|.+.|+...+..+.-+ .++..-.-++.-.|+++-|.+-
T Consensus        78 lGL~~LAR~DftQaLai~-P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~-Ya~lNRgi~~YY~gR~~LAq~d  155 (297)
T COG4785          78 LGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYN-YAHLNRGIALYYGGRYKLAQDD  155 (297)
T ss_pred             hhHHHHHhhhhhhhhhcC-CCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcch-HHHhccceeeeecCchHhhHHH
Confidence            344444444455544443 44577899999999999999999999999988644322 2222222234456888888877


Q ss_pred             HHHHhhcCC-CcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHH-HHHHHhcCCHHHHHHHHHhhhhCC
Q 044047          113 FDEMQHSDV-AAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCL-IDGLCKIGKLETAWELFQSLPRVG  190 (260)
Q Consensus       113 ~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~  190 (260)
                      +.+.-+.+. .|-...|.-+.   -..-++.+|..-+.+--+   ..+..-|... +..|...=..+.   +++.+....
T Consensus       156 ~~~fYQ~D~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~---~~d~e~WG~~iV~~yLgkiS~e~---l~~~~~a~a  226 (297)
T COG4785         156 LLAFYQDDPNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAE---KSDKEQWGWNIVEFYLGKISEET---LMERLKADA  226 (297)
T ss_pred             HHHHHhcCCCChHHHHHHHHH---HhhCCHHHHHHHHHHHHH---hccHhhhhHHHHHHHHhhccHHH---HHHHHHhhc
Confidence            777655541 12222232222   234456666654433221   2333344332 233322212222   233332211


Q ss_pred             C------CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 044047          191 L------MPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGV  226 (260)
Q Consensus       191 ~------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  226 (260)
                      -      ..-..||-.+.+.+...|+.++|..+|+-....++
T Consensus       227 ~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         227 TDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             cchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence            0      01146788888999999999999999998887643

>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=95.32  E-value=0.51  Score=31.61  Aligned_cols=51  Identities=16%  Similarity=-0.032  Sum_probs=23.8

Q ss_pred             ccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhh
Q 044047          102 EIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRV  153 (260)
Q Consensus       102 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  153 (260)
                      +.++.+.+..++..+.-.. |-....-..-...+...|++.+|.++|+++..
T Consensus        22 ~~~~~~D~e~lL~ALrvLR-P~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLR-PEFPELDLFDGWLHIVRGDWDDALRLLRELEE   72 (160)
T ss_pred             ccCChHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhCCHHHHHHHHHHHhc
Confidence            4455555555555554432 11122222223334555566666666665544

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.14  E-value=0.54  Score=30.84  Aligned_cols=58  Identities=21%  Similarity=0.157  Sum_probs=32.5

Q ss_pred             HHHHhcCcHHHHHHHHHHhhhcCC--CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC
Q 044047          133 DGLCKNGYIVEAAELFRTLRVLKC--ELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVG  190 (260)
Q Consensus       133 ~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  190 (260)
                      ....+.|++++|.+.|+.+...-.  +-....--.++.+|.+.++++.|...+++.++..
T Consensus        18 ~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh   77 (142)
T PF13512_consen   18 QEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH   77 (142)
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            334455666666666666654320  1123344556666666666666666666666654

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.09  E-value=1  Score=33.80  Aligned_cols=128  Identities=13%  Similarity=0.072  Sum_probs=89.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHH----------hcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcC---CCcchhh
Q 044047           61 LINGYCKTKDVEESLNLYSEML----------SKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD---VAAETST  127 (260)
Q Consensus        61 l~~~~~~~~~~~~a~~~~~~~~----------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~  127 (260)
                      +.+++.....|+.-....-++-          ..|......+...++.......+++.++.++-+++..-   ..++. +
T Consensus        25 LsS~fs~e~~w~~r~~~~~kla~~g~~~~kkF~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~  103 (418)
T KOG4570|consen   25 LSSAFSDEHKWEAREKEHYKLADLGSLMDKKFERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-T  103 (418)
T ss_pred             hHHHhhhhhhhhHHHHHHHHHhcccccchhhhhcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-c
Confidence            4455666666654444332332          23455566677777777777888999999888886542   12222 2


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC
Q 044047          128 YNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVG  190 (260)
Q Consensus       128 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  190 (260)
                      -...++.+. .-++.+++.++..-+..|+-||..+++.++..+.+.+++.+|.++...|....
T Consensus       104 ~~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  104 IHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             HHHHHHHHH-ccChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            233444443 34677999999999999999999999999999999999999999988877653

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.06  E-value=1.1  Score=33.85  Aligned_cols=131  Identities=15%  Similarity=0.215  Sum_probs=75.3

Q ss_pred             hHHHHHHHHHHHhcCCCCCccchHHHHHHHhc--c----ccHHHHHHHHHHHhhcCCC---cchhhHHHHHHHHHhcCcH
Q 044047           71 VEESLNLYSEMLSKGIRPTVVTYNTLFHGLFE--I----HQVEHALKLFDEMQHSDVA---AETSTYNTFIDGLCKNGYI  141 (260)
Q Consensus        71 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~----~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~  141 (260)
                      +++.+.+++.|.+.|..-+..+|.+.......  .    .....+..+|+.|++...-   ++...+..++..  ..+++
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            34567788888888888776666553333332  1    2355678888888876422   233344444332  33333


Q ss_pred             ----HHHHHHHHHhhhcCCCcCH--HHHHHHHHHHHhcCC--HHHHHHHHHhhhhCCCCCchhhHHHHHH
Q 044047          142 ----VEAAELFRTLRVLKCELGI--EAYSCLIDGLCKIGK--LETAWELFQSLPRVGLMPNVVTYNIMIH  203 (260)
Q Consensus       142 ----~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~  203 (260)
                          +.++.+++.+...|+..+-  ...+.++..+.....  ..++.++++.+.+.|+++....|..+.-
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHH
Confidence                3456677777776655443  233333333322222  3477888888888888777666655443

>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=95.03  E-value=0.55  Score=30.33  Aligned_cols=64  Identities=22%  Similarity=0.261  Sum_probs=34.1

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCC
Q 044047          127 TYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGL  191 (260)
Q Consensus       127 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  191 (260)
                      .+...+..+...|.-+...++++.+.+.+ .+++...-.+..+|.+.|+..++.+++.++-+.|+
T Consensus        88 ~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   88 YVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            44455555666666666666666655432 55566666666666666666666666666666554

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.99  E-value=0.039  Score=26.14  Aligned_cols=19  Identities=32%  Similarity=0.371  Sum_probs=7.3

Q ss_pred             HHHHHHHHHHHHhcCCHHH
Q 044047          160 IEAYSCLIDGLCKIGKLET  178 (260)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~  178 (260)
                      +..|+.+...|...|++++
T Consensus        13 ~~a~~nla~~~~~~g~~~~   31 (34)
T PF13431_consen   13 AEAYNNLANLYLNQGDYEE   31 (34)
T ss_pred             HHHHHHHHHHHHHCcCHHh
Confidence            3333333333333333333

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.93  E-value=1.3  Score=34.07  Aligned_cols=201  Identities=11%  Similarity=0.067  Sum_probs=90.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHH-HH---hhcC-CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc-CCCCC---ccc
Q 044047           22 VYSTLIDGFCLTGEIDRARELFV-SM---DING-CMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK-GIRPT---VVT   92 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~-~~---~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~---~~~   92 (260)
                      +|..+..+.++.|.+++++..-- +|   .+.. -..--..|..+.+++-+..++.+++.+-+.-... |..|.   -..
T Consensus        45 ~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~  124 (518)
T KOG1941|consen   45 VLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQV  124 (518)
T ss_pred             HhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchh
Confidence            44555555566666555543221 11   1110 0111233444444444444455554444333221 22221   122


Q ss_pred             hHHHHHHHhccccHHHHHHHHHHHhhcC-----CCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhh----cCCCcCHH--
Q 044047           93 YNTLFHGLFEIHQVEHALKLFDEMQHSD-----VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRV----LKCELGIE--  161 (260)
Q Consensus        93 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~--  161 (260)
                      ..++..+....+.++++++.|+...+..     ......++..+...|.+..++++|.-+..+..+    .++. |..  
T Consensus       125 ~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~-d~~~k  203 (518)
T KOG1941|consen  125 SLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLK-DWSLK  203 (518)
T ss_pred             hhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcC-chhHH
Confidence            2334455555666666666666653321     111234566666666666676666655544322    1111 111  


Q ss_pred             ----HHHHHHHHHHhcCCHHHHHHHHHhhhhC----CCCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          162 ----AYSCLIDGLCKIGKLETAWELFQSLPRV----GLMPN-VVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       162 ----~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                          ....+.-++...|....|.+.-++..+.    |-++. ......+.+.|...|+.+.|..-|+....
T Consensus       204 yr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  204 YRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHH
Confidence                1122334455556666666555554332    21111 12334455566666666666665555443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.85  E-value=0.78  Score=31.22  Aligned_cols=139  Identities=14%  Similarity=0.103  Sum_probs=82.0

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCcc-chHHHHHHHhccccHHHHHHHHHHHhhcCCCcchh-hHH--
Q 044047           54 NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVV-TYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETS-TYN--  129 (260)
Q Consensus        54 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~--  129 (260)
                      +...|...+.. ...+..++|+.-|..+.+.|...-+. .--.........|+...|...|+++-.....|... -..  
T Consensus        58 sgd~flaAL~l-A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          58 SGDAFLAALKL-AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             chHHHHHHHHH-HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHH
Confidence            44455555543 45566778888888887765432111 11122334567788888888888876543223221 111  


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCC
Q 044047          130 TFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMP  193 (260)
Q Consensus       130 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  193 (260)
                      --.-.+..+|.+++.....+-+-..+-+.-...-..|.-+-.+.|++.+|.+.|..+.+....|
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            1122345678888877777766655434344445666677778888888888888877643333

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=94.75  E-value=0.52  Score=28.75  Aligned_cols=77  Identities=6%  Similarity=0.083  Sum_probs=49.9

Q ss_pred             HHHHHHHHHHhcCCHH--HHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 044047          162 AYSCLIDGLCKIGKLE--TAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLG  239 (260)
Q Consensus       162 ~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  239 (260)
                      -|+.--..|....+.+  +..+-+..+....+.|++....+.+++|.+.+++..|.++|+....+ ..+....|..+++-
T Consensus        10 eF~ary~~~F~~~~iD~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lqE   88 (108)
T PF02284_consen   10 EFDARYEKYFNRPDIDGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQE   88 (108)
T ss_dssp             HHHHHHHHHHH-TT--HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHHH
T ss_pred             HHHHHHHHHhCCccccHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHHH
Confidence            3444444444444433  66777777778888899999999999999999999999999988765 33333377776654

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 ....

>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=94.64  E-value=0.68  Score=32.33  Aligned_cols=78  Identities=12%  Similarity=0.052  Sum_probs=44.4

Q ss_pred             HhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC---CCCCChhhHHHHHHHHHhcCchh
Q 044047          171 CKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK---GVAPNCVTFNTLMLGCIRNNETS  247 (260)
Q Consensus       171 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~  247 (260)
                      .+.|+ +.|.+.|-.+...+.--++.....|...|. ..+.+++..++.+..+.   +-.+|+..+.+|+..+.+.|+++
T Consensus       118 sr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e  195 (203)
T PF11207_consen  118 SRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYE  195 (203)
T ss_pred             hccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchh
Confidence            34444 345555555555543334444444444444 55667777777666543   23556777777777777777776


Q ss_pred             HHH
Q 044047          248 KVV  250 (260)
Q Consensus       248 ~a~  250 (260)
                      .|.
T Consensus       196 ~AY  198 (203)
T PF11207_consen  196 QAY  198 (203)
T ss_pred             hhh
Confidence            664

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.63  E-value=2.4  Score=35.81  Aligned_cols=62  Identities=11%  Similarity=0.151  Sum_probs=35.1

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHhhcC--CC--CchhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047           21 FVYSTLIDGFCLTGEIDRARELFVSMDING--CM--HNVVTYNTLINGYCKTKDVEESLNLYSEML   82 (260)
Q Consensus        21 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   82 (260)
                      .+|..+..-....|+++.|..+++.=...+  ++  .+..-+...+.-+...||.+....++-.+.
T Consensus       508 iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk  573 (829)
T KOG2280|consen  508 ISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLK  573 (829)
T ss_pred             eeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHH
Confidence            456667777777888888887775432221  00  122234455555666666666655555443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.62  E-value=0.45  Score=28.70  Aligned_cols=47  Identities=6%  Similarity=-0.003  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhh
Q 044047          141 IVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLP  187 (260)
Q Consensus       141 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  187 (260)
                      .-++.+-++.+.....-|++....+.+++|.+.+++..|.++++..+
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33444455555555555555555555555555555555555555444

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=94.57  E-value=0.94  Score=30.86  Aligned_cols=139  Identities=14%  Similarity=0.137  Sum_probs=87.7

Q ss_pred             CccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchh-hHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHH-HHHHH
Q 044047           89 TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETS-TYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIE-AYSCL  166 (260)
Q Consensus        89 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l  166 (260)
                      ....|...++ +.+.+..++|+.-|..+.+.|...-+. ...-........|+...|...|.++-.....|.+. -..-+
T Consensus        58 sgd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          58 SGDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             chHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHH
Confidence            3455555554 346678888999999988877543222 12223344667888889999998887654333322 11111


Q ss_pred             --HHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 044047          167 --IDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAP  228 (260)
Q Consensus       167 --~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  228 (260)
                        ...+...|.++....-.+-+...+-+.....-..|.-+-.+.|++.+|...|..+......|
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence              22345678888877777766655433334445566677778899999999998887653344

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=94.51  E-value=2.1  Score=34.60  Aligned_cols=180  Identities=11%  Similarity=0.048  Sum_probs=112.6

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF   97 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   97 (260)
                      .|....-+++..+.+...+.-...+..+|...|  .+...|..++++|... ..+.-..+++++.+.... |++.-..|.
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa  139 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELA  139 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHH
Confidence            455566677777888888888888888888775  5677788888888887 556778888888876554 555555566


Q ss_pred             HHHhccccHHHHHHHHHHHhhcCCCc-----chhhHHHHHHHHHhcCcHHHHHHHHHHhhhc-CCCcCHHHHHHHHHHHH
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSDVAA-----ETSTYNTFIDGLCKNGYIVEAAELFRTLRVL-KCELGIEAYSCLIDGLC  171 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~  171 (260)
                      ..|-+ ++.+.+..+|......-++.     -...|..+...  -..+.+....+...+... |...-...+.-+-.-|.
T Consensus       140 ~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         140 DKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            55555 77777777777765543321     11234333331  134556666666555432 22233344555556777


Q ss_pred             hcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHH
Q 044047          172 KIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGF  205 (260)
Q Consensus       172 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  205 (260)
                      ...++.+|.+++..+.+..- -|..+-..++..+
T Consensus       217 ~~eN~~eai~Ilk~il~~d~-k~~~ar~~~i~~l  249 (711)
T COG1747         217 ENENWTEAIRILKHILEHDE-KDVWARKEIIENL  249 (711)
T ss_pred             cccCHHHHHHHHHHHhhhcc-hhhhHHHHHHHHH
Confidence            88888888888887776542 2444444444433

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.44  E-value=0.46  Score=28.64  Aligned_cols=64  Identities=6%  Similarity=0.017  Sum_probs=46.0

Q ss_pred             CHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHH
Q 044047           35 EIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHG   99 (260)
Q Consensus        35 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   99 (260)
                      +.=++.+-++.+...+..|++....+.+++|-+.+|+..|.++++-.+.. ...+...|..+++-
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~lqe   85 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYILQE   85 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHHHH
Confidence            44456777777777788888888888888888888888888888877643 12234466665544

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.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=94.42  E-value=1.2  Score=35.58  Aligned_cols=118  Identities=9%  Similarity=0.001  Sum_probs=72.0

Q ss_pred             hcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHH
Q 044047          137 KNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHD  216 (260)
Q Consensus       137 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  216 (260)
                      ..|+.-.|-+-+....... +-++.............|+++.+.+.+...... +.....+..++++.....|++++|..
T Consensus       301 ~~gd~~aas~~~~~~lr~~-~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s  378 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQ-QQDPVLIQLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALS  378 (831)
T ss_pred             hccCHHHHHHHHHHHHHhC-CCCchhhHHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHH
Confidence            4566555544443333221 333333334445556778888888877665543 22345677788888888888888888


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          217 LFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       217 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      +-..|+...+. +++......-..-..|-++++...|+++.
T Consensus       379 ~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~  418 (831)
T PRK15180        379 TAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVL  418 (831)
T ss_pred             HHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHh
Confidence            88888776554 44444444444455677777777777654

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.41  E-value=2.5  Score=35.16  Aligned_cols=178  Identities=13%  Similarity=0.052  Sum_probs=103.0

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHH---HhccCCHHHHHHHHHHHhh-------cCCCCchhhHHHHHHHHHhcC---
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDG---FCLTGEIDRARELFVSMDI-------NGCMHNVVTYNTLINGYCKTK---   69 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~---   69 (260)
                      +|.+.++.....|.. .......++..   +....+.+.|..+++.+.+       .+   .+.....+..+|.+..   
T Consensus       230 ~a~~~~~~~a~~g~~-~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~  305 (552)
T KOG1550|consen  230 EAFKYYREAAKLGHS-EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVE  305 (552)
T ss_pred             HHHHHHHHHHhhcch-HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCc
Confidence            567777777777621 22222222222   3356789999999988866       44   4446667777777643   


Q ss_pred             --ChHHHHHHHHHHHhcCCCCCccchHHHHHHHhc-cccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHH----hcCcHH
Q 044047           70 --DVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFE-IHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLC----KNGYIV  142 (260)
Q Consensus        70 --~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~  142 (260)
                        +.+.|+.++.+..+.|.+ +.......+..... ..+...|.++|...-+.|.. .  .+..+..+|.    ...+..
T Consensus       306 ~~d~~~A~~~~~~aA~~g~~-~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~--A~~~la~~y~~G~gv~r~~~  381 (552)
T KOG1550|consen  306 KIDYEKALKLYTKAAELGNP-DAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI-L--AIYRLALCYELGLGVERNLE  381 (552)
T ss_pred             cccHHHHHHHHHHHHhcCCc-hHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh-H--HHHHHHHHHHhCCCcCCCHH
Confidence              667799999988887643 44433333322222 24678899999998888743 2  2222332222    234678


Q ss_pred             HHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC
Q 044047          143 EAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVG  190 (260)
Q Consensus       143 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  190 (260)
                      .|..++++.-+.+ .|...--...+..+.. +.++.+.-.+..+...|
T Consensus       382 ~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  382 LAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELG  427 (552)
T ss_pred             HHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhh
Confidence            8888888887776 3332222222233333 56666655555555444

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

Probab=94.41  E-value=0.14  Score=23.98  Aligned_cols=26  Identities=12%  Similarity=0.241  Sum_probs=11.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          198 YNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       198 ~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      |..+..++...|++++|+..|++.++
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            44444444444444444444444443

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 ....

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.10  E-value=3.2  Score=35.13  Aligned_cols=115  Identities=13%  Similarity=0.117  Sum_probs=84.6

Q ss_pred             CcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHH
Q 044047          122 AAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIM  201 (260)
Q Consensus       122 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  201 (260)
                      .....+.+--+.-+...|+..+|.++-.+..    -||...|-.-+.+++..++|++-+++-+..+      .+.-|...
T Consensus       681 ~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PF  750 (829)
T KOG2280|consen  681 SFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPF  750 (829)
T ss_pred             ccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhH
Confidence            3344456666677778899999988877766    6788888888899999999988776655433      24567888


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHH
Q 044047          202 IHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHR  255 (260)
Q Consensus       202 ~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  255 (260)
                      +.+|.+.|+.++|..++.+....     .    -...+|.+.|++.+|.++--+
T Consensus       751 Ve~c~~~~n~~EA~KYiprv~~l-----~----ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  751 VEACLKQGNKDEAKKYIPRVGGL-----Q----EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHHHHhcccHHHHhhhhhccCCh-----H----HHHHHHHHhccHHHHHHHHHH
Confidence            89999999999999887654331     1    466777888888877765443

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=94.04  E-value=0.99  Score=30.90  Aligned_cols=45  Identities=13%  Similarity=0.113  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHhhcCCCcchhhHHHHHHHHH---hcCcHHHHHHHHHHh
Q 044047          106 VEHALKLFDEMQHSDVAAETSTYNTFIDGLC---KNGYIVEAAELFRTL  151 (260)
Q Consensus       106 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~a~~~~~~~  151 (260)
                      ++.|.+.++.-...+ |.|...++.-..++.   +.....++.+++++.
T Consensus         7 FE~ark~aea~y~~n-P~DadnL~~WG~ALLELAqfk~g~es~~miedA   54 (186)
T PF06552_consen    7 FEHARKKAEAAYAKN-PLDADNLTNWGGALLELAQFKQGPESKKMIEDA   54 (186)
T ss_dssp             HHHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHhccCcchHHHHHHHH
Confidence            344555555443333 444444443333332   233334455555544

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.

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

Probab=94.03  E-value=0.21  Score=23.28  Aligned_cols=28  Identities=18%  Similarity=0.223  Sum_probs=13.8

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHhhc
Q 044047           22 VYSTLIDGFCLTGEIDRARELFVSMDIN   49 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~   49 (260)
                      +|..+..++...|++++|+..|++..+.
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            3444555555555555555555554443

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 ....

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.01  E-value=1.6  Score=31.36  Aligned_cols=27  Identities=11%  Similarity=0.283  Sum_probs=18.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHhhhhCCCC
Q 044047          166 LIDGLCKIGKLETAWELFQSLPRVGLM  192 (260)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~~~~  192 (260)
                      +...-...+++.+|.++|++.....+.
T Consensus       160 vA~yaa~leqY~~Ai~iyeqva~~s~~  186 (288)
T KOG1586|consen  160 VAQYAAQLEQYSKAIDIYEQVARSSLD  186 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            344445678888999999887765443

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=93.95  E-value=2.2  Score=32.83  Aligned_cols=126  Identities=14%  Similarity=0.076  Sum_probs=56.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcC-----CCCCccchHHHHHHHhccccHHHHHHHHHHHhh----cCCCcchh-----
Q 044047           61 LINGYCKTKDVEESLNLYSEMLSKG-----IRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQH----SDVAAETS-----  126 (260)
Q Consensus        61 l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~-----  126 (260)
                      +..++...+.++++++.|+...+..     ......++..|...|.+..+.++|.-+.....+    .++..-..     
T Consensus       128 ~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~  207 (518)
T KOG1941|consen  128 MGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAM  207 (518)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHH
Confidence            3444444455666666665554321     111234555566666666666666555444322    12111111     


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHhhh----cCCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHhh
Q 044047          127 TYNTFIDGLCKNGYIVEAAELFRTLRV----LKCE-LGIEAYSCLIDGLCKIGKLETAWELFQSL  186 (260)
Q Consensus       127 ~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  186 (260)
                      ....+.-++...|...+|.+.-++..+    .|-. ........+...|...|+.+.|+.-|+..
T Consensus       208 ~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  208 SLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            111233344455555555555554322    1211 11223344555556666666665555543

>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=93.83  E-value=0.035  Score=36.69  Aligned_cols=53  Identities=17%  Similarity=0.127  Sum_probs=25.2

Q ss_pred             HHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHH
Q 044047           27 IDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYS   79 (260)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   79 (260)
                      +..+.+.+.+.....+++.+...+...+....+.++..|++.++.+...++++
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            44444455555555555555544333344555555555555544444444443

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.

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

Probab=93.81  E-value=0.21  Score=23.20  Aligned_cols=25  Identities=12%  Similarity=0.193  Sum_probs=10.8

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          199 NIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       199 ~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      ..+...+...|++++|.+.|++..+
T Consensus         5 ~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    5 YYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            3344444444444444444444443

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 ....

>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=93.76  E-value=1.1  Score=31.39  Aligned_cols=75  Identities=15%  Similarity=0.102  Sum_probs=57.3

Q ss_pred             CHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc---CCCCCccchHHHHHHHhccccHHHHH
Q 044047           35 EIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK---GIRPTVVTYNTLFHGLFEIHQVEHAL  110 (260)
Q Consensus        35 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~  110 (260)
                      .-+.|.+.|-.+...+.--++.....+...|. ..|.++++.++.+..+.   +-.+|+..+..|.+.+.+.++.+.|.
T Consensus       121 ~d~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  121 GDQEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             CcHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            34677888888877765556666666666555 67889999999887663   34678999999999999999998874

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

Probab=93.71  E-value=0.26  Score=22.85  Aligned_cols=28  Identities=18%  Similarity=0.137  Sum_probs=13.9

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHhhc
Q 044047           22 VYSTLIDGFCLTGEIDRARELFVSMDIN   49 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~   49 (260)
                      .|..+...+...|++++|.+.|++..+.
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            3444555555555555555555555443

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

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=93.70  E-value=0.22  Score=24.44  Aligned_cols=26  Identities=19%  Similarity=0.298  Sum_probs=13.2

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHH
Q 044047           21 FVYSTLIDGFCLTGEIDRARELFVSM   46 (260)
Q Consensus        21 ~~~~~l~~~~~~~~~~~~a~~~~~~~   46 (260)
                      .+++.+...|...|++++|..++++.
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~a   28 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEA   28 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHH
Confidence            34455555555555555555555544

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=93.67  E-value=1.5  Score=29.81  Aligned_cols=133  Identities=15%  Similarity=0.198  Sum_probs=68.6

Q ss_pred             HHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhc-
Q 044047           41 ELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHS-  119 (260)
Q Consensus        41 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  119 (260)
                      ++++.+.+.+++|+...+..++..+.+.|.+..    +.++...++-+|.......+-.+..  ....+.++=-.|.+. 
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            445555566677777777777777777776543    3334444555555544443322222  222233322222221 


Q ss_pred             CCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhh
Q 044047          120 DVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPR  188 (260)
Q Consensus       120 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (260)
                      +     ..+..++..+...|++-+|.++.+...... .+++   ..++.+..+.++...-..+++-...
T Consensus        89 ~-----~~~~~iievLL~~g~vl~ALr~ar~~~~~~-~~~~---~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   89 G-----TAYEEIIEVLLSKGQVLEALRYARQYHKVD-SVPA---RKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             h-----hhHHHHHHHHHhCCCHHHHHHHHHHcCCcc-cCCH---HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1     134456666677777777777776643222 1222   3355555566665555555555444

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=93.65  E-value=0.23  Score=24.32  Aligned_cols=28  Identities=36%  Similarity=0.460  Sum_probs=17.2

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047           56 VTYNTLINGYCKTKDVEESLNLYSEMLS   83 (260)
Q Consensus        56 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~   83 (260)
                      .+++.+...|...|++++|..++++...
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4556666666666666666666666543

>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=93.44  E-value=1.1  Score=30.70  Aligned_cols=95  Identities=9%  Similarity=0.043  Sum_probs=43.3

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhc---cCCHHHHHHHHH-------HHhhcCCCCchhhHHHHHHHHHhcC--
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCL---TGEIDRARELFV-------SMDINGCMHNVVTYNTLINGYCKTK--   69 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~-------~~~~~~~~~~~~~~~~l~~~~~~~~--   69 (260)
                      +.|.+.++.-...+ |.|+..++....++..   ..+..++.++++       +....+ |....++..+..++...+  
T Consensus         8 E~ark~aea~y~~n-P~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~-P~~hdAlw~lGnA~ts~A~l   85 (186)
T PF06552_consen    8 EHARKKAEAAYAKN-PLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKIN-PNKHDALWCLGNAYTSLAFL   85 (186)
T ss_dssp             HHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHHHhh
Confidence            45556666555544 4456655555544433   333333444443       333333 223455555555554433  


Q ss_pred             --C-------hHHHHHHHHHHHhcCCCCCccchHHHHHHH
Q 044047           70 --D-------VEESLNLYSEMLSKGIRPTVVTYNTLFHGL  100 (260)
Q Consensus        70 --~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  100 (260)
                        +       +++|...|++..+  ..|+...|+.-+...
T Consensus        86 ~~d~~~A~~~F~kA~~~FqkAv~--~~P~ne~Y~ksLe~~  123 (186)
T PF06552_consen   86 TPDTAEAEEYFEKATEYFQKAVD--EDPNNELYRKSLEMA  123 (186)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHHH
T ss_pred             cCChHHHHHHHHHHHHHHHHHHh--cCCCcHHHHHHHHHH
Confidence              2       3444445554444  356777777666554

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.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=93.41  E-value=0.17  Score=25.61  Aligned_cols=23  Identities=26%  Similarity=0.235  Sum_probs=11.8

Q ss_pred             HHHHHHhcCchhHHHHHHHHHhh
Q 044047          236 LMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       236 l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      +..+|...|+.+.|+++++++.+
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHH
Confidence            34455555555555555555443

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.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=93.23  E-value=1.2  Score=27.30  Aligned_cols=63  Identities=6%  Similarity=-0.020  Sum_probs=44.8

Q ss_pred             cHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHH
Q 044047          140 YIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIH  203 (260)
Q Consensus       140 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  203 (260)
                      +.-+..+-++.+.....-|++.+..+.+++|.+.+++..|.++++.++..- .+....|..++.
T Consensus        25 D~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~-~~~~~~Y~~~lq   87 (108)
T PF02284_consen   25 DGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKC-GNKKEIYPYILQ   87 (108)
T ss_dssp             -HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT-TT-TTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cChHHHHHHHHH
Confidence            344677778888888889999999999999999999999999999887642 223336766654

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 ....

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=93.17  E-value=3.6  Score=32.77  Aligned_cols=226  Identities=15%  Similarity=0.205  Sum_probs=131.3

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHhhcCCC----CchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH--
Q 044047           24 STLIDGFCLTGEIDRARELFVSMDINGCM----HNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF--   97 (260)
Q Consensus        24 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~--   97 (260)
                      ..+...+.+  +.+++..+.+.+....+.    .-..+|..++....+.++-..|.+.+.-+.--  .|+...-.-++  
T Consensus       265 ~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--dp~~svs~Kllls  340 (549)
T PF07079_consen  265 EPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL--DPRISVSEKLLLS  340 (549)
T ss_pred             HHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CCcchhhhhhhcC
Confidence            334444444  556666666555433211    13457888888899999999998888776653  34443222221  


Q ss_pred             -----HHHh-c---cccHHHHHHHHHHHhhcCCCcchhhHHHHH---HHHHhcCc-HHHHHHHHHHhhhcCCCcCHHHHH
Q 044047           98 -----HGLF-E---IHQVEHALKLFDEMQHSDVAAETSTYNTFI---DGLCKNGY-IVEAAELFRTLRVLKCELGIEAYS  164 (260)
Q Consensus        98 -----~~~~-~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~---~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~  164 (260)
                           +..+ .   ..+...-+.+|+.....++... .....++   .-+-+.|. -++|+++++.+..-. +-|...-|
T Consensus       341 ~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrq-QLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft-~yD~ec~n  418 (549)
T PF07079_consen  341 PKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQ-QLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFT-NYDIECEN  418 (549)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHH-HHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhc-cccHHHHH
Confidence                 1122 1   1123334556666655443221 1122222   33445555 778899988887643 33443333


Q ss_pred             HHH----HHHH---hcCCHHHHHHHHHhhhhCCCCCch----hhHHHHHH--HHHhcCChHHHHHHHHHHHhCCCCCChh
Q 044047          165 CLI----DGLC---KIGKLETAWELFQSLPRVGLMPNV----VTYNIMIH--GFCNDGQMDKAHDLFLDMEAKGVAPNCV  231 (260)
Q Consensus       165 ~l~----~~~~---~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~--~~~~~g~~~~a~~~~~~~~~~~~~p~~~  231 (260)
                      .+.    ..|.   ....+..-..+-+.+.+.|++|-.    ..-|.|..  .+..+|++.++.-.-..+.+  +.|++.
T Consensus       419 ~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~  496 (549)
T PF07079_consen  419 IVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQ  496 (549)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCCcHH
Confidence            222    2222   223445555555666677776643    23344433  34568899888766666555  688999


Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          232 TFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       232 ~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      +|..+.-+.....++++|..++..+.
T Consensus       497 ~~RLlGl~l~e~k~Y~eA~~~l~~LP  522 (549)
T PF07079_consen  497 AYRLLGLCLMENKRYQEAWEYLQKLP  522 (549)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHhCC
Confidence            99999999999999999999998764

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=93.17  E-value=0.043  Score=36.21  Aligned_cols=119  Identities=13%  Similarity=0.089  Sum_probs=77.6

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcC
Q 044047          130 TFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDG  209 (260)
Q Consensus       130 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  209 (260)
                      .++..+.+.+.+....++++.+...+...+....+.++..|++.+..++..++++....       .-...++..|.+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~-------yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN-------YDLDKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS-------S-CTHHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc-------cCHHHHHHHHHhcc
Confidence            46677778888889999999988766567788899999999999888888887772221       23346677888899


Q ss_pred             ChHHHHHHHHHHHhCCCC----CChhhHHHHHHHHHhcCchhHHHHHHHH
Q 044047          210 QMDKAHDLFLDMEAKGVA----PNCVTFNTLMLGCIRNNETSKVVELLHR  255 (260)
Q Consensus       210 ~~~~a~~~~~~~~~~~~~----p~~~~~~~l~~~~~~~~~~~~a~~~~~~  255 (260)
                      .++++..++.++....-.    -....+...+..+.+.++.+-...+.+.
T Consensus        85 l~~~a~~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~~~~~~~l~~~l~~~  134 (143)
T PF00637_consen   85 LYEEAVYLYSKLGNHDEALEILHKLKDYEEAIEYAKKVDDPELWEQLLKY  134 (143)
T ss_dssp             SHHHHHHHHHCCTTHTTCSSTSSSTHCSCCCTTTGGGCSSSHHHHHHHHH
T ss_pred             hHHHHHHHHHHcccHHHHHHHHHHHccHHHHHHHHHhcCcHHHHHHHHHH
Confidence            999999988876543111    1223333344444455554444444433

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.

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=93.15  E-value=3.9  Score=33.15  Aligned_cols=94  Identities=17%  Similarity=0.142  Sum_probs=40.3

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHH
Q 044047           54 NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFID  133 (260)
Q Consensus        54 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  133 (260)
                      |.....+++..+.....++-...+..+|..-|  -+-..+..++++|... ..+....+|+++.+..+ .+...-..++.
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReLa~  140 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGRELAD  140 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHHHH
Confidence            33344444444444444444444555554432  1344444555555444 33444455555444432 12222223333


Q ss_pred             HHHhcCcHHHHHHHHHHhh
Q 044047          134 GLCKNGYIVEAAELFRTLR  152 (260)
Q Consensus       134 ~~~~~~~~~~a~~~~~~~~  152 (260)
                      .|-+ ++...+...|.++.
T Consensus       141 ~yEk-ik~sk~a~~f~Ka~  158 (711)
T COG1747         141 KYEK-IKKSKAAEFFGKAL  158 (711)
T ss_pred             HHHH-hchhhHHHHHHHHH
Confidence            3322 44444444444443

>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=93.15  E-value=2.8  Score=31.39  Aligned_cols=218  Identities=12%  Similarity=0.047  Sum_probs=119.6

Q ss_pred             hhHHHHHHHHHHcC--CCccH------HHHHHHHHHHhccC-CHHHHHHHHHHHhhc--------CCCCc-----hhhHH
Q 044047            2 DEASRLLDLMIQRG--VRPNA------FVYSTLIDGFCLTG-EIDRARELFVSMDIN--------GCMHN-----VVTYN   59 (260)
Q Consensus         2 ~~a~~~~~~~~~~~--~~~~~------~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~-----~~~~~   59 (260)
                      +.|..++.+.....  ..|+.      ..|+ +.......+ +++.|..++++..+.        ...++     ..++.
T Consensus        10 ~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn-~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~iL~   88 (278)
T PF08631_consen   10 DLAEHMYSKAKDLLNSLDPDMAEELARVCYN-IGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLSILR   88 (278)
T ss_pred             HHHHHHHHHhhhHHhcCCcHHHHHHHHHHHH-HHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHHHHH
Confidence            44666666665532  12221      1233 233334456 888888777765432        11222     23567


Q ss_pred             HHHHHHHhcCChH---HHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHH
Q 044047           60 TLINGYCKTKDVE---ESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLC  136 (260)
Q Consensus        60 ~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  136 (260)
                      .++.+|...+..+   +|.++++.+...... .+.++..-+..+.+.++.+.+.+.+.+|...- ......+..++..+.
T Consensus        89 ~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~~l~~i~  166 (278)
T PF08631_consen   89 LLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDSILHHIK  166 (278)
T ss_pred             HHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHHHHHHHH
Confidence            7888888877654   566677666554322 35666677777878899999999999998763 323445555555552


Q ss_pred             h--cCcHHHHHHHHHHhhhcCCCcCHH-HHHHH----HHHHHhcCC------HHHHHHHHHhhhhC-CCCCchhhHH---
Q 044047          137 K--NGYIVEAAELFRTLRVLKCELGIE-AYSCL----IDGLCKIGK------LETAWELFQSLPRV-GLMPNVVTYN---  199 (260)
Q Consensus       137 ~--~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l----~~~~~~~~~------~~~a~~~~~~~~~~-~~~~~~~~~~---  199 (260)
                      .  ......+...+..+....+.|... ....+    +-...+.++      .+....+++...+. +.+.+..+-.   
T Consensus       167 ~l~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~~a~~  246 (278)
T PF08631_consen  167 QLAEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAASAIH  246 (278)
T ss_pred             HHHhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            2  233455666666666555555554 11111    111122222      44444455533322 2223333322   


Q ss_pred             HH----HHHHHhcCChHHHHHHHHHHH
Q 044047          200 IM----IHGFCNDGQMDKAHDLFLDME  222 (260)
Q Consensus       200 ~l----~~~~~~~g~~~~a~~~~~~~~  222 (260)
                      .+    ...+.+.++++.|.+.|+-..
T Consensus       247 ~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  247 TLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            22    233456889999999988544

It is also involved in sporulation [].

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.99  E-value=4.7  Score=33.62  Aligned_cols=180  Identities=17%  Similarity=0.109  Sum_probs=107.3

Q ss_pred             HHHHHHHHHHHhhcCCCCchhhHHHHHHH-----HHhcCChHHHHHHHHHHHh-------cCCCCCccchHHHHHHHhcc
Q 044047           36 IDRARELFVSMDINGCMHNVVTYNTLING-----YCKTKDVEESLNLYSEMLS-------KGIRPTVVTYNTLFHGLFEI  103 (260)
Q Consensus        36 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~  103 (260)
                      ...|..+++...+.|   +...-..+..+     +....|.+.|+.+++...+       .|   .+.....+..+|.+.
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 LSEAFKYYREAAKLG---HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhc---chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            467888888887776   33333333332     3345689999999998877       44   344666777777764


Q ss_pred             c-----cHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHh-cCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHH--hcCC
Q 044047          104 H-----QVEHALKLFDEMQHSDVAAETSTYNTFIDGLCK-NGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLC--KIGK  175 (260)
Q Consensus       104 ~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~  175 (260)
                      .     +.+.|..++...-..| .|+.......+..... ..+...|.++|...-..| .+....+..++....  ...+
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 LGVEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAG-HILAIYRLALCYELGLGVERN  379 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcC-ChHHHHHHHHHHHhCCCcCCC
Confidence            3     5677999999988887 4444443333322222 246789999999988877 223222222222222  3457


Q ss_pred             HHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 044047          176 LETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKG  225 (260)
Q Consensus       176 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  225 (260)
                      ...|..++.+..+.|. |....-...+..+.. +.++.+.-.+..+.+.|
T Consensus       380 ~~~A~~~~k~aA~~g~-~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  380 LELAFAYYKKAAEKGN-PSAAYLLGAFYEYGV-GRYDTALALYLYLAELG  427 (552)
T ss_pred             HHHHHHHHHHHHHccC-hhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhh
Confidence            8899999999888872 221111122222233 66666666655555443

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.81  E-value=2.3  Score=29.61  Aligned_cols=133  Identities=6%  Similarity=0.035  Sum_probs=74.5

Q ss_pred             CccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhH--HHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCH--HHHH
Q 044047           89 TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTY--NTFIDGLCKNGYIVEAAELFRTLRVLKCELGI--EAYS  164 (260)
Q Consensus        89 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~  164 (260)
                      -...|..++.... .+.+ +.....+.+...+....-.++  ..+...+...+++++|...++.........+.  .+--
T Consensus        53 AS~~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~l  130 (207)
T COG2976          53 ASAQYQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQTKDENLKALAAL  130 (207)
T ss_pred             HHHHHHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHH
Confidence            3445555555543 2233 444444555443211111111  12345567788888888888766643211111  1122


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 044047          165 CLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKG  225 (260)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  225 (260)
                      .+.+.....|.+++|...++.....+.  .......-...+...|+-++|..-|......+
T Consensus       131 RLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         131 RLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            345666778888888888877666432  22233444567778888888888888887764

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=92.79  E-value=2.5  Score=31.28  Aligned_cols=88  Identities=13%  Similarity=0.049  Sum_probs=47.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHH----
Q 044047           61 LINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLC----  136 (260)
Q Consensus        61 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----  136 (260)
                      =|++++..++|.+++...-+.-+..-+....+....|-.|.+.+.+..+.++-..-.+..-.-+...|..++..|.    
T Consensus        89 GIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VL  168 (309)
T PF07163_consen   89 GIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVL  168 (309)
T ss_pred             hHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHH
Confidence            3566777777777766555444332222334444455566777777766666555443211122233555555443    


Q ss_pred             -hcCcHHHHHHHH
Q 044047          137 -KNGYIVEAAELF  148 (260)
Q Consensus       137 -~~~~~~~a~~~~  148 (260)
                       =.|.+++|+++.
T Consensus       169 lPLG~~~eAeelv  181 (309)
T PF07163_consen  169 LPLGHFSEAEELV  181 (309)
T ss_pred             hccccHHHHHHHH
Confidence             357777777665

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

>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=92.78  E-value=2  Score=28.85  Aligned_cols=54  Identities=15%  Similarity=0.098  Sum_probs=27.9

Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCccchH-HHHHHHhccccHHHHHHHHHHHhhc
Q 044047           64 GYCKTKDVEESLNLYSEMLSKGIRPTVVTYN-TLFHGLFEIHQVEHALKLFDEMQHS  119 (260)
Q Consensus        64 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~  119 (260)
                      .-.+.++.+++..++.-+.-.  .|...... .-...+...|++.+|..+|+.+...
T Consensus        19 ~al~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   19 VALRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HHHccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            334455666666666666543  23222221 1223345666666666666666544

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=92.42  E-value=5.4  Score=32.86  Aligned_cols=185  Identities=14%  Similarity=0.020  Sum_probs=116.3

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHH
Q 044047           54 NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFID  133 (260)
Q Consensus        54 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  133 (260)
                      ...+|+..+..-...|+++.+.-++++..-. +..-...|-..+.-....|+.+-+..++....+-.++-.+.+-..-..
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHH
Confidence            4567888888888999999999988887542 222334455555555555888888888877666554433333333333


Q ss_pred             HHHhcCcHHHHHHHHHHhhhcCCCcC-HHHHHHHHHHHHhcCCHHHHH---HHHHhhhhCCCCCchhhHHHHHH-----H
Q 044047          134 GLCKNGYIVEAAELFRTLRVLKCELG-IEAYSCLIDGLCKIGKLETAW---ELFQSLPRVGLMPNVVTYNIMIH-----G  204 (260)
Q Consensus       134 ~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~---~~~~~~~~~~~~~~~~~~~~l~~-----~  204 (260)
                      ..-..|++..|..+++.+...-  |+ ...-..-+....+.|+.+.+.   .++........  +......+.-     .
T Consensus       375 f~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~--~~~i~~~l~~~~~r~~  450 (577)
T KOG1258|consen  375 FEESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKE--NNGILEKLYVKFARLR  450 (577)
T ss_pred             HHHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccccc--CcchhHHHHHHHHHHH
Confidence            4455779999999999988764  43 333333455666778888777   33333322211  2222222222     2


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC
Q 044047          205 FCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNN  244 (260)
Q Consensus       205 ~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  244 (260)
                      +.-.++.+.|..++.++.+. ++++...|..++..+...+
T Consensus       451 ~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  451 YKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence            23467889999999998886 5667777777776665554

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=92.35  E-value=0.28  Score=22.50  Aligned_cols=24  Identities=13%  Similarity=0.213  Sum_probs=15.0

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHhh
Q 044047          235 TLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       235 ~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      .+..++.+.|++++|.+.|+++++
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHH
Confidence            445556666666666666666654

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=91.93  E-value=3.4  Score=29.48  Aligned_cols=164  Identities=16%  Similarity=0.045  Sum_probs=94.2

Q ss_pred             CCcc-HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchH
Q 044047           16 VRPN-AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYN   94 (260)
Q Consensus        16 ~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   94 (260)
                      +.|+ +.+||.+.--+...|+++.|.+.|+...+.+ |....++..-.-++.--|+++-|.+-+.+.-+.... |  .|.
T Consensus        94 i~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELD-p~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~D~~-D--PfR  169 (297)
T COG4785          94 IRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQDDPN-D--PFR  169 (297)
T ss_pred             cCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccC-CcchHHHhccceeeeecCchHhhHHHHHHHHhcCCC-C--hHH
Confidence            4454 6789999999999999999999999998876 323333322233344568899888877776655322 1  222


Q ss_pred             HH-HHHHhccccHHHHHHHH-HHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCC------CcCHHHHHHH
Q 044047           95 TL-FHGLFEIHQVEHALKLF-DEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKC------ELGIEAYSCL  166 (260)
Q Consensus        95 ~l-~~~~~~~~~~~~a~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~~~~~l  166 (260)
                      ++ +-.-.+.-++.+|..-+ ++..+.  ..+-..++ ++..|...=..+.   +++.+.....      ..=..+|--+
T Consensus       170 ~LWLYl~E~k~dP~~A~tnL~qR~~~~--d~e~WG~~-iV~~yLgkiS~e~---l~~~~~a~a~~n~~~Ae~LTEtyFYL  243 (297)
T COG4785         170 SLWLYLNEQKLDPKQAKTNLKQRAEKS--DKEQWGWN-IVEFYLGKISEET---LMERLKADATDNTSLAEHLTETYFYL  243 (297)
T ss_pred             HHHHHHHHhhCCHHHHHHHHHHHHHhc--cHhhhhHH-HHHHHHhhccHHH---HHHHHHhhccchHHHHHHHHHHHHHH
Confidence            22 21222334566665433 333322  12222232 2333322222222   2222222110      1123577788


Q ss_pred             HHHHHhcCCHHHHHHHHHhhhhC
Q 044047          167 IDGLCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~  189 (260)
                      .+.+...|+.++|..+|+-....
T Consensus       244 ~K~~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         244 GKYYLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             HHHHhccccHHHHHHHHHHHHHH
Confidence            89999999999999999988765

>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=91.87  E-value=0.33  Score=21.17  Aligned_cols=20  Identities=15%  Similarity=0.263  Sum_probs=10.1

Q ss_pred             HHHHHHHhcCchhHHHHHHH
Q 044047          235 TLMLGCIRNNETSKVVELLH  254 (260)
Q Consensus       235 ~l~~~~~~~~~~~~a~~~~~  254 (260)
                      .+..++...|++++|..+++
T Consensus         6 ~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    6 ALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHcCCHHHHHHHHh
Confidence            34455555555555555443

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

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

Probab=91.72  E-value=0.61  Score=21.60  Aligned_cols=26  Identities=8%  Similarity=0.034  Sum_probs=14.1

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          232 TFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       232 ~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      +|..+...+...|++++|.+.|++..
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~   28 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34445555555555555555555543

...

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=91.46  E-value=3.3  Score=29.56  Aligned_cols=77  Identities=16%  Similarity=0.143  Sum_probs=52.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcC--CCcchhhHHHHHHH
Q 044047           57 TYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD--VAAETSTYNTFIDG  134 (260)
Q Consensus        57 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~  134 (260)
                      |.+.-++.+.+.+..++++...++-++..+. |..+-..+++.++-.|+|++|..-++-.-...  ..+...+|..++.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            3455667777888888888888877776433 56666778888888999988887766654332  23345566666654

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=91.43  E-value=2.8  Score=29.91  Aligned_cols=77  Identities=13%  Similarity=0.029  Sum_probs=56.4

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcC--CCCCccchHHHHHH
Q 044047           22 VYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKG--IRPTVVTYNTLFHG   99 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~   99 (260)
                      +.+..+..+.+.++.++++...++-.+.. |.+...-..++..++-.|++++|..-++-.-...  ..+-...|..++.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            34556778888999999999988877665 6677788889999999999999988777665432  12234455555543

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=91.41  E-value=0.65  Score=23.51  Aligned_cols=23  Identities=13%  Similarity=0.398  Sum_probs=10.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHh
Q 044047          201 MIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       201 l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      +..+|...|+.+.|.+++++...
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHH
Confidence            34444444555555554444443

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.

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=91.40  E-value=1.7  Score=32.35  Aligned_cols=59  Identities=14%  Similarity=0.179  Sum_probs=44.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHH
Q 044047           57 TYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEM  116 (260)
Q Consensus        57 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  116 (260)
                      +++...+.|..+|.+.+|.++.++...-.. .+...+-.++..+...|+--.+.+.++.+
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltldp-L~e~~nk~lm~~la~~gD~is~~khyery  339 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLDP-LSEQDNKGLMASLATLGDEISAIKHYERY  339 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcCh-hhhHHHHHHHHHHHHhccchhhhhHHHHH
Confidence            455666778888888888888888777533 36677778888888888877777777666

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=91.31  E-value=3  Score=27.66  Aligned_cols=52  Identities=17%  Similarity=-0.022  Sum_probs=24.2

Q ss_pred             ccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhc
Q 044047          102 EIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus       102 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  154 (260)
                      ..++++++..+++.|.-.. |.....-..-.-.+...|++.+|.++|+++...
T Consensus        22 ~~~d~~D~e~lLdALrvLr-P~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLR-PNLKELDMFDGWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhC-CCccccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            3455555555555554432 111112222223344556666666666655543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=91.29  E-value=3.8  Score=28.82  Aligned_cols=88  Identities=17%  Similarity=0.153  Sum_probs=36.8

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCC----ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcH
Q 044047           66 CKTKDVEESLNLYSEMLSKGIRPT----VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYI  141 (260)
Q Consensus        66 ~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  141 (260)
                      .+.|++++|.+-|...+..-....    ...|..-.-++.+.+.++.|+.-....++.+ +.......--..+|.+...+
T Consensus       106 F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-pty~kAl~RRAeayek~ek~  184 (271)
T KOG4234|consen  106 FKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-PTYEKALERRAEAYEKMEKY  184 (271)
T ss_pred             hhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-chhHHHHHHHHHHHHhhhhH
Confidence            344555555555555444311111    1122222334445555555555544444443 21112222223345555555


Q ss_pred             HHHHHHHHHhhhc
Q 044047          142 VEAAELFRTLRVL  154 (260)
Q Consensus       142 ~~a~~~~~~~~~~  154 (260)
                      ++|+.-|+.+.+.
T Consensus       185 eealeDyKki~E~  197 (271)
T KOG4234|consen  185 EEALEDYKKILES  197 (271)
T ss_pred             HHHHHHHHHHHHh
Confidence            5555555555443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=91.27  E-value=11  Score=34.05  Aligned_cols=77  Identities=9%  Similarity=0.112  Sum_probs=44.2

Q ss_pred             HHHHHhcCCHHHHHHHHHhhhhCCCCCch--hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC
Q 044047          167 IDGLCKIGKLETAWELFQSLPRVGLMPNV--VTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNN  244 (260)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  244 (260)
                      +.+|..+|+|.+|..+..++...   -+.  .+-..|+.-+...+++-+|-++..+....        ....+..+++..
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd--------~~~av~ll~ka~ 1040 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEAAKILLEYLSD--------PEEAVALLCKAK 1040 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC--------HHHHHHHHhhHh
Confidence            44555556666666555544431   121  12245666777788888888887776653        123344556666


Q ss_pred             chhHHHHHHH
Q 044047          245 ETSKVVELLH  254 (260)
Q Consensus       245 ~~~~a~~~~~  254 (260)
                      .|++|.++..
T Consensus      1041 ~~~eAlrva~ 1050 (1265)
T KOG1920|consen 1041 EWEEALRVAS 1050 (1265)
T ss_pred             HHHHHHHHHH
Confidence            6777766544

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=91.26  E-value=4.9  Score=30.00  Aligned_cols=136  Identities=10%  Similarity=0.061  Sum_probs=94.4

Q ss_pred             ChHHHHHHHHHHHh-cCCCCCccchHHHHHHHhc-ccc-HHHHHHHHHHHhh-cCCCcchhhHHHHHHHHHhcCcHHHHH
Q 044047           70 DVEESLNLYSEMLS-KGIRPTVVTYNTLFHGLFE-IHQ-VEHALKLFDEMQH-SDVAAETSTYNTFIDGLCKNGYIVEAA  145 (260)
Q Consensus        70 ~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~~-~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~  145 (260)
                      .+.+|+++|+.... ..+-.|..+...+++.... .+. .....++.+-+.. .+..++..+...++..++..+++..-.
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~  222 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLF  222 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHH
Confidence            45677888874322 2355577788888877765 222 2222233333332 234677888899999999999999999


Q ss_pred             HHHHHhhhc-CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHh-----hhhCCCCCchhhHHHHHHHH
Q 044047          146 ELFRTLRVL-KCELGIEAYSCLIDGLCKIGKLETAWELFQS-----LPRVGLMPNVVTYNIMIHGF  205 (260)
Q Consensus       146 ~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~~~~~~~~~~~~l~~~~  205 (260)
                      +++...... +..-|...|..++......|+..-...+..+     +++.++..+...-..+-+.+
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH
Confidence            999887765 4567888999999999999999998888876     35556666655554444443

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

Probab=91.07  E-value=0.87  Score=21.04  Aligned_cols=27  Identities=15%  Similarity=0.162  Sum_probs=20.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          197 TYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       197 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      +|..+...+...|++++|...|++..+
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            566677777778888888888777665

...

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.62  E-value=6.7  Score=32.59  Aligned_cols=135  Identities=15%  Similarity=0.056  Sum_probs=92.6

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHH
Q 044047           21 FVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGL  100 (260)
Q Consensus        21 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  100 (260)
                      ..-+.+++.+.+.|-.++|+++-         +|...   -.....+.|+++.|.++..+..      +..-|..|..+.
T Consensus       615 ~~rt~va~Fle~~g~~e~AL~~s---------~D~d~---rFelal~lgrl~iA~~la~e~~------s~~Kw~~Lg~~a  676 (794)
T KOG0276|consen  615 EIRTKVAHFLESQGMKEQALELS---------TDPDQ---RFELALKLGRLDIAFDLAVEAN------SEVKWRQLGDAA  676 (794)
T ss_pred             hhhhhHHhHhhhccchHhhhhcC---------CChhh---hhhhhhhcCcHHHHHHHHHhhc------chHHHHHHHHHH
Confidence            35566777777777777776543         22211   2234456788888888776642      567789999999


Q ss_pred             hccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 044047          101 FEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAW  180 (260)
Q Consensus       101 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  180 (260)
                      ...+++..|.+.|.....         |..|+-.+...|+-+....+-....+.| ..+     ....+|...|+++++.
T Consensus       677 l~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g-~~N-----~AF~~~~l~g~~~~C~  741 (794)
T KOG0276|consen  677 LSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQG-KNN-----LAFLAYFLSGDYEECL  741 (794)
T ss_pred             hhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhc-ccc-----hHHHHHHHcCCHHHHH
Confidence            999999999999887543         4466677777787776666666666655 333     2334566789999998


Q ss_pred             HHHHhhhh
Q 044047          181 ELFQSLPR  188 (260)
Q Consensus       181 ~~~~~~~~  188 (260)
                      +++..-.+
T Consensus       742 ~lLi~t~r  749 (794)
T KOG0276|consen  742 ELLISTQR  749 (794)
T ss_pred             HHHHhcCc
Confidence            88766543

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=90.57  E-value=1.4  Score=28.09  Aligned_cols=60  Identities=8%  Similarity=0.088  Sum_probs=44.7

Q ss_pred             HHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 044047          178 TAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLML  238 (260)
Q Consensus       178 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  238 (260)
                      +..+-+..+....+.|++.....-++++.+-+++..|.++|+-++.+ ..+....|-.+++
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K-~g~~k~~Y~y~v~  126 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK-CGAQKQVYPYYVK  126 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh-cccHHHHHHHHHH
Confidence            55666677777778889888999999999999999999999888765 3333334555553

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=90.39  E-value=6.7  Score=30.12  Aligned_cols=24  Identities=29%  Similarity=0.228  Sum_probs=15.1

Q ss_pred             HHHHHhcCCHHHHHHHHHhhhhCC
Q 044047          167 IDGLCKIGKLETAWELFQSLPRVG  190 (260)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~  190 (260)
                      .....++|..+.|..+++.+.+.+
T Consensus       161 ~~fl~~aG~~E~Ava~~Qa~lE~n  184 (321)
T PF08424_consen  161 CRFLRQAGYTERAVALWQALLEFN  184 (321)
T ss_pred             HHHHHHCCchHHHHHHHHHHHHHH
Confidence            334456677777777777766654

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.37  E-value=4.8  Score=28.37  Aligned_cols=88  Identities=20%  Similarity=0.104  Sum_probs=58.4

Q ss_pred             HhccccHHHHHHHHHHHhhcCCCcc-----hhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcC
Q 044047          100 LFEIHQVEHALKLFDEMQHSDVAAE-----TSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIG  174 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  174 (260)
                      +...|++++|..-|...+..- ++.     ...|..-..++.+.+.++.|+.-..+.++.+ +........-..+|.+..
T Consensus       105 ~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-pty~kAl~RRAeayek~e  182 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-PTYEKALERRAEAYEKME  182 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-chhHHHHHHHHHHHHhhh
Confidence            456788888888888777653 332     2345555566777888888887777766654 223333344456777788


Q ss_pred             CHHHHHHHHHhhhhC
Q 044047          175 KLETAWELFQSLPRV  189 (260)
Q Consensus       175 ~~~~a~~~~~~~~~~  189 (260)
                      +++.|+.=|..+...
T Consensus       183 k~eealeDyKki~E~  197 (271)
T KOG4234|consen  183 KYEEALEDYKKILES  197 (271)
T ss_pred             hHHHHHHHHHHHHHh
Confidence            888888888887775

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.36  E-value=6.1  Score=32.82  Aligned_cols=152  Identities=15%  Similarity=0.172  Sum_probs=104.7

Q ss_pred             HhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHH
Q 044047           30 FCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHA  109 (260)
Q Consensus        30 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  109 (260)
                      ..-.|+++.|..++..+.       ...-+.++..+-++|-.++|+++-       ..|+ .-|    ....+.|+.+.|
T Consensus       596 ~vmrrd~~~a~~vLp~I~-------k~~rt~va~Fle~~g~~e~AL~~s-------~D~d-~rF----elal~lgrl~iA  656 (794)
T KOG0276|consen  596 LVLRRDLEVADGVLPTIP-------KEIRTKVAHFLESQGMKEQALELS-------TDPD-QRF----ELALKLGRLDIA  656 (794)
T ss_pred             HhhhccccccccccccCc-------hhhhhhHHhHhhhccchHhhhhcC-------CChh-hhh----hhhhhcCcHHHH
Confidence            345678888877554433       334456667777778777776542       2222 122    334577999999


Q ss_pred             HHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC
Q 044047          110 LKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  189 (260)
                      .++..+.      .+..-|..|..+....+++..|.+.|.....         |..|+-.+...|+.+....+-....+.
T Consensus       657 ~~la~e~------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~  721 (794)
T KOG0276|consen  657 FDLAVEA------NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQ  721 (794)
T ss_pred             HHHHHhh------cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhh
Confidence            8887663      3456799999999999999999999887653         456777888888888777777777777


Q ss_pred             CCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047          190 GLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDM  221 (260)
Q Consensus       190 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  221 (260)
                      |.. |.     ...+|...|+++++.+++..-
T Consensus       722 g~~-N~-----AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  722 GKN-NL-----AFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             ccc-ch-----HHHHHHHcCCHHHHHHHHHhc
Confidence            632 32     233556789999988887654

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=90.25  E-value=14  Score=33.48  Aligned_cols=81  Identities=15%  Similarity=0.069  Sum_probs=48.3

Q ss_pred             HHHHHHhcCcHHHHHHHHHHhhhcCCCcCHH--HHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhc
Q 044047          131 FIDGLCKNGYIVEAAELFRTLRVLKCELGIE--AYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCND  208 (260)
Q Consensus       131 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  208 (260)
                      .+.+|..+|+|.+|..+...+..   ..+..  +-..|+.-+...++.-+|-++..+....   |     ...+..+++.
T Consensus       971 Al~a~~~~~dWr~~l~~a~ql~~---~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd---~-----~~av~ll~ka 1039 (1265)
T KOG1920|consen  971 ALKAYKECGDWREALSLAAQLSE---GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSD---P-----EEAVALLCKA 1039 (1265)
T ss_pred             HHHHHHHhccHHHHHHHHHhhcC---CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC---H-----HHHHHHHhhH
Confidence            44555566666666655554432   11221  1245677777888888887777766542   1     2334456677


Q ss_pred             CChHHHHHHHHHHH
Q 044047          209 GQMDKAHDLFLDME  222 (260)
Q Consensus       209 g~~~~a~~~~~~~~  222 (260)
                      ..+++|.++.....
T Consensus      1040 ~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1040 KEWEEALRVASKAK 1053 (1265)
T ss_pred             hHHHHHHHHHHhcc
Confidence            78888888776544

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=90.14  E-value=2.9  Score=25.56  Aligned_cols=86  Identities=10%  Similarity=0.122  Sum_probs=44.7

Q ss_pred             CHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHH
Q 044047           35 EIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFD  114 (260)
Q Consensus        35 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  114 (260)
                      ..++|..+-+-+...+ .....+--+-+..+...|++++|..+.+.+    ..||...|..|.  -.+.|..+.+..-+.
T Consensus        20 cHqEA~tIAdwL~~~~-~~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~----~~pdlepw~ALc--e~rlGl~s~l~~rl~   92 (115)
T TIGR02508        20 CHQEANTIADWLHLKG-ESEEAVQLIRLSSLMNRGDYQSALQLGNKL----CYPDLEPWLALC--EWRLGLGSALESRLN   92 (115)
T ss_pred             HHHHHHHHHHHHhcCC-chHHHHHHHHHHHHHccchHHHHHHhcCCC----CCchHHHHHHHH--HHhhccHHHHHHHHH
Confidence            3455555555554433 112222223344556667777777666554    356666665553  335566666666666


Q ss_pred             HHhhcCCCcchhhH
Q 044047          115 EMQHSDVAAETSTY  128 (260)
Q Consensus       115 ~~~~~~~~~~~~~~  128 (260)
                      .+..+| .|....|
T Consensus        93 rla~sg-~p~lq~F  105 (115)
T TIGR02508        93 RLAASG-DPRLQTF  105 (115)
T ss_pred             HHHhCC-CHHHHHH
Confidence            666665 3433333

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.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=90.03  E-value=6.4  Score=29.28  Aligned_cols=89  Identities=12%  Similarity=0.034  Sum_probs=63.2

Q ss_pred             HHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHH---
Q 044047           95 TLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLC---  171 (260)
Q Consensus        95 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---  171 (260)
                      .=|.+++..++|.+++...-+.-+.--+..+.+....|-.|.+.+++..+.++-..-....-.-+...|..++..|.   
T Consensus        88 vGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~V  167 (309)
T PF07163_consen   88 VGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHV  167 (309)
T ss_pred             hhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHH
Confidence            45678889999999988766654332233445667777889999999998888877665433334445777776665   


Q ss_pred             --hcCCHHHHHHHH
Q 044047          172 --KIGKLETAWELF  183 (260)
Q Consensus       172 --~~~~~~~a~~~~  183 (260)
                        =.|.+++|+++.
T Consensus       168 LlPLG~~~eAeelv  181 (309)
T PF07163_consen  168 LLPLGHFSEAEELV  181 (309)
T ss_pred             HhccccHHHHHHHH
Confidence              459999999887

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

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=89.59  E-value=1.4  Score=24.24  Aligned_cols=24  Identities=21%  Similarity=0.221  Sum_probs=10.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHH
Q 044047           59 NTLINGYCKTKDVEESLNLYSEML   82 (260)
Q Consensus        59 ~~l~~~~~~~~~~~~a~~~~~~~~   82 (260)
                      -.++.++...|++++|.++++++.
T Consensus        27 LqvI~gllqlg~~~~a~eYi~~~~   50 (62)
T PF14689_consen   27 LQVIYGLLQLGKYEEAKEYIKELS   50 (62)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHH
Confidence            344444444455555444444443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=89.52  E-value=5.2  Score=30.70  Aligned_cols=89  Identities=19%  Similarity=0.157  Sum_probs=53.5

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCC-CccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcH
Q 044047           63 NGYCKTKDVEESLNLYSEMLSKGIRP-TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYI  141 (260)
Q Consensus        63 ~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  141 (260)
                      .-|.++|.+++|+.+|......  .| +++++..-..+|.+..++..|..-.......+ ..-...|+--+.+-...|..
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~  181 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNN  181 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhH
Confidence            3467788888888888776654  34 77788777888888888777666555554332 11222333333333344555


Q ss_pred             HHHHHHHHHhhhc
Q 044047          142 VEAAELFRTLRVL  154 (260)
Q Consensus       142 ~~a~~~~~~~~~~  154 (260)
                      .+|.+-++.....
T Consensus       182 ~EAKkD~E~vL~L  194 (536)
T KOG4648|consen  182 MEAKKDCETVLAL  194 (536)
T ss_pred             HHHHHhHHHHHhh
Confidence            5555555555443

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=89.51  E-value=9.6  Score=30.57  Aligned_cols=249  Identities=12%  Similarity=0.188  Sum_probs=128.6

Q ss_pred             ChhHHHHHHHHHHcCCCccHH------HHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHH--HHhcCChH
Q 044047            1 MDEASRLLDLMIQRGVRPNAF------VYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLING--YCKTKDVE   72 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~   72 (260)
                      +++|..+|.++.+.- ..++.      .-+.++++|.. ++.+.....+....+..  | ...|-.+..+  +.+.+++.
T Consensus        22 ~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~--~-~s~~l~LF~~L~~Y~~k~~~   96 (549)
T PF07079_consen   22 FQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQF--G-KSAYLPLFKALVAYKQKEYR   96 (549)
T ss_pred             hhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhc--C-CchHHHHHHHHHHHHhhhHH
Confidence            356777877776642 22222      23456666653 45666665555555442  2 3334444333  45678888


Q ss_pred             HHHHHHHHHHhc--CCCC------------CccchHHHHHHHhccccHHHHHHHHHHHhhcC----CCcchhhHHHHHHH
Q 044047           73 ESLNLYSEMLSK--GIRP------------TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD----VAAETSTYNTFIDG  134 (260)
Q Consensus        73 ~a~~~~~~~~~~--~~~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~  134 (260)
                      +|++.+....+.  +..|            |-..=+..+.++...|++.++..+++++...=    ...+..+|+.++-.
T Consensus        97 kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlm  176 (549)
T PF07079_consen   97 KALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLM  176 (549)
T ss_pred             HHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHH
Confidence            988888776654  2221            11112456677788999999998888876543    33677888876666


Q ss_pred             HHhcCc---------------HHHHHHHHHHhhhc------CCCcCHHHHHHHHHHHHhcC--CHHHHHHHHHhhhhCCC
Q 044047          135 LCKNGY---------------IVEAAELFRTLRVL------KCELGIEAYSCLIDGLCKIG--KLETAWELFQSLPRVGL  191 (260)
Q Consensus       135 ~~~~~~---------------~~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~  191 (260)
                      +++.=-               ++.+.=..+++...      .+-|....+..++....-..  +..--.+++..-.+.-+
T Consensus       177 lsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv  256 (549)
T PF07079_consen  177 LSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYV  256 (549)
T ss_pred             HhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhcc
Confidence            554211               11111112222211      12344444444444333221  12222233333333334


Q ss_pred             CCchh-hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC----ChhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          192 MPNVV-TYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAP----NCVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       192 ~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      .|+.. ....+...+..  +.+++..+.+.+....+.+    -..+|..++....+.++...|.+.+.-+
T Consensus       257 ~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL  324 (549)
T PF07079_consen  257 HPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALL  324 (549)
T ss_pred             CCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            45432 22233333333  5555655555554332111    2356777888888888888888777654

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=89.09  E-value=2.2  Score=24.75  Aligned_cols=46  Identities=7%  Similarity=0.070  Sum_probs=21.7

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHhcCchhHHHHH
Q 044047          207 NDGQMDKAHDLFLDMEAKGVAPN--CVTFNTLMLGCIRNNETSKVVEL  252 (260)
Q Consensus       207 ~~g~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~  252 (260)
                      ..++.++|+..|...++.-..|.  ..++..++.+++..|++.+++++
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            34455555555555554421111  23344555555555555555443

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

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=88.68  E-value=3.2  Score=29.03  Aligned_cols=33  Identities=12%  Similarity=0.133  Sum_probs=25.2

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          192 MPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       192 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      .|++..|..++..+...|+.++|.+...++...
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            477777777777788888888887777777763

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=88.30  E-value=15  Score=31.24  Aligned_cols=197  Identities=14%  Similarity=0.098  Sum_probs=103.7

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHHHHHh-cCCCCC--ccchHHHHHHHh-ccccHHHHHHHHHHHhhcCCCcch--
Q 044047           52 MHNVVTYNTLINGYCKTKDVEESLNLYSEMLS-KGIRPT--VVTYNTLFHGLF-EIHQVEHALKLFDEMQHSDVAAET--  125 (260)
Q Consensus        52 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~--~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~--  125 (260)
                      +.+...|..+|..         |++.++-+.+ ..+.|.  ..++-.+...+. ...+.+.|...+++.....-.++.  
T Consensus        27 ~~~l~~Y~kLI~~---------ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d   97 (608)
T PF10345_consen   27 EEQLKQYYKLIAT---------AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTD   97 (608)
T ss_pred             hhhHHHHHHHHHH---------HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHH
Confidence            3455666666654         5555555553 333332  223334444444 567788888888776443222211  


Q ss_pred             ---hhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCC----cCHHHHHHH-HHHHHhcCCHHHHHHHHHhhhhCC---CCCc
Q 044047          126 ---STYNTFIDGLCKNGYIVEAAELFRTLRVLKCE----LGIEAYSCL-IDGLCKIGKLETAWELFQSLPRVG---LMPN  194 (260)
Q Consensus       126 ---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~  194 (260)
                         ..-..++..+.+.+... |.+.+++.++.--.    +-...|.-+ +..+...++...|.+.++.+....   ..|-
T Consensus        98 ~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~  176 (608)
T PF10345_consen   98 LKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPA  176 (608)
T ss_pred             HHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHH
Confidence               11224455565555555 77777765543211    122222322 222323378888888887765542   1223


Q ss_pred             hhhHHHHHHHHH--hcCChHHHHHHHHHHHhCC---------CCCChhhHHHHHHHHH--hcCchhHHHHHHHHHhh
Q 044047          195 VVTYNIMIHGFC--NDGQMDKAHDLFLDMEAKG---------VAPNCVTFNTLMLGCI--RNNETSKVVELLHRMDE  258 (260)
Q Consensus       195 ~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~---------~~p~~~~~~~l~~~~~--~~~~~~~a~~~~~~m~~  258 (260)
                      ...+-.++.+..  +.+..+++.+.++++....         ..|-..+|..+++.++  ..|+++.+.+.++++.+
T Consensus       177 ~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~  253 (608)
T PF10345_consen  177 VFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQ  253 (608)
T ss_pred             HHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344444444433  4565677777777664321         1334556666665554  56777777777776653

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 [].

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=88.05  E-value=5.9  Score=26.34  Aligned_cols=53  Identities=9%  Similarity=0.124  Sum_probs=31.2

Q ss_pred             HhcCChHHHHHHHHHHHhcCCC-CCccchHHHHHHHhccccHHHHHHHHHHHhhcC
Q 044047           66 CKTKDVEESLNLYSEMLSKGIR-PTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD  120 (260)
Q Consensus        66 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  120 (260)
                      ...++.+++..+++.|.--.+. +...++..  ..+...|+|++|.++|+.+.+.+
T Consensus        21 L~~~d~~D~e~lLdALrvLrP~~~e~d~~dg--~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLRPNLKELDMFDG--WLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCCccccchhHH--HHHHHcCCHHHHHHHHHhhhccC
Confidence            3467777777777777653221 12223332  34556777777777777776654

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=87.69  E-value=5.5  Score=25.59  Aligned_cols=48  Identities=8%  Similarity=0.066  Sum_probs=41.7

Q ss_pred             HHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC
Q 044047          142 VEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       142 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  189 (260)
                      -+..+-++.+...++-|++.....-+++|.+.+++..|.++|+.++..
T Consensus        66 wEvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K  113 (149)
T KOG4077|consen   66 WEVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK  113 (149)
T ss_pred             HHHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            356677788888888999999999999999999999999999988764

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=87.38  E-value=7.2  Score=29.99  Aligned_cols=90  Identities=14%  Similarity=0.075  Sum_probs=61.3

Q ss_pred             HHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHH
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLE  177 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  177 (260)
                      .-|.+.|.+++|+..|..-.... +-++.++..-..+|.+...+..|+.-.......+ ..-...|+.-+.+-...|+..
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~~  182 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNNM  182 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhHH
Confidence            45778899999999998876654 4478888888889999888887777666655443 222334555555555556666


Q ss_pred             HHHHHHHhhhhC
Q 044047          178 TAWELFQSLPRV  189 (260)
Q Consensus       178 ~a~~~~~~~~~~  189 (260)
                      +|.+=++.....
T Consensus       183 EAKkD~E~vL~L  194 (536)
T KOG4648|consen  183 EAKKDCETVLAL  194 (536)
T ss_pred             HHHHhHHHHHhh
Confidence            666666665553

>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function

Probab=86.88  E-value=11  Score=28.03  Aligned_cols=28  Identities=25%  Similarity=0.055  Sum_probs=18.9

Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHh
Q 044047          158 LGIEAYSCLIDGLCKIGKLETAWELFQS  185 (260)
Q Consensus       158 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~  185 (260)
                      -++.....+...|.+.|++.+|+..|-.
T Consensus        88 Gdp~LH~~~a~~~~~e~~~~~A~~Hfl~  115 (260)
T PF04190_consen   88 GDPELHHLLAEKLWKEGNYYEAERHFLL  115 (260)
T ss_dssp             --HHHHHHHHHHHHHTT-HHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHhhccHHHHHHHHHh
Confidence            4566777788888888888888776643

; PDB: 3LKU_E 2WPV_G.

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=86.70  E-value=3.5  Score=22.67  Aligned_cols=42  Identities=19%  Similarity=0.306  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHh
Q 044047            4 ASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMD   47 (260)
Q Consensus         4 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   47 (260)
                      ..++++.++..  +.|-.-.-.++.++.+.|++++|.++++.+.
T Consensus         9 ~~~~~~~lR~~--RHD~~NhLqvI~gllqlg~~~~a~eYi~~~~   50 (62)
T PF14689_consen    9 LEELIDSLRAQ--RHDFLNHLQVIYGLLQLGKYEEAKEYIKELS   50 (62)
T ss_dssp             HHHHHHHHHHH--HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH--hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            33444444433  3455555556666667777777766666654

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=86.56  E-value=5.4  Score=26.51  Aligned_cols=63  Identities=11%  Similarity=0.076  Sum_probs=37.8

Q ss_pred             HHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcC
Q 044047            6 RLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTK   69 (260)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   69 (260)
                      ++...+.+.|+++++. =..++..+.+.++.-.|.++++.+.+.+.+.+..|...-+..+...|
T Consensus         7 ~~~~~lk~~glr~T~q-R~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~G   69 (145)
T COG0735           7 DAIERLKEAGLRLTPQ-RLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAG   69 (145)
T ss_pred             HHHHHHHHcCCCcCHH-HHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCC
Confidence            3455666677766654 33466667766666777788877777664444554444444444444

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=86.52  E-value=22  Score=31.22  Aligned_cols=223  Identities=13%  Similarity=0.099  Sum_probs=120.8

Q ss_pred             HhccCCHHHHHHHHHHHhhcCCCCch-------hhHHHHH-HHHHhcCChHHHHHHHHHHHhc----CCCCCccchHHHH
Q 044047           30 FCLTGEIDRARELFVSMDINGCMHNV-------VTYNTLI-NGYCKTKDVEESLNLYSEMLSK----GIRPTVVTYNTLF   97 (260)
Q Consensus        30 ~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~   97 (260)
                      .....++.+|..++.++...-..|+.       ..|+.+- ......|+++.|.++.+.....    -..+....+..+.
T Consensus       425 ~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~  504 (894)
T COG2909         425 LASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLG  504 (894)
T ss_pred             HHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhh
Confidence            44578899999999887554212221       1233332 2344568899998888877654    1223455666777


Q ss_pred             HHHhccccHHHHHHHHHHHhhcCCCcchhh---HHHH--HHHHHhcCcHHHH--HHHHHHhhhc---CCC---cCHHHHH
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSDVAAETST---YNTF--IDGLCKNGYIVEA--AELFRTLRVL---KCE---LGIEAYS  164 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l--~~~~~~~~~~~~a--~~~~~~~~~~---~~~---~~~~~~~  164 (260)
                      .+..-.|+.++|..+.++..+....-+...   |..+  ...+...|+...+  ...+......   ..+   +-..+..
T Consensus       505 ~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~  584 (894)
T COG2909         505 EAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRA  584 (894)
T ss_pred             HHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHH
Confidence            778888999999998887765422223222   2222  2334556643332  2233322211   101   2233445


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhh----hhCCCCCchhh--HHHHHHHHHhcCChHHHHHHHHHHHhCCCC----CChhhHH
Q 044047          165 CLIDGLCKIGKLETAWELFQSL----PRVGLMPNVVT--YNIMIHGFCNDGQMDKAHDLFLDMEAKGVA----PNCVTFN  234 (260)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~--~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~----p~~~~~~  234 (260)
                      .+..++.+   .+.+..-...-    ......|-...  +..|+......|+.++|...+.++......    ++..+-.
T Consensus       585 ~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~  661 (894)
T COG2909         585 QLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAA  661 (894)
T ss_pred             HHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHH
Confidence            55555554   33333222222    22211222222  236778888999999999999998765322    2322222


Q ss_pred             HHHHH--HHhcCchhHHHHHHHH
Q 044047          235 TLMLG--CIRNNETSKVVELLHR  255 (260)
Q Consensus       235 ~l~~~--~~~~~~~~~a~~~~~~  255 (260)
                      ..+..  ....|+...+.....+
T Consensus       662 ~~v~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         662 YKVKLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             HHhhHHHhcccCCHHHHHHHHHh
Confidence            33322  2356777777766554

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=86.25  E-value=20  Score=30.52  Aligned_cols=194  Identities=14%  Similarity=0.124  Sum_probs=111.0

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHh-hcCCCCc--hhhHHHHHHHHH-hcCChHHHHHHHHHHHhcCCCCCcc---
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMD-INGCMHN--VVTYNTLINGYC-KTKDVEESLNLYSEMLSKGIRPTVV---   91 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~--~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~---   91 (260)
                      +...|..||..         |+..++.+. +..++|.  ..++-.+...+. ...+++.|...+++.....-.++..   
T Consensus        29 ~l~~Y~kLI~~---------ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k   99 (608)
T PF10345_consen   29 QLKQYYKLIAT---------AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLK   99 (608)
T ss_pred             hHHHHHHHHHH---------HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHH
Confidence            44556666543         445555555 3333343  334555566655 5688999999999876543332222   


Q ss_pred             --chHHHHHHHhccccHHHHHHHHHHHhhcC----CCcchhhHHHH-HHHHHhcCcHHHHHHHHHHhhhcC---CCcCHH
Q 044047           92 --TYNTLFHGLFEIHQVEHALKLFDEMQHSD----VAAETSTYNTF-IDGLCKNGYIVEAAELFRTLRVLK---CELGIE  161 (260)
Q Consensus        92 --~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~  161 (260)
                        .-..++..+.+.+... |.+.+++..+.-    ..+-...|..+ +..+...+++..|.+.++.+....   ..|...
T Consensus       100 ~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~  178 (608)
T PF10345_consen  100 FRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVF  178 (608)
T ss_pred             HHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHH
Confidence              1234566666666655 888888765432    22223344444 333333479999999998876443   234444


Q ss_pred             HHHHHHHHHH--hcCCHHHHHHHHHhhhhCC---------CCCchhhHHHHHHHHH--hcCChHHHHHHHHHHH
Q 044047          162 AYSCLIDGLC--KIGKLETAWELFQSLPRVG---------LMPNVVTYNIMIHGFC--NDGQMDKAHDLFLDME  222 (260)
Q Consensus       162 ~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~---------~~~~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~  222 (260)
                      ++..++.+..  +.+..+++.+.++.+....         ..|...+|..+++.++  ..|+++.+...++++.
T Consensus       179 v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq  252 (608)
T PF10345_consen  179 VLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQ  252 (608)
T ss_pred             HHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5555555544  4455666777776653221         1234567777776655  5777777777666553

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 [].

>PF04910 Tcf25: Transcriptional repressor TCF25; InterPro: IPR006994 This entry appears to represent a novel family of basic helix-loop-helix (bHLH) proteins that control differentiation and development of a variety of organs [, ]

Probab=85.87  E-value=15  Score=28.80  Aligned_cols=57  Identities=19%  Similarity=0.101  Sum_probs=35.8

Q ss_pred             HHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHH-hcCChHHHHHHHHHHHh
Q 044047          167 IDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFC-NDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~a~~~~~~~~~  223 (260)
                      +..+.+.|.+..|.++.+-+......-|+......|..|+ +.++++--+++.+....
T Consensus       110 i~~L~~RG~~rTAlE~~KlLlsLdp~~DP~g~ll~ID~~ALrs~~y~~Li~~~~~~~~  167 (360)
T PF04910_consen  110 IQSLGRRGCWRTALEWCKLLLSLDPDEDPLGVLLFIDYYALRSRQYQWLIDFSESPLA  167 (360)
T ss_pred             HHHHHhcCcHHHHHHHHHHHHhcCCCCCcchhHHHHHHHHHhcCCHHHHHHHHHhHhh
Confidence            4566677777777777777777654435555555555554 56666666666665544

Human Nulp1 (Q2MK75 from SWISSPROT) is a basic helix-loop-helix protein expressed broadly during early embryonic organogenesis. Over expression of human Nulp1 in COS-7 cells inhibits the transcriptional activity of serum response factor (SRF), suggesting that Nulp1 may act as a novel bHLH transcriptional repressor in the SRF signalling pathway to mediate cellular functions [].

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=85.64  E-value=13  Score=30.92  Aligned_cols=88  Identities=10%  Similarity=0.113  Sum_probs=46.6

Q ss_pred             hccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 044047          101 FEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAW  180 (260)
Q Consensus       101 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  180 (260)
                      .-.|+...|...+.........-.......+.....+.|-..+|-.++....... ...+-++..+.+++....+++.|+
T Consensus       618 r~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~-~sepl~~~~~g~~~l~l~~i~~a~  696 (886)
T KOG4507|consen  618 RAVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAIN-SSEPLTFLSLGNAYLALKNISGAL  696 (886)
T ss_pred             eecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhc-ccCchHHHhcchhHHHHhhhHHHH
Confidence            3456666666665554332211122233444555555555556666665554443 333445555666666666667776


Q ss_pred             HHHHhhhhC
Q 044047          181 ELFQSLPRV  189 (260)
Q Consensus       181 ~~~~~~~~~  189 (260)
                      +.|+++.+.
T Consensus       697 ~~~~~a~~~  705 (886)
T KOG4507|consen  697 EAFRQALKL  705 (886)
T ss_pred             HHHHHHHhc
Confidence            666666554

>PHA02875 ankyrin repeat protein; Provisional

Probab=85.28  E-value=17  Score=28.96  Aligned_cols=202  Identities=11%  Similarity=0.015  Sum_probs=92.9

Q ss_pred             HHHHHHHHcCCCccHHH--HHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchh--hHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            6 RLLDLMIQRGVRPNAFV--YSTLIDGFCLTGEIDRARELFVSMDINGCMHNVV--TYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         6 ~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++++.+.+.|..|+...  ..+.+...+..|+.+-+.    .+.+.|..|+..  .....+...+..|+.+.+..+++  
T Consensus        16 ~iv~~Ll~~g~~~n~~~~~g~tpL~~A~~~~~~~~v~----~Ll~~ga~~~~~~~~~~t~L~~A~~~g~~~~v~~Ll~--   89 (413)
T PHA02875         16 DIARRLLDIGINPNFEIYDGISPIKLAMKFRDSEAIK----LLMKHGAIPDVKYPDIESELHDAVEEGDVKAVEELLD--   89 (413)
T ss_pred             HHHHHHHHCCCCCCccCCCCCCHHHHHHHcCCHHHHH----HHHhCCCCccccCCCcccHHHHHHHCCCHHHHHHHHH--
Confidence            56677777777665432  234455566777776443    334455444322  12234555667788766555443  


Q ss_pred             HhcCCCCCc---cchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhh--HHHHHHHHHhcCcHHHHHHHHHHhhhcCC
Q 044047           82 LSKGIRPTV---VTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETST--YNTFIDGLCKNGYIVEAAELFRTLRVLKC  156 (260)
Q Consensus        82 ~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  156 (260)
                        .|...+.   ..-.+.+...+..|+.+-+    +.+.+.|..++...  -...+...+..|+.+-+..+++.-.... 
T Consensus        90 --~~~~~~~~~~~~g~tpL~~A~~~~~~~iv----~~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~~v~~Ll~~g~~~~-  162 (413)
T PHA02875         90 --LGKFADDVFYKDGMTPLHLATILKKLDIM----KLLIARGADPDIPNTDKFSPLHLAVMMGDIKGIELLIDHKACLD-  162 (413)
T ss_pred             --cCCcccccccCCCCCHHHHHHHhCCHHHH----HHHHhCCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHhcCCCCC-
Confidence              3322111   1112334445556666433    34444454433211  1223444456777766555544321111 


Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhh---HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 044047          157 ELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVT---YNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPN  229 (260)
Q Consensus       157 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  229 (260)
                      ..+..-.+.+ ...+..|+.+-+..    +.+.|..++...   ...++...+..|+.+-    .+.+.+.|..++
T Consensus       163 ~~d~~g~TpL-~~A~~~g~~eiv~~----Ll~~ga~~n~~~~~~~~t~l~~A~~~~~~~i----v~~Ll~~gad~n  229 (413)
T PHA02875        163 IEDCCGCTPL-IIAMAKGDIAICKM----LLDSGANIDYFGKNGCVAALCYAIENNKIDI----VRLFIKRGADCN  229 (413)
T ss_pred             CCCCCCCCHH-HHHHHcCCHHHHHH----HHhCCCCCCcCCCCCCchHHHHHHHcCCHHH----HHHHHHCCcCcc
Confidence            1112222222 23345566654443    444554444221   1234443455666553    334445555554

>smart00028 TPR Tetratricopeptide repeats

Probab=85.17  E-value=2.1  Score=18.61  Aligned_cols=24  Identities=13%  Similarity=0.206  Sum_probs=12.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHH
Q 044047          198 YNIMIHGFCNDGQMDKAHDLFLDM  221 (260)
Q Consensus       198 ~~~l~~~~~~~g~~~~a~~~~~~~  221 (260)
                      |..+...+...|+++.|...++..
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~   27 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKA   27 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHH
Confidence            344444555555555555555443

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.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=85.10  E-value=8.9  Score=25.45  Aligned_cols=81  Identities=14%  Similarity=0.247  Sum_probs=48.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcC-----CCCCccchHHHHHHHhcccc-HHHHHHHHHHHhhcCCCcchhhHHHH
Q 044047           58 YNTLINGYCKTKDVEESLNLYSEMLSKG-----IRPTVVTYNTLFHGLFEIHQ-VEHALKLFDEMQHSDVAAETSTYNTF  131 (260)
Q Consensus        58 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l  131 (260)
                      .+.++.-....+++...+++++.+..-.     -..+...|++++.+.++... .--+..+|.-+.+.+.++++.-|..+
T Consensus        42 iN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~l  121 (145)
T PF13762_consen   42 INCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCL  121 (145)
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            4566666666677777777776663211     01245566777777655554 33455666666666666667777777


Q ss_pred             HHHHHhc
Q 044047          132 IDGLCKN  138 (260)
Q Consensus       132 ~~~~~~~  138 (260)
                      +.++.+-
T Consensus       122 i~~~l~g  128 (145)
T PF13762_consen  122 IKAALRG  128 (145)
T ss_pred             HHHHHcC
Confidence            7666543

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=85.02  E-value=4.5  Score=23.49  Aligned_cols=47  Identities=6%  Similarity=0.004  Sum_probs=26.6

Q ss_pred             hcCCHHHHHHHHHhhhhCCCCCc--hhhHHHHHHHHHhcCChHHHHHHH
Q 044047          172 KIGKLETAWELFQSLPRVGLMPN--VVTYNIMIHGFCNDGQMDKAHDLF  218 (260)
Q Consensus       172 ~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~  218 (260)
                      ..++.++|+..|....+.-..+.  -.++..++.+++..|++.+++++-
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA   66 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFA   66 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566666666666655432221  234556666666777666665543

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

>PHA02875 ankyrin repeat protein; Provisional

Probab=84.68  E-value=19  Score=28.79  Aligned_cols=183  Identities=17%  Similarity=0.098  Sum_probs=84.9

Q ss_pred             HHHhccCCHHHHHHHHHHHhhcCCCCchhh--HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCcc--chHHHHHHHhcc
Q 044047           28 DGFCLTGEIDRARELFVSMDINGCMHNVVT--YNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVV--TYNTLFHGLFEI  103 (260)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~  103 (260)
                      ...++.|+.+.+..++    +.|..++...  ..+.+...+..|+.+    +.+.+.+.|..|+..  .....+......
T Consensus         7 ~~A~~~g~~~iv~~Ll----~~g~~~n~~~~~g~tpL~~A~~~~~~~----~v~~Ll~~ga~~~~~~~~~~t~L~~A~~~   78 (413)
T PHA02875          7 CDAILFGELDIARRLL----DIGINPNFEIYDGISPIKLAMKFRDSE----AIKLLMKHGAIPDVKYPDIESELHDAVEE   78 (413)
T ss_pred             HHHHHhCCHHHHHHHH----HCCCCCCccCCCCCCHHHHHHHcCCHH----HHHHHHhCCCCccccCCCcccHHHHHHHC
Confidence            3344567776555544    4555554322  234455556677765    344445566555432  123345566677


Q ss_pred             ccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHH---HHHHHHHHHHhcCCHHHHH
Q 044047          104 HQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIE---AYSCLIDGLCKIGKLETAW  180 (260)
Q Consensus       104 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~  180 (260)
                      |+.+.+..+++.-....-..+.... ..+...+..|+.+-+..+    .+.|..++..   ..+ .+...+..|+.+-+.
T Consensus        79 g~~~~v~~Ll~~~~~~~~~~~~~g~-tpL~~A~~~~~~~iv~~L----l~~gad~~~~~~~g~t-pLh~A~~~~~~~~v~  152 (413)
T PHA02875         79 GDVKAVEELLDLGKFADDVFYKDGM-TPLHLATILKKLDIMKLL----IARGADPDIPNTDKFS-PLHLAVMMGDIKGIE  152 (413)
T ss_pred             CCHHHHHHHHHcCCcccccccCCCC-CHHHHHHHhCCHHHHHHH----HhCCCCCCCCCCCCCC-HHHHHHHcCCHHHHH
Confidence            8887766665432111000111111 233344456666544443    3444443321   122 334445677776655


Q ss_pred             HHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCh
Q 044047          181 ELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNC  230 (260)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  230 (260)
                      .+++.-..... .|..-.+.+. ..+..|+.+    +.+.+.+.|..|+.
T Consensus       153 ~Ll~~g~~~~~-~d~~g~TpL~-~A~~~g~~e----iv~~Ll~~ga~~n~  196 (413)
T PHA02875        153 LLIDHKACLDI-EDCCGCTPLI-IAMAKGDIA----ICKMLLDSGANIDY  196 (413)
T ss_pred             HHHhcCCCCCC-CCCCCCCHHH-HHHHcCCHH----HHHHHHhCCCCCCc
Confidence            55543222111 1222222333 334566655    34445566665543

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=84.39  E-value=7.3  Score=23.92  Aligned_cols=85  Identities=15%  Similarity=0.190  Sum_probs=56.0

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|..|-+.+...+-. ...+--+-+..+...|++++|..+.+.+    ..||...|-.+-..  +.|-.+++..-+.++
T Consensus        22 qEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~----~~pdlepw~ALce~--rlGl~s~l~~rl~rl   94 (115)
T TIGR02508        22 QEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKL----CYPDLEPWLALCEW--RLGLGSALESRLNRL   94 (115)
T ss_pred             HHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCC----CCchHHHHHHHHHH--hhccHHHHHHHHHHH
Confidence            4677777777765422 2233333455677899999999887765    37888888777654  667777777777777


Q ss_pred             HhcCCCCCccchH
Q 044047           82 LSKGIRPTVVTYN   94 (260)
Q Consensus        82 ~~~~~~~~~~~~~   94 (260)
                      ..+|. |....|.
T Consensus        95 a~sg~-p~lq~Fa  106 (115)
T TIGR02508        95 AASGD-PRLQTFV  106 (115)
T ss_pred             HhCCC-HHHHHHH
Confidence            77653 3444443

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.

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=84.29  E-value=12  Score=31.24  Aligned_cols=104  Identities=16%  Similarity=0.014  Sum_probs=72.3

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHH
Q 044047           63 NGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIV  142 (260)
Q Consensus        63 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  142 (260)
                      -.....|+...|...+.......+.-..+....|.....+.|..-.|-.++.+..... ...+.++..+.+++....+.+
T Consensus       615 lywr~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~-~sepl~~~~~g~~~l~l~~i~  693 (886)
T KOG4507|consen  615 LYWRAVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAIN-SSEPLTFLSLGNAYLALKNIS  693 (886)
T ss_pred             ceeeecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhc-ccCchHHHhcchhHHHHhhhH
Confidence            3344568888888888777654333344555566677777777888888887766554 445667788889999999999


Q ss_pred             HHHHHHHHhhhcCCCcCHHHHHHHHH
Q 044047          143 EAAELFRTLRVLKCELGIEAYSCLID  168 (260)
Q Consensus       143 ~a~~~~~~~~~~~~~~~~~~~~~l~~  168 (260)
                      .|++.|+...... +.++..-+.+..
T Consensus       694 ~a~~~~~~a~~~~-~~~~~~~~~l~~  718 (886)
T KOG4507|consen  694 GALEAFRQALKLT-TKCPECENSLKL  718 (886)
T ss_pred             HHHHHHHHHHhcC-CCChhhHHHHHH
Confidence            9999999887664 444554444443

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=84.25  E-value=15  Score=27.54  Aligned_cols=27  Identities=11%  Similarity=0.287  Sum_probs=14.7

Q ss_pred             HHHhccccHHHHHHHHHHHhhcCCCcc
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSDVAAE  124 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~~~~~  124 (260)
                      +-..+.+++++|+..+.++...|+..+
T Consensus        11 ~~~v~~~~~~~ai~~yk~iL~kg~s~d   37 (421)
T COG5159          11 NNAVKSNDIEKAIGEYKRILGKGVSKD   37 (421)
T ss_pred             HHhhhhhhHHHHHHHHHHHhcCCCChh
Confidence            334455556666666666655554444

>PF11817 Foie-gras_1: Foie gras liver health family 1; InterPro: IPR021773 Mutating the gene foie gras in zebrafish has been shown to affect development; the mutants develop large, lipid-filled hepatocytes in the liver, resembling those in individuals with fatty liver disease []

Probab=83.73  E-value=9.4  Score=28.05  Aligned_cols=61  Identities=18%  Similarity=0.145  Sum_probs=40.0

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHh----cC-CCCCccchHHHHHHHhccccHHHHHHHHHHH
Q 044047           56 VTYNTLINGYCKTKDVEESLNLYSEMLS----KG-IRPTVVTYNTLFHGLFEIHQVEHALKLFDEM  116 (260)
Q Consensus        56 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  116 (260)
                      ..--.+..-|.+.|++++|.++|+.+..    .| ..+...+...+..++.+.|+.+..+.+.-++
T Consensus       179 ~l~~~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~~~l~~~leL  244 (247)
T PF11817_consen  179 YLSLEMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVEDYLTTSLEL  244 (247)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            3344566777888888888888877642    23 2334555666777777888887777665444

Foie-gras protein is long and has several well-defined domains though none of them has a known function. We have annotated this one as the first []. THe C terminus of this region contains TPR repeats.

>PF09477 Type_III_YscG: Bacterial type II secretion system chaperone protein (type_III_yscG); InterPro: IPR013348 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)

Probab=83.54  E-value=8.4  Score=23.97  Aligned_cols=89  Identities=11%  Similarity=0.082  Sum_probs=54.6

Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHH
Q 044047           32 LTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALK  111 (260)
Q Consensus        32 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  111 (260)
                      -....++|..+.+-+...+ .....+--+-+..+...|++++|+  . . ......||...|..|  +-.+.|-.+++..
T Consensus        18 G~HcH~EA~tIa~wL~~~~-~~~E~v~lIr~~sLmNrG~Yq~AL--l-~-~~~~~~pdL~p~~AL--~a~klGL~~~~e~   90 (116)
T PF09477_consen   18 GHHCHQEANTIADWLEQEG-EMEEVVALIRLSSLMNRGDYQEAL--L-L-PQCHCYPDLEPWAAL--CAWKLGLASALES   90 (116)
T ss_dssp             TTT-HHHHHHHHHHHHHTT-TTHHHHHHHHHHHHHHTT-HHHHH--H-H-HTTS--GGGHHHHHH--HHHHCT-HHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHH--H-h-cccCCCccHHHHHHH--HHHhhccHHHHHH
Confidence            3456788888888887775 233334444556778889999982  1 1 222346777777665  4457888888888


Q ss_pred             HHHHHhhcCCCcchhhH
Q 044047          112 LFDEMQHSDVAAETSTY  128 (260)
Q Consensus       112 ~~~~~~~~~~~~~~~~~  128 (260)
                      .+.++..+| .|....|
T Consensus        91 ~l~rla~~g-~~~~q~F  106 (116)
T PF09477_consen   91 RLTRLASSG-SPELQAF  106 (116)
T ss_dssp             HHHHHCT-S-SHHHHHH
T ss_pred             HHHHHHhCC-CHHHHHH
Confidence            888887776 4544444

The secretion system delivers effector proteins, designated Yops (Yersinia outer proteins), in Yersinia. This entry consists of YscG from Yersinia, and functionally equivalent type III secretion proteins in other species: e.g. AscG in Aeromonas and LscG in Photorhabdus luminescens.; GO: 0009405 pathogenesis; PDB: 3PH0_D 2UWJ_G 2P58_C.

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=83.53  E-value=12  Score=25.90  Aligned_cols=22  Identities=5%  Similarity=0.190  Sum_probs=14.6

Q ss_pred             HHHHHhcCChHHHHHHHHHHHh
Q 044047           62 INGYCKTKDVEESLNLYSEMLS   83 (260)
Q Consensus        62 ~~~~~~~~~~~~a~~~~~~~~~   83 (260)
                      +..|.+.|.+++|.+++++..+
T Consensus       118 V~VCm~~g~Fk~A~eiLkr~~~  139 (200)
T cd00280         118 VAVCMENGEFKKAEEVLKRLFS  139 (200)
T ss_pred             HHHHHhcCchHHHHHHHHHHhc
Confidence            3456667777777777776665

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.

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=83.37  E-value=17  Score=27.39  Aligned_cols=71  Identities=11%  Similarity=0.025  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHH-----hCCCCCChhhH
Q 044047          162 AYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDME-----AKGVAPNCVTF  233 (260)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-----~~~~~p~~~~~  233 (260)
                      +++.....|..+|.+.+|.++.+.....+ +.+...+..++..+...|+--.+..-++++.     +.|+..+...+
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsie  356 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIE  356 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHH
Confidence            44555677778888888888887777654 3456677777788888887666666666553     23665554443

>PF09477 Type_III_YscG: Bacterial type II secretion system chaperone protein (type_III_yscG); InterPro: IPR013348 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)

Probab=83.13  E-value=8.8  Score=23.89  Aligned_cols=86  Identities=12%  Similarity=0.039  Sum_probs=44.8

Q ss_pred             ChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHH
Q 044047           70 DVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFR  149 (260)
Q Consensus        70 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  149 (260)
                      ..++|..+.+-+...+.. ...+--+-+..+.+.|++++|   +..-... ..||...|..+  +-.+.|--+++...+.
T Consensus        21 cH~EA~tIa~wL~~~~~~-~E~v~lIr~~sLmNrG~Yq~A---Ll~~~~~-~~pdL~p~~AL--~a~klGL~~~~e~~l~   93 (116)
T PF09477_consen   21 CHQEANTIADWLEQEGEM-EEVVALIRLSSLMNRGDYQEA---LLLPQCH-CYPDLEPWAAL--CAWKLGLASALESRLT   93 (116)
T ss_dssp             -HHHHHHHHHHHHHTTTT-HHHHHHHHHHHHHHTT-HHHH---HHHHTTS---GGGHHHHHH--HHHHCT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCcH-HHHHHHHHHHHHHhhHHHHHH---HHhcccC-CCccHHHHHHH--HHHhhccHHHHHHHHH
Confidence            467777777777766432 223333344556677888887   2111111 24555554443  3457777777777777


Q ss_pred             HhhhcCCCcCHHHH
Q 044047          150 TLRVLKCELGIEAY  163 (260)
Q Consensus       150 ~~~~~~~~~~~~~~  163 (260)
                      ++..+| .|....|
T Consensus        94 rla~~g-~~~~q~F  106 (116)
T PF09477_consen   94 RLASSG-SPELQAF  106 (116)
T ss_dssp             HHCT-S-SHHHHHH
T ss_pred             HHHhCC-CHHHHHH
Confidence            776655 4444333

The secretion system delivers effector proteins, designated Yops (Yersinia outer proteins), in Yersinia. This entry consists of YscG from Yersinia, and functionally equivalent type III secretion proteins in other species: e.g. AscG in Aeromonas and LscG in Photorhabdus luminescens.; GO: 0009405 pathogenesis; PDB: 3PH0_D 2UWJ_G 2P58_C.

>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division

Probab=82.97  E-value=6.9  Score=25.27  Aligned_cols=62  Identities=13%  Similarity=0.130  Sum_probs=43.5

Q ss_pred             CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCC-chhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047           17 RPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMH-NVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus        17 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      +.|+......+. |++.-+  .+.++|+.|...|+-. .+..|......+...|++++|.++|+.-
T Consensus        63 ~nD~RylkiWi~-ya~~~~--~~~~if~~l~~~~IG~~~A~fY~~wA~~le~~~~~~~A~~I~~~G  125 (126)
T PF08311_consen   63 KNDERYLKIWIK-YADLSS--DPREIFKFLYSKGIGTKLALFYEEWAEFLEKRGNFKKADEIYQLG  125 (126)
T ss_dssp             TT-HHHHHHHHH-HHTTBS--HHHHHHHHHHHHTTSTTBHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             cCCHHHHHHHHH-HHHHcc--CHHHHHHHHHHcCccHHHHHHHHHHHHHHHHcCCHHHHHHHHHhh
Confidence            446654444443 333322  8999999998877654 4667888999999999999999999753

This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=82.90  E-value=14  Score=25.98  Aligned_cols=130  Identities=11%  Similarity=0.042  Sum_probs=64.3

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHH-----HHHHHhccccHHHHHHHHHHHhhcCCCc--chh
Q 044047           54 NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNT-----LFHGLFEIHQVEHALKLFDEMQHSDVAA--ETS  126 (260)
Q Consensus        54 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~  126 (260)
                      -...|..++.... .+.. +.....+++....   ...+|..     +...+...+++++|...++.........  ...
T Consensus        53 AS~~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n---~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l  127 (207)
T COG2976          53 ASAQYQNAIKAVQ-AKKP-KSIAAAEKFVQAN---GKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQTKDENLKAL  127 (207)
T ss_pred             HHHHHHHHHHHHh-cCCc-hhHHHHHHHHhhc---cccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccchhHHHHHH
Confidence            3444555555443 2222 4444455554431   1223322     2344556677777777666654321010  111


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC
Q 044047          127 TYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVG  190 (260)
Q Consensus       127 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  190 (260)
                      +-..|.+.....|.+++|+..++.....+.  .......-...+...|+-++|+.-|......+
T Consensus       128 ~~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         128 AALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            122334455566777777777665553321  22223334556667777777777777666654

>PF09454 Vps23_core: Vps23 core domain; InterPro: IPR017916 The Endosomal Sorting Complex Required for Transport (ESCRT) complexes form the machinery driving protein sorting from endosomes to lysosomes

Probab=82.83  E-value=5.1  Score=22.33  Aligned_cols=49  Identities=8%  Similarity=0.034  Sum_probs=28.7

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHh
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCK   67 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   67 (260)
                      |....++.++...++....++++..+.++...| ..+..+|..-++.+++
T Consensus         6 ~~~~l~~Ql~el~Aed~AieDtiy~L~~al~~g-~I~~d~~lK~vR~LaR   54 (65)
T PF09454_consen    6 AEDPLSNQLYELVAEDHAIEDTIYYLDRALQRG-SIDLDTFLKQVRSLAR   54 (65)
T ss_dssp             -SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SS-HHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            444556666666666666677777777666666 3455555555554443

ESCRT complexes are central to receptor down-regulation, lysosome biogenesis, and budding of HIV. Yeast ESCRT-I consists of three protein subunits, VPS23, VPS28, and VPS37. In humans, ESCRT-I comprises TSG101, VPS28, and one of four potential human VPS37 homologues. The main role of ESCRT-I is to recognise ubiquitinated cargo via the UEV domain of the VPS23/TSG101 subunit. The assembly of the ESCRT-I complex is directed by the C-terminal steadiness box (SB) of VPS23, the N-terminal half of VPS28, and the C-terminal half of VPS37. The structure is primarily composed of three long, parallel helical hairpins, each corresponding to a different subunit. The additional domains and motifs extending beyond the core serve as gripping tools for ESCRT-I critical functions [, ]. This entry represents the Steadiness box domain.; PDB: 2CAZ_A 2F66_D 2F6M_A 2P22_A.

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=82.58  E-value=54  Score=32.58  Aligned_cols=152  Identities=15%  Similarity=0.016  Sum_probs=89.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCC--CCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHh
Q 044047           60 TLINGYCKTKDVEESLNLYSEMLSKGI--RPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCK  137 (260)
Q Consensus        60 ~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  137 (260)
                      .+..+-.+.+.+.+|+..+++-.....  .....-|..+...|+..+++|.+..+...-..   .|   ....-+.....
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a---~~---sl~~qil~~e~ 1461 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFA---DP---SLYQQILEHEA 1461 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhc---Cc---cHHHHHHHHHh
Confidence            455566677888888888887311100  11123334444478888888887777664111   12   23344455567


Q ss_pred             cCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHH-HHHHHHhcCChHHHHH
Q 044047          138 NGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNI-MIHGFCNDGQMDKAHD  216 (260)
Q Consensus       138 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~a~~  216 (260)
                      .|++..|...|+.+.+.+ ++...+++-++......|.++......+...... .+....++. =+.+-.+.++++....
T Consensus      1462 ~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD~~e~ 1539 (2382)
T KOG0890|consen 1462 SGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDLLES 1539 (2382)
T ss_pred             hccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhhhhh
Confidence            888888888888888765 4556677777777777777777776665554431 122222322 2334456666666555


Q ss_pred             HHH
Q 044047          217 LFL  219 (260)
Q Consensus       217 ~~~  219 (260)
                      ...
T Consensus      1540 ~l~ 1542 (2382)
T KOG0890|consen 1540 YLS 1542 (2382)
T ss_pred             hhh
Confidence            543

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.47  E-value=32  Score=29.83  Aligned_cols=151  Identities=13%  Similarity=0.077  Sum_probs=81.2

Q ss_pred             HHHHhccCCHHHHHHHHHHHhhcCCCC---chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcc
Q 044047           27 IDGFCLTGEIDRARELFVSMDINGCMH---NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEI  103 (260)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  103 (260)
                      ++.+.+.+.+++|++..+.....  .|   ....+...+..+...|++++|-...-+|...    +..-|.-.+..+...
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~--~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~  436 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGN--EERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAEL  436 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCC--ccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhccc
Confidence            45566778888888877654332  33   3456778888888888888888877777654    344444444444444


Q ss_pred             ccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhh-----------------hcCCCcCHHHHHHH
Q 044047          104 HQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLR-----------------VLKCELGIEAYSCL  166 (260)
Q Consensus       104 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----------------~~~~~~~~~~~~~l  166 (260)
                      ++......+   +.......+...|..++..+.. .+...-.++..+..                 +.. ..+...-..|
T Consensus       437 ~~l~~Ia~~---lPt~~~rL~p~vYemvLve~L~-~~~~~F~e~i~~Wp~~Lys~l~iisa~~~q~~q~-Se~~~L~e~L  511 (846)
T KOG2066|consen  437 DQLTDIAPY---LPTGPPRLKPLVYEMVLVEFLA-SDVKGFLELIKEWPGHLYSVLTIISATEPQIKQN-SESTALLEVL  511 (846)
T ss_pred             cccchhhcc---CCCCCcccCchHHHHHHHHHHH-HHHHHHHHHHHhCChhhhhhhHHHhhcchHHHhh-ccchhHHHHH
Confidence            433322211   1111111233445555544444 22222111111100                 000 1122233447


Q ss_pred             HHHHHhcCCHHHHHHHHHhhhh
Q 044047          167 IDGLCKIGKLETAWELFQSLPR  188 (260)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~  188 (260)
                      +..|...+++..|..++-.+++
T Consensus       512 a~LYl~d~~Y~~Al~~ylklk~  533 (846)
T KOG2066|consen  512 AHLYLYDNKYEKALPIYLKLQD  533 (846)
T ss_pred             HHHHHHccChHHHHHHHHhccC
Confidence            8888889999999988877664

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=82.38  E-value=19  Score=27.12  Aligned_cols=21  Identities=38%  Similarity=0.344  Sum_probs=12.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHH
Q 044047          164 SCLIDGLCKIGKLETAWELFQ  184 (260)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~  184 (260)
                      .-++..+.+.|.+.+|..+..
T Consensus       129 ~Kli~l~y~~~~YsdalalIn  149 (421)
T COG5159         129 CKLIYLLYKTGKYSDALALIN  149 (421)
T ss_pred             HHHHHHHHhcccHHHHHHHHH
Confidence            345666667777777666543

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=81.91  E-value=29  Score=28.94  Aligned_cols=189  Identities=14%  Similarity=0.024  Sum_probs=121.5

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF   97 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   97 (260)
                      ++..+|+.-+..-.+.|+++.+.-+|+...-. +..=...|-..+......|+.+.|..++....+.-++-.+.+...-.
T Consensus       295 aql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a  373 (577)
T KOG1258|consen  295 AQLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEA  373 (577)
T ss_pred             HHHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHH
Confidence            35678888888889999999999999887531 12234566677777777799999988887776654443333333333


Q ss_pred             HHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHH---HHHHHhhhcCCCcCH--HHHHHHHH-HHH
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAA---ELFRTLRVLKCELGI--EAYSCLID-GLC  171 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~---~~~~~~~~~~~~~~~--~~~~~l~~-~~~  171 (260)
                      ...-..|+...|..+++.+...- +.-...-..-+....+.|+.+.+.   .++.........+..  ..+....+ .+.
T Consensus       374 ~f~e~~~n~~~A~~~lq~i~~e~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~  452 (577)
T KOG1258|consen  374 RFEESNGNFDDAKVILQRIESEY-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYK  452 (577)
T ss_pred             HHHHhhccHHHHHHHHHHHHhhC-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHH
Confidence            33446789999999999988764 333333334455667788888877   444443332222221  11222221 234


Q ss_pred             hcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcC
Q 044047          172 KIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDG  209 (260)
Q Consensus       172 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  209 (260)
                      -.++.+.|..++.++.+. .+++...|..++......+
T Consensus       453 i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  453 IREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence            467899999999998876 4556777777777666544

>KOG4567 consensus GTPase-activating protein [General function prediction only]

Probab=81.71  E-value=18  Score=27.47  Aligned_cols=71  Identities=11%  Similarity=0.165  Sum_probs=48.7

Q ss_pred             HHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhc----------cccHHHH
Q 044047           40 RELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFE----------IHQVEHA  109 (260)
Q Consensus        40 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----------~~~~~~a  109 (260)
                      .++|+.+...++.|.-.++.-+.-.+.+.=.+.+.+.+++.+...     ..-|..|+..|+.          .|++..-
T Consensus       263 ~EL~~~L~~~~i~PqfyaFRWitLLLsQEF~lpDvi~lWDsl~sD-----~~rfd~Ll~iCcsmlil~Re~il~~DF~~n  337 (370)
T KOG4567|consen  263 EELWRHLEEKEIHPQFYAFRWITLLLSQEFPLPDVIRLWDSLLSD-----PQRFDFLLYICCSMLILVRERILEGDFTVN  337 (370)
T ss_pred             HHHHHHHHhcCCCccchhHHHHHHHHhccCCchhHHHHHHHHhcC-----hhhhHHHHHHHHHHHHHHHHHHHhcchHHH
Confidence            457777777777888777777777777777778888888887753     3335555555542          5777777


Q ss_pred             HHHHHH
Q 044047          110 LKLFDE  115 (260)
Q Consensus       110 ~~~~~~  115 (260)
                      .++++.
T Consensus       338 mkLLQ~  343 (370)
T KOG4567|consen  338 MKLLQN  343 (370)
T ss_pred             HHHHhc
Confidence            777665

>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division

Probab=81.63  E-value=12  Score=24.22  Aligned_cols=61  Identities=13%  Similarity=0.141  Sum_probs=41.5

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-ccchHHHHHHHhccccHHHHHHHHHH
Q 044047           52 MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT-VVTYNTLFHGLFEIHQVEHALKLFDE  115 (260)
Q Consensus        52 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~  115 (260)
                      ..|..-....+.. ++.  .+.+..+|..|...|+-.. ...|......+...|++++|..+|+.
T Consensus        63 ~nD~RylkiWi~y-a~~--~~~~~~if~~l~~~~IG~~~A~fY~~wA~~le~~~~~~~A~~I~~~  124 (126)
T PF08311_consen   63 KNDERYLKIWIKY-ADL--SSDPREIFKFLYSKGIGTKLALFYEEWAEFLEKRGNFKKADEIYQL  124 (126)
T ss_dssp             TT-HHHHHHHHHH-HTT--BSHHHHHHHHHHHHTTSTTBHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             cCCHHHHHHHHHH-HHH--ccCHHHHHHHHHHcCccHHHHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence            3344444444432 322  2389999999998876543 55677888889999999999999975

This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=81.59  E-value=15  Score=25.66  Aligned_cols=33  Identities=18%  Similarity=0.191  Sum_probs=25.6

Q ss_pred             CCCccchHHHHHHHhccccHHHHHHHHHHHhhc
Q 044047           87 RPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHS  119 (260)
Q Consensus        87 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  119 (260)
                      .|++.+|..++.++...|+.++|.++.+++...
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            577777888888888888888888887777664

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=81.50  E-value=5.6  Score=20.51  Aligned_cols=33  Identities=9%  Similarity=0.159  Sum_probs=21.2

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 044047          206 CNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLML  238 (260)
Q Consensus       206 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  238 (260)
                      .+.|-.+++..++++|.+.|+..+...+..++.
T Consensus        13 k~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~   45 (48)
T PF11848_consen   13 KRRGLISEVKPLLDRLQQAGFRISPKLIEEILR   45 (48)
T ss_pred             HHcCChhhHHHHHHHHHHcCcccCHHHHHHHHH
Confidence            355666667777777776676666666665553

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=81.50  E-value=22  Score=27.37  Aligned_cols=96  Identities=9%  Similarity=0.043  Sum_probs=53.7

Q ss_pred             CccchHHHHHHHhcccc------------HHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCC
Q 044047           89 TVVTYNTLFHGLFEIHQ------------VEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKC  156 (260)
Q Consensus        89 ~~~~~~~l~~~~~~~~~------------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  156 (260)
                      |..+|..++..--..-.            .+.-+.++++..+.+ +.+......++..+.+..+.+...+.++++.... 
T Consensus        18 di~~Wl~li~~Qd~~~~~~~~~~~~~~a~~E~klsilerAL~~n-p~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~-   95 (321)
T PF08424_consen   18 DIEAWLELIEFQDELFRLQSSSKAERRALAERKLSILERALKHN-PDSERLLLGYLEEGEKVWDSEKLAKKWEELLFKN-   95 (321)
T ss_pred             cHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHC-
Confidence            66777766654332211            234455666666554 4556666666666666666666666677666553 


Q ss_pred             CcCHHHHHHHHHHHHh---cCCHHHHHHHHHhh
Q 044047          157 ELGIEAYSCLIDGLCK---IGKLETAWELFQSL  186 (260)
Q Consensus       157 ~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~  186 (260)
                      +-+...|...+.....   .-.++....+|.+.
T Consensus        96 ~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~~~  128 (321)
T PF08424_consen   96 PGSPELWREYLDFRQSNFASFTVSDVRDVYEKC  128 (321)
T ss_pred             CCChHHHHHHHHHHHHHhccCcHHHHHHHHHHH
Confidence            3355556555554433   22455555555543

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=81.37  E-value=28  Score=28.50  Aligned_cols=109  Identities=18%  Similarity=0.085  Sum_probs=72.7

Q ss_pred             HHHHhcCcHHHHHHHHHHhhhc---CCCcCH-----HHHHHHHHHHHhcCCHHHHHHHHHhhhh-------CCCCCch--
Q 044047          133 DGLCKNGYIVEAAELFRTLRVL---KCELGI-----EAYSCLIDGLCKIGKLETAWELFQSLPR-------VGLMPNV--  195 (260)
Q Consensus       133 ~~~~~~~~~~~a~~~~~~~~~~---~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~--  195 (260)
                      ..+...|++.+|.+++...-..   |...++     ..||.+.....+.|.+..+..+|.+..+       .|++|..  
T Consensus       248 q~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~  327 (696)
T KOG2471|consen  248 QLEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTF  327 (696)
T ss_pred             HHHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcce
Confidence            4456789999999888654221   212222     2346666666677777777777766553       3444321  


Q ss_pred             ---------hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc
Q 044047          196 ---------VTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRN  243 (260)
Q Consensus       196 ---------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  243 (260)
                               .+||. .-.|...|++-.|.+.|.+.... +..++..|-.|..+|...
T Consensus       328 tls~nks~eilYNc-G~~~Lh~grPl~AfqCf~~av~v-fh~nPrlWLRlAEcCima  382 (696)
T KOG2471|consen  328 TLSQNKSMEILYNC-GLLYLHSGRPLLAFQCFQKAVHV-FHRNPRLWLRLAECCIMA  382 (696)
T ss_pred             ehhcccchhhHHhh-hHHHHhcCCcHHHHHHHHHHHHH-HhcCcHHHHHHHHHHHHH
Confidence                     23332 33567799999999999998875 677899999999999754

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=81.21  E-value=34  Score=29.25  Aligned_cols=43  Identities=16%  Similarity=0.196  Sum_probs=24.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcc
Q 044047           60 TLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEI  103 (260)
Q Consensus        60 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  103 (260)
                      .++-.|.++|++++|.++..+.... .......|...+..|...
T Consensus       116 a~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  116 ALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             HHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhC
Confidence            4556677788888888877444332 333445566666666543

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=80.90  E-value=14  Score=24.60  Aligned_cols=61  Identities=11%  Similarity=0.063  Sum_probs=30.0

Q ss_pred             HhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCc
Q 044047          184 QSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNE  245 (260)
Q Consensus       184 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  245 (260)
                      ..+.+.|++++. --..++..+...++.-.|.++++++.+.+...+..|...-+..+...|-
T Consensus        10 ~~lk~~glr~T~-qR~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Gl   70 (145)
T COG0735          10 ERLKEAGLRLTP-QRLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGL   70 (145)
T ss_pred             HHHHHcCCCcCH-HHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCC
Confidence            334444544332 1233445555555556666666666665544444444444455554443

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=80.87  E-value=21  Score=26.65  Aligned_cols=173  Identities=9%  Similarity=0.064  Sum_probs=92.1

Q ss_pred             CCCccHHHHHHHHHHH-hccCCHHHHHHHHHHHhhcCCCCc---hhhHHHHHHHHHhcCChHHHHHHHHHHHhc---CC-
Q 044047           15 GVRPNAFVYSTLIDGF-CLTGEIDRARELFVSMDINGCMHN---VVTYNTLINGYCKTKDVEESLNLYSEMLSK---GI-   86 (260)
Q Consensus        15 ~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~-   86 (260)
                      +..||+..=|..-.+- .+...+++|+.-|++..+......   ..+...++..+.+.+++++....+.++..-   .+ 
T Consensus        21 ~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVT  100 (440)
T KOG1464|consen   21 NSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVT  100 (440)
T ss_pred             CCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHh
Confidence            4455655444332221 234567788888877765432222   334456677788888888887777776431   11 


Q ss_pred             -CCCccchHHHHHHHhccccHHHHHHHHHHHhh----c-CCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCC----
Q 044047           87 -RPTVVTYNTLFHGLFEIHQVEHALKLFDEMQH----S-DVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKC----  156 (260)
Q Consensus        87 -~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----  156 (260)
                       .-+....|+++...+...+.+....+|+.-.+    . +-..--.|-..+...|...+++....++++++...--    
T Consensus       101 rNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edG  180 (440)
T KOG1464|consen  101 RNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDG  180 (440)
T ss_pred             ccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccC
Confidence             12344556666655555555444444433211    1 0011112334566667777777777777776653210    


Q ss_pred             -------CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhh
Q 044047          157 -------ELGIEAYSCLIDGLCKIGKLETAWELFQSLP  187 (260)
Q Consensus       157 -------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  187 (260)
                             .--...|..=+..|....+-.+...++++..
T Consensus       181 edD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqal  218 (440)
T KOG1464|consen  181 EDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQAL  218 (440)
T ss_pred             chhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHH
Confidence                   1112345555667766666666666666554

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=80.57  E-value=4.7  Score=30.25  Aligned_cols=42  Identities=26%  Similarity=0.312  Sum_probs=28.3

Q ss_pred             Cchh-hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHH
Q 044047          193 PNVV-TYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFN  234 (260)
Q Consensus       193 ~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  234 (260)
                      |+.. -|+..|+...+.||+++|+.++++.++.|..--..+|-
T Consensus       254 ~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFi  296 (303)
T PRK10564        254 NDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFI  296 (303)
T ss_pred             chHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHH
Confidence            4433 35577777778888888888888887777664444443

>PRK09687 putative lyase; Provisional

Probab=80.54  E-value=22  Score=26.75  Aligned_cols=218  Identities=10%  Similarity=0.008  Sum_probs=114.5

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCCh----HHHHHHHHHHHhcCCCCCccch
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDV----EESLNLYSEMLSKGIRPTVVTY   93 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~   93 (260)
                      +|.......+..+...|..+.. ..+..+...   ++...-...+.++...|+.    +++...+..+...  .++..+-
T Consensus        35 ~d~~vR~~A~~aL~~~~~~~~~-~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR  108 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQDVF-RLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVR  108 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcchHH-HHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHH
Confidence            4566666667777766654333 333334332   3455555556666666653    4567777666333  2454555


Q ss_pred             HHHHHHHhccccH-----HHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHH
Q 044047           94 NTLFHGLFEIHQV-----EHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLID  168 (260)
Q Consensus        94 ~~l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  168 (260)
                      ...+.++...+..     ..+...+.....   .++..+-...+.++...++. .+...+-.+..   .++...-...+.
T Consensus       109 ~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~~-~ai~~L~~~L~---d~~~~VR~~A~~  181 (280)
T PRK09687        109 ASAINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVINDE-AAIPLLINLLK---DPNGDVRNWAAF  181 (280)
T ss_pred             HHHHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCCH-HHHHHHHHHhc---CCCHHHHHHHHH
Confidence            5555555544321     223333333222   23445555666777776653 45555555544   334444455555


Q ss_pred             HHHhcC-CHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchh
Q 044047          169 GLCKIG-KLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETS  247 (260)
Q Consensus       169 ~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  247 (260)
                      ++.+.+ +...+...+..+...   ++..+-...+.++.+.|+. .+...+-+..+.+   +  .....+.++...|+. 
T Consensus       182 aLg~~~~~~~~~~~~L~~~L~D---~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-  251 (280)
T PRK09687        182 ALNSNKYDNPDIREAFVAMLQD---KNEEIRIEAIIGLALRKDK-RVLSVLIKELKKG---T--VGDLIIEAAGELGDK-  251 (280)
T ss_pred             HHhcCCCCCHHHHHHHHHHhcC---CChHHHHHHHHHHHccCCh-hHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-
Confidence            555543 233455555555532   4566666677777777763 4555555555432   2  233566667777765 


Q ss_pred             HHHHHHHHHhh
Q 044047          248 KVVELLHRMDE  258 (260)
Q Consensus       248 ~a~~~~~~m~~  258 (260)
                      +|...+..+.+
T Consensus       252 ~a~p~L~~l~~  262 (280)
T PRK09687        252 TLLPVLDTLLY  262 (280)
T ss_pred             hHHHHHHHHHh
Confidence            56666665543

>PRK09687 putative lyase; Provisional

Probab=80.47  E-value=22  Score=26.74  Aligned_cols=202  Identities=12%  Similarity=0.012  Sum_probs=115.3

Q ss_pred             cHHHHHHHHHHHhccCCH----HHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCCh-----HHHHHHHHHHHhcCCCCC
Q 044047           19 NAFVYSTLIDGFCLTGEI----DRARELFVSMDINGCMHNVVTYNTLINGYCKTKDV-----EESLNLYSEMLSKGIRPT   89 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~   89 (260)
                      |+..=...+.++.+.|+.    +++...+..+...  .++..+-...+.++...+..     ..+...+.....   .++
T Consensus        67 d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~  141 (280)
T PRK09687         67 NPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRASAINATGHRCKKNPLYSPKIVEQSQITAF---DKS  141 (280)
T ss_pred             CHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHHHHHHHhcccccccccchHHHHHHHHHhh---CCC
Confidence            333334445555555542    3455555555333  34555554555555444321     223333333332   235


Q ss_pred             ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcC-cHHHHHHHHHHhhhcCCCcCHHHHHHHHH
Q 044047           90 VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNG-YIVEAAELFRTLRVLKCELGIEAYSCLID  168 (260)
Q Consensus        90 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  168 (260)
                      ..+-...+.++.+.++ +.++..+-.+.+.   ++..+-...+.++...+ +...+...+..+..   .++..+-...+.
T Consensus       142 ~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~  214 (280)
T PRK09687        142 TNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAII  214 (280)
T ss_pred             HHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHH
Confidence            5555566777777776 4566666665543   34445555666666543 23456666665553   557777777888


Q ss_pred             HHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 044047          169 GLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCI  241 (260)
Q Consensus       169 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  241 (260)
                      ++.+.|+. .+...+-...+.+   +  .....+.++...|.. +|...+..+.+.  .||..+-...+.++.
T Consensus       215 aLg~~~~~-~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        215 GLALRKDK-RVLSVLIKELKKG---T--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             HHHccCCh-hHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            88888885 4555555555432   2  234677888888885 688888888864  457777777766664

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=80.07  E-value=6  Score=29.74  Aligned_cols=28  Identities=21%  Similarity=0.319  Sum_probs=14.1

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHhhcCC
Q 044047           24 STLIDGFCLTGEIDRARELFVSMDINGC   51 (260)
Q Consensus        24 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~   51 (260)
                      +.-|....+.||+++|+.++++..+.|+
T Consensus       261 ~~aI~~AVk~gDi~KAL~LldEAe~LG~  288 (303)
T PRK10564        261 NQAIKQAVKKGDVDKALKLLDEAERLGS  288 (303)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            3445555555555555555555555443

---

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	260
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-17
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	9e-14
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	7e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 79.5 bits (194), Expect = 5e-17
 Identities = 13/104 (12%), Positives = 37/104 (35%), Gaps = 4/104 (3%)

Query: 161 EAYSCLIDGLCKIGKLETAWELFQSL---PRVGLMPNVVTYNIMIHGFCNDGQMDKAHDL 217
           +             +L  A  L        +   +  +  YN ++ G+   G   +   +
Sbjct: 128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYV 187

Query: 218 FLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVE-LLHRMDERN 260
              ++  G+ P+ +++   +    R ++ +  +E  L +M +  
Sbjct: 188 LFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEG 231

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 71.4 bits (173), Expect = 3e-14
 Identities = 18/184 (9%), Positives = 47/184 (25%), Gaps = 4/184 (2%)

Query: 81  MLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFD---EMQHSDVAAETSTYNTFIDGLCK 137
                +          F       Q+  A  L       +          YN  + G  +
Sbjct: 118 HSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWAR 177

Query: 138 NGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGK-LETAWELFQSLPRVGLMPNVV 196
            G   E   +   ++       + +Y+  +  + +  +   T     + + + GL    +
Sbjct: 178 QGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQAL 237

Query: 197 TYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRM 256
              +++        +   H +          P  V  + L+      +      +L   +
Sbjct: 238 FTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPL 297

Query: 257 DERN 260
               
Sbjct: 298 KTLQ 301

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 71.0 bits (172), Expect = 4e-14
 Identities = 16/144 (11%), Positives = 43/144 (29%), Gaps = 4/144 (2%)

Query: 105 QVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLR---VLKCELGIE 161
            ++       +   + ++ +      F         +  A  L          +  L ++
Sbjct: 107 SLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLD 166

Query: 162 AYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKA-HDLFLD 220
            Y+ ++ G  + G  +    +   +   GL P++++Y   +       Q           
Sbjct: 167 MYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQ 226

Query: 221 MEAKGVAPNCVTFNTLMLGCIRNN 244
           M  +G+    +    L+    R  
Sbjct: 227 MSQEGLKLQALFTAVLLSEEDRAT 250

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 69.8 bits (169), Expect = 9e-14
 Identities = 15/152 (9%), Positives = 45/152 (29%), Gaps = 4/152 (2%)

Query: 1   MDEASRLLDL---MIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVT 57
           +  A  LL +     Q+       +Y+ ++ G+   G       +   +   G   ++++
Sbjct: 143 LPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS 202

Query: 58  YNTLINGYCKTKDVEESLNLY-SEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEM 116
           Y   +    +      ++     +M  +G++   +    L         ++   K+    
Sbjct: 203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF 262

Query: 117 QHSDVAAETSTYNTFIDGLCKNGYIVEAAELF 148
                       +  +  +      V   +L 
Sbjct: 263 SLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLH 294

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 42.9 bits (100), Expect = 7e-05
 Identities = 38/251 (15%), Positives = 74/251 (29%), Gaps = 69/251 (27%)

Query: 2   DEASRLLDLMIQRGVRPNAF-----VYS-TLIDGF---C---LTGEIDRARELFVSMDIN 49
              + L  L+  +    N       V +    + F   C   LT      R   V+  ++
Sbjct: 229 SIQAELRRLLKSK-PYENCLLVLLNVQNAKAWNAFNLSCKILLT-----TRFKQVTDFLS 282

Query: 50  GCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLS---KGIRPTVVTYNTLFHGLF-EIHQ 105
                 ++ +        T D  E  +L  + L    + +   V+T N     +  E   
Sbjct: 283 AATTTHISLDHHSMTL--TPD--EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAE--S 336

Query: 106 VEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSC 165
           +   L  +D  +H +    T+   + ++ L       E  ++F  L V      I     
Sbjct: 337 IRDGLATWDNWKHVNCDKLTTIIESSLNVLEPA----EYRKMFDRLSVFPPSAHIPT--- 389

Query: 166 LIDGLCKIGKLETAW---------ELFQSLPRVGLM---PNVVTYNIMIHGFCNDGQMDK 213
                     L   W          +   L +  L+   P   T +I             
Sbjct: 390 --------ILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI------------- 428

Query: 214 AHDLFLDMEAK 224
              ++L+++ K
Sbjct: 429 -PSIYLELKVK 438

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 39.7 bits (93), Expect = 7e-04
 Identities = 26/172 (15%), Positives = 48/172 (27%), Gaps = 16/172 (9%)

Query: 53  HNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT-VVTYNTLFHGLFEIHQVEHALK 111
             VV   +   G    + V+  L +  +    G+ P  VV   +   G   +  V+  L 
Sbjct: 308 QQVVAIASNGGGKQALETVQRLLPVLCQAH--GLTPQQVVAIASHDGGKQALETVQRLLP 365

Query: 112 LFD---EMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLID 168
           +      +    V A      +   G      +     +      L  E  + A +    
Sbjct: 366 VLCQAHGLTPEQVVA----IASNGGGKQALETVQRLLPVLCQAHGLTPEQ-VVAIASHDG 420

Query: 169 GLCKIGKLETAWELF-QSLPRVGLMPN-VVTYNIMIHGFCNDGQMDKAHDLF 218
           G   +  ++    +  Q+    GL P  VV       G      +       
Sbjct: 421 GKQALETVQRLLPVLCQAH---GLTPQQVVAIASNGGGRPALESIVAQLSRP 469

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	260
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.97
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.92
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.91
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.91
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.91
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.91
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.9
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	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
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.88
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.88
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.87
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.87
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.87
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.86
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.86
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.86
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.86
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.85
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.85
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.85
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.84
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.83
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.83
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.83
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.83
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.83
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.83
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.83
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.81
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.8
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.8
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.79
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.78
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.78
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.78
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.77
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.77
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.76
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.75
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.75
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.75
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.74
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.74
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.74
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.73
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.73
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.72
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.72
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.69
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.69
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.68
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.68
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.67
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.66
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.65
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.65
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.64
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.64
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.64
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.63
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.62
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.62
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.62
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.61
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.61
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.61
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.61
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.59
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.59
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.59
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.53
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.51
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.51
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.51
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.5
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.5
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.5
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.49
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.48
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.47
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.47
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.46
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.46
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.46
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.45
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.45
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.44
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.44
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.44
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.43
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.42
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.41
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.41
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.4
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.39
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.39
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.39
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.38
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.36
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.36
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.32
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.29
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.26
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.26
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.25
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.24
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.23
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.23
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.23
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.23
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.22
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.21
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.19
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.19
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	99.19
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.18
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.17
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.17
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.16
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.16
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.16
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.16
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	99.15
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.14
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.14
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.13
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.13
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.13
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.12
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.12
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.11
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.11
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.08
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.08
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.07
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.05
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.05
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	99.05
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	99.04
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.02
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	99.02
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	99.01
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	99.0
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	99.0
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.98
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.97
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.96
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.96
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.94
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.94
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.94
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.92
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.9
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.89
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.89
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.88
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.88
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.88
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.87
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.86
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.85
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.83
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.79
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.78
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.77
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.76
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.76
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.75
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.75
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.75
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.72
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.71
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.7
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.68
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.67
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.67
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.67
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.64
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.63
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.61
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.61
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.57
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.56
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.55
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.53
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.51
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.47
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.45
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.43
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.42
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.41
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.4
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.3
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.28
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.27
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.26
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.18
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.09
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	98.03
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.9
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.85
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.7
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.69
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.63
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.61
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.59
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.55
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.55
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.54
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.44
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.42
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.4
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.4
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.39
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.3
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	97.28
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.22
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	97.02
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.99
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.95
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.87
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.71
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.51
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.48
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.46
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	96.05
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.98
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.97
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	95.67
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	95.56
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.33
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.27
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	95.23
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	95.22
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.7
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.51
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.02
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	93.0
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	92.6
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	92.27
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	92.21
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	92.12
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	91.76
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	91.52
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	91.21
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	90.63
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	90.53
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	90.38
2p58_C	116	Putative type III secretion protein YSCG; type III	90.24
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	89.68
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	89.15
2p58_C	116	Putative type III secretion protein YSCG; type III	88.87
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	88.29
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	87.89
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	87.86
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	87.63
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	87.36
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	87.31
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	86.88
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	86.74
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	86.34
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	86.31
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	85.39
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	84.93
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	83.82
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	83.24
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	82.93
4aez_C	223	MAD3, mitotic spindle checkpoint component MAD3; c	82.15
3kae_A	242	CDC27, possible protein of nuclear scaffold; tetra	80.56
3bu8_A	235	Telomeric repeat-binding factor 2; TRF2 TRFH domai	80.3
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	80.15

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=9.8e-38  Score=245.28  Aligned_cols=206  Identities=13%  Similarity=0.197  Sum_probs=182.2

Q ss_pred             hHHHHHHHHHHcCCCccHH-HHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCC---------hH
Q 044047            3 EASRLLDLMIQRGVRPNAF-VYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKD---------VE   72 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~   72 (260)
                      .+..+.+.+.+.+..+++. .++.+|++|++.|++++|.++|++|.+.|++||..+|+.+|.+|++.+.         ++
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~   87 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLS   87 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHH
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHH
Confidence            3456667777777665543 6888999999999999999999999999999999999999999987664         68


Q ss_pred             HHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhh
Q 044047           73 ESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLR  152 (260)
Q Consensus        73 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  152 (260)
                      .|.++|++|.+.|+.||..||++++.+|++.|++++|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.
T Consensus        88 ~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  167 (501)
T 4g26_A           88 RGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMV  167 (501)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhc
Q 044047          153 VLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCND  208 (260)
Q Consensus       153 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  208 (260)
                      ..|+.||..+|+.++.+|++.|++++|.+++++|.+.|..|+..||+.++..++..
T Consensus       168 ~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          168 ESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             hcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999999988763

>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=8.6e-38  Score=245.62  Aligned_cols=207  Identities=14%  Similarity=0.183  Sum_probs=182.4

Q ss_pred             HHHHHHHHHHhhcCCCCch-hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcccc---------H
Q 044047           37 DRARELFVSMDINGCMHNV-VTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQ---------V  106 (260)
Q Consensus        37 ~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~  106 (260)
                      ..+..+.+.+.+.+..+.+ ..++.+|.+|++.|++++|+++|++|.+.|+.||..+|+.+|.+|++.+.         .
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            3455666777777665544 46889999999999999999999999999999999999999999987654         7


Q ss_pred             HHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhh
Q 044047          107 EHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSL  186 (260)
Q Consensus       107 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  186 (260)
                      +.|.++|++|...|+.||..+|+.+|.+|++.|++++|.++|++|...|+.||..+|+.+|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc
Q 044047          187 PRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRN  243 (260)
Q Consensus       187 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  243 (260)
                      .+.|+.||..+|+.|+.+|++.|++++|.+++++|.+.|..|+..||+.++..|...
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999999999999999988764

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.97  E-value=3.4e-28  Score=197.07  Aligned_cols=250  Identities=12%  Similarity=0.046  Sum_probs=168.7

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEML   82 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   82 (260)
                      +|.++|+++.+.+ +.+..++..++.++.+.|++++|..+++.+.+.. +.+..+|+.++.+|.+.|++++|.++|+++.
T Consensus       323 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  400 (597)
T 2xpi_A          323 DVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSS  400 (597)
T ss_dssp             HHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            4455555554443 2244445555555555555555555555554333 4456667777777777777777777777776


Q ss_pred             hcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHH
Q 044047           83 SKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEA  162 (260)
Q Consensus        83 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  162 (260)
                      +.... +..+|+.++..|.+.|++++|+.+|+++.+.+ +.+..++..++.+|.+.|++++|.++|+++.... +.++.+
T Consensus       401 ~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~  477 (597)
T 2xpi_A          401 TMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLL  477 (597)
T ss_dssp             HHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHH
T ss_pred             HhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHH
Confidence            64322 45677777777777777777777777776654 4566777777777777777777777777776654 456777


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhC----CCCCc--hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHH
Q 044047          163 YSCLIDGLCKIGKLETAWELFQSLPRV----GLMPN--VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTL  236 (260)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  236 (260)
                      |+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.+.++++.+.+ +.+..+|..+
T Consensus       478 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l  556 (597)
T 2xpi_A          478 LNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAI  556 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHH
Confidence            777777777777777777777777654    44555  5677777777777788888887777777653 3467777777


Q ss_pred             HHHHHhcCchhHHHHHHHHHhh
Q 044047          237 MLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       237 ~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ..+|.+.|++++|.++++++.+
T Consensus       557 ~~~~~~~g~~~~A~~~~~~~l~  578 (597)
T 2xpi_A          557 ALVYLHKKIPGLAITHLHESLA  578 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHh
Confidence            7777778888888777777654

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.97  E-value=2e-28  Score=198.38  Aligned_cols=251  Identities=12%  Similarity=0.041  Sum_probs=227.4

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|.++|+.+.+.  ++++.+++.++..+.+.|++++|..+|+++.+.+ +.+..++..++.++.+.|++++|..+++++
T Consensus       289 ~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  365 (597)
T 2xpi_A          289 RRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDL  365 (597)
T ss_dssp             HHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            5788888888765  6899999999999999999999999999999876 668899999999999999999999999999


Q ss_pred             HhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHH
Q 044047           82 LSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIE  161 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  161 (260)
                      .+.. +.+..++..++..|.+.|++++|..+|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.... +.+..
T Consensus       366 ~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~  442 (597)
T 2xpi_A          366 VDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHL  442 (597)
T ss_dssp             HHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSH
T ss_pred             HhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchH
Confidence            8764 3478899999999999999999999999998865 5678899999999999999999999999998775 66888


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCCC--hhhHHH
Q 044047          162 AYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK----GVAPN--CVTFNT  235 (260)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~p~--~~~~~~  235 (260)
                      +|+.++.+|.+.|++++|.++|+.+.+... .+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..
T Consensus       443 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~  521 (597)
T 2xpi_A          443 PYLFLGMQHMQLGNILLANEYLQSSYALFQ-YDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWAN  521 (597)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHH
Confidence            999999999999999999999999988653 36889999999999999999999999999875    66777  789999


Q ss_pred             HHHHHHhcCchhHHHHHHHHHhhc
Q 044047          236 LMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       236 l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      ++.+|.+.|++++|.++++++.+.
T Consensus       522 l~~~~~~~g~~~~A~~~~~~~~~~  545 (597)
T 2xpi_A          522 LGHAYRKLKMYDAAIDALNQGLLL  545 (597)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHh
Confidence            999999999999999999998753

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.95  E-value=7.2e-24  Score=163.13  Aligned_cols=249  Identities=12%  Similarity=0.078  Sum_probs=160.7

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEML   82 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   82 (260)
                      +|.+.|+.+.+.+ |.+...+..+...+...|++++|...|+++.+.. |.+..+|..+...+...|++++|...|+++.
T Consensus       119 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  196 (388)
T 1w3b_A          119 GAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAV  196 (388)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444444444432 2233344444444555555555555555554443 3344555555555555555555555555555


Q ss_pred             hcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHH
Q 044047           83 SKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEA  162 (260)
Q Consensus        83 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  162 (260)
                      +.++. +...+..+...+...|++++|...+++..... |.+..++..+..++...|++++|...++++.... +.++.+
T Consensus       197 ~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~  273 (388)
T 1w3b_A          197 TLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDA  273 (388)
T ss_dssp             HHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHH
T ss_pred             hcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHH
Confidence            54322 34455555555666666666666666655543 4456677777777888888888888888777654 446677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 044047          163 YSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR  242 (260)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  242 (260)
                      +..+...+.+.|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+. .+.+..++..+..++.+
T Consensus       274 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~  351 (388)
T 1w3b_A          274 YCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQ  351 (388)
T ss_dssp             HHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHH
Confidence            7888888888888888888888877753 346677888888888888888888888888775 24456777888888888


Q ss_pred             cCchhHHHHHHHHHhh
Q 044047          243 NNETSKVVELLHRMDE  258 (260)
Q Consensus       243 ~~~~~~a~~~~~~m~~  258 (260)
                      .|++++|.+.++++.+
T Consensus       352 ~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          352 QGKLQEALMHYKEAIR  367 (388)
T ss_dssp             TTCCHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHHHh
Confidence            8888888888887765

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.94  E-value=6.1e-24  Score=163.53  Aligned_cols=251  Identities=15%  Similarity=0.095  Sum_probs=152.0

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|...++...+.. +.++..|..+...+.+.|++++|...|+++.+.. |.+..+|..+..++...|++++|.+.++++
T Consensus        50 ~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  127 (388)
T 1w3b_A           50 DRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSA  127 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45666666666553 4456667777777777777777777777666554 444556666666666666666666666666


Q ss_pred             HhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC------
Q 044047           82 LSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK------  155 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------  155 (260)
                      .+..+. +...+..+...+...|++++|...|+++.+.. |.+..++..+...+...|++++|...|+++....      
T Consensus       128 l~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~  205 (388)
T 1w3b_A          128 LQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDA  205 (388)
T ss_dssp             HHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHH
Confidence            654322 33344555555555666666666666655543 3344555555555555555555555555544332      


Q ss_pred             ---------------------------CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhc
Q 044047          156 ---------------------------CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCND  208 (260)
Q Consensus       156 ---------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  208 (260)
                                                 .+.+..++..+...+...|++++|...++++.+... .+..+|..+...+.+.
T Consensus       206 ~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~  284 (388)
T 1w3b_A          206 YINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEK  284 (388)
T ss_dssp             HHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHc
Confidence                                       033455566666666666677777776666666432 2355666666677777


Q ss_pred             CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          209 GQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       209 g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      |++++|...++++.+. .+.+..++..+...+...|++++|.+.++++.+
T Consensus       285 g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  333 (388)
T 1w3b_A          285 GSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALE  333 (388)
T ss_dssp             SCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            7777777777776664 244566666677777777777777777766654

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.93  E-value=1.2e-22  Score=159.12  Aligned_cols=182  Identities=13%  Similarity=0.059  Sum_probs=106.3

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|+++|+.+.+.. +.++..+..+..++...|++++|...|+++.+.+ +.+..++..+..++...|++++|...|+++
T Consensus        43 ~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  120 (450)
T 2y4t_A           43 ADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKV  120 (450)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            46677777776653 3456677777777777777777777777776665 455666777777777777777777777777


Q ss_pred             HhcCCCCCc---cchHHH------------HHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHH
Q 044047           82 LSKGIRPTV---VTYNTL------------FHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAE  146 (260)
Q Consensus        82 ~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  146 (260)
                      .+.... +.   ..+..+            ...+...|++++|...|+++.+.. +.+...+..++.+|...|++++|..
T Consensus       121 ~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  198 (450)
T 2y4t_A          121 LKSNPS-ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAIS  198 (450)
T ss_dssp             HTSCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHH
T ss_pred             HhcCCC-ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHH
Confidence            654221 22   333333            223555566666666666655543 3444555555555555555555555


Q ss_pred             HHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhh
Q 044047          147 LFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPR  188 (260)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (260)
                      .++.+.... +.+..++..++..|...|++++|...++.+..
T Consensus       199 ~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  239 (450)
T 2y4t_A          199 DLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLK  239 (450)
T ss_dssp             HHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            555554433 33445555555555555555555555555443

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.93  E-value=2e-22  Score=157.83  Aligned_cols=250  Identities=11%  Similarity=0.055  Sum_probs=214.8

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCch---hhHHHH------------HHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNV---VTYNTL------------INGYC   66 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~   66 (260)
                      ++|.+.|+.+.+.+ +.+...+..+..++.+.|++++|...|+.+.+.+ +.+.   ..+..+            ...+.
T Consensus        77 ~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  154 (450)
T 2y4t_A           77 KAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAF  154 (450)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            67999999999886 4578899999999999999999999999998875 4445   566555            44488


Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHH
Q 044047           67 KTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAE  146 (260)
Q Consensus        67 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  146 (260)
                      ..|++++|+..++++.+.... +..++..+..++...|++++|...|+++.+.. +.+..++..+..+|...|++++|..
T Consensus       155 ~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  232 (450)
T 2y4t_A          155 GSGDYTAAIAFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLS  232 (450)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999999887433 77889999999999999999999999998775 6678899999999999999999999


Q ss_pred             HHHHhhhcCCCcCHHHHHHH------------HHHHHhcCCHHHHHHHHHhhhhCCCCCc-----hhhHHHHHHHHHhcC
Q 044047          147 LFRTLRVLKCELGIEAYSCL------------IDGLCKIGKLETAWELFQSLPRVGLMPN-----VVTYNIMIHGFCNDG  209 (260)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g  209 (260)
                      .++.+.... +.+...+..+            ...+...|++++|...++.+.+..  |+     ...+..+...+.+.|
T Consensus       233 ~~~~~~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g  309 (450)
T 2y4t_A          233 EVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDE  309 (450)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHhC-CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCC
Confidence            999998764 4455555555            889999999999999999998853  44     347888999999999


Q ss_pred             ChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          210 QMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       210 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      ++++|...++++.+.. +.+..++..+..+|...|++++|...++++.+.
T Consensus       310 ~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  358 (450)
T 2y4t_A          310 KPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEH  358 (450)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            9999999999998752 447889999999999999999999999998753

>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=99.92  E-value=3e-22  Score=150.47  Aligned_cols=252  Identities=10%  Similarity=-0.077  Sum_probs=215.9

Q ss_pred             ChhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcC-ChHHHHHHHH
Q 044047            1 MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTK-DVEESLNLYS   79 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~   79 (260)
                      +++|+++++.+.+.. +.+...+..++.++...|++++|..+++++.+.. +.+...|..+...+...| ++++|...++
T Consensus        38 ~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~  115 (330)
T 3hym_B           38 FKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEHARRYLS  115 (330)
T ss_dssp             HHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            367899999998875 4466677778889999999999999999998875 667888999999999999 9999999999


Q ss_pred             HHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcC
Q 044047           80 EMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELG  159 (260)
Q Consensus        80 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  159 (260)
                      +..+.... +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++...... +.+
T Consensus       116 ~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~  192 (330)
T 3hym_B          116 KATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PED  192 (330)
T ss_dssp             HHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTC
T ss_pred             HHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCC
Confidence            99887533 57788899999999999999999999998875 5556778889999999999999999999998775 667


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC--------CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChh
Q 044047          160 IEAYSCLIDGLCKIGKLETAWELFQSLPRVG--------LMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCV  231 (260)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  231 (260)
                      ...+..+...+...|++++|...++.+.+..        .+.+..++..+...+...|++++|...+++..+.. +.+..
T Consensus       193 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~  271 (330)
T 3hym_B          193 PFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNAS  271 (330)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSH
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchH
Confidence            8889999999999999999999999887642        12345788999999999999999999999998763 44678


Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          232 TFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       232 ~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      .+..+..++...|++++|.+.+++..+
T Consensus       272 ~~~~la~~~~~~g~~~~A~~~~~~al~  298 (330)
T 3hym_B          272 TYSAIGYIHSLMGNFENAVDYFHTALG  298 (330)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHc
Confidence            888999999999999999999998765

>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=99.91  E-value=1.1e-21  Score=149.80  Aligned_cols=249  Identities=11%  Similarity=-0.018  Sum_probs=207.1

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|...|+.+.+.. +.++..+..+..++...|++++|...|+.+.+.+ +.+..++..+..++...|++++|...++++
T Consensus        81 ~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  158 (368)
T 1fch_A           81 PNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDW  158 (368)
T ss_dssp             HHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            67889999999875 5578889999999999999999999999998876 668889999999999999999999999999


Q ss_pred             HhcCCCCCccchHH---------------HHHHHhccccHHHHHHHHHHHhhcCCCc--chhhHHHHHHHHHhcCcHHHH
Q 044047           82 LSKGIRPTVVTYNT---------------LFHGLFEIHQVEHALKLFDEMQHSDVAA--ETSTYNTFIDGLCKNGYIVEA  144 (260)
Q Consensus        82 ~~~~~~~~~~~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a  144 (260)
                      .+.... +...+..               .+..+...|++++|...++++.+.. +.  +..++..+...+...|++++|
T Consensus       159 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~l~~~~~~~g~~~~A  236 (368)
T 1fch_A          159 LRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLD-PTSIDPDVQCGLGVLFNLSGEYDKA  236 (368)
T ss_dssp             HHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHS-TTSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhC-cCcccHHHHHHHHHHHHHcCCHHHH
Confidence            886533 2222221               2333448899999999999998765 33  578889999999999999999


Q ss_pred             HHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          145 AELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      ...++++.... +.+...+..+...+...|++++|...++.+.+.. +.+..++..+..++...|++++|...|+++.+.
T Consensus       237 ~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          237 VDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999988765 5678899999999999999999999999988764 235788999999999999999999999998764


Q ss_pred             CCC----------CChhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          225 GVA----------PNCVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       225 ~~~----------p~~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      ...          ....+|..+..++...|++++|..++++-
T Consensus       315 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  356 (368)
T 1fch_A          315 QRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARD  356 (368)
T ss_dssp             HHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTC
T ss_pred             CCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHH
Confidence            211          11678999999999999999999887653

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.91  E-value=2.8e-22  Score=153.04  Aligned_cols=248  Identities=10%  Similarity=0.004  Sum_probs=180.6

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|++.|+.+.+.. +.+..+|..+..++...|++++|...|+++.+.. +.+..+|..+..++...|++++|+..++++
T Consensus        82 ~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  159 (365)
T 4eqf_A           82 PVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTSHQQDACEALKNW  159 (365)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccccHHHHHHHHHHH
Confidence            56788888888765 4467788888888888888888888888887765 556778888888888888888888888888


Q ss_pred             HhcCCCCCcc----------chHHHHHHHhccccHHHHHHHHHHHhhcCCCc--chhhHHHHHHHHHhcCcHHHHHHHHH
Q 044047           82 LSKGIRPTVV----------TYNTLFHGLFEIHQVEHALKLFDEMQHSDVAA--ETSTYNTFIDGLCKNGYIVEAAELFR  149 (260)
Q Consensus        82 ~~~~~~~~~~----------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~  149 (260)
                      .+.... +..          .+..+...+...|++++|..+++++.+.. +.  +..++..+...+...|++++|...++
T Consensus       160 l~~~p~-~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  237 (365)
T 4eqf_A          160 IKQNPK-YKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGLGVLFHLSGEFNRAIDAFN  237 (365)
T ss_dssp             HHHCHH-HHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHhCcc-chHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            765321 122          22334677788888888888888887764 33  57778888888888888888888888


Q ss_pred             HhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC---
Q 044047          150 TLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGV---  226 (260)
Q Consensus       150 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---  226 (260)
                      ++.... +.+..++..+..+|...|++++|...++++.+... .+..++..+..++...|++++|...|+++.+...   
T Consensus       238 ~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~  315 (365)
T 4eqf_A          238 AALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQP-GFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSR  315 (365)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC-
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccC
Confidence            887765 55677888888888888888888888888877532 2467788888888888888888888888765310   


Q ss_pred             C--------CChhhHHHHHHHHHhcCchhHHHHHHHH
Q 044047          227 A--------PNCVTFNTLMLGCIRNNETSKVVELLHR  255 (260)
Q Consensus       227 ~--------p~~~~~~~l~~~~~~~~~~~~a~~~~~~  255 (260)
                      .        .+...|..+..++...|+.+.+..+.++
T Consensus       316 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          316 NQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             -----------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             CCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            0        1356777888888888888877776554

>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=99.91  E-value=8.4e-22  Score=147.86  Aligned_cols=250  Identities=10%  Similarity=-0.040  Sum_probs=210.9

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|..+|+.+.+.. +.+...+..+..++...|++++|...++++.+.. +.+..++..+...+...|++++|.+.++++
T Consensus        38 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~  115 (327)
T 3cv0_A           38 AEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAALASLRAW  115 (327)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            67899999998875 4578889999999999999999999999998875 667889999999999999999999999999


Q ss_pred             HhcCCCCCccchHHH--------------HH-HHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHH
Q 044047           82 LSKGIRPTVVTYNTL--------------FH-GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAE  146 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  146 (260)
                      .+.... +...+..+              .. .+...|++++|...++++.+.. +.+...+..+...+...|++++|..
T Consensus       116 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~  193 (327)
T 3cv0_A          116 LLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAA  193 (327)
T ss_dssp             HHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHH
Confidence            886433 33334333              33 3778899999999999998875 5678889999999999999999999


Q ss_pred             HHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 044047          147 LFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGV  226 (260)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  226 (260)
                      .++.+.... +.+...+..+...+...|++++|...++.+.+.. +.+..++..+...+...|++++|...++++.+...
T Consensus       194 ~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~  271 (327)
T 3cv0_A          194 NLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQV  271 (327)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            999998765 5678899999999999999999999999988764 23578899999999999999999999999987521


Q ss_pred             CC-----------ChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          227 AP-----------NCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       227 ~p-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      ..           +..++..+..++...|++++|..++++..
T Consensus       272 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          272 GGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             TSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             ccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            11           47788899999999999999999887643

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.91  E-value=9.1e-22  Score=150.15  Aligned_cols=234  Identities=8%  Similarity=-0.021  Sum_probs=198.0

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      +...+..+...+.+.|++++|...|+++.+.. |.+..+|..+..++...|++++|+..|+++.+.... +..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPN-NLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHH
Confidence            34558889999999999999999999998876 678899999999999999999999999999987433 6788999999


Q ss_pred             HHhccccHHHHHHHHHHHhhcCCCcchhhH----------HHHHHHHHhcCcHHHHHHHHHHhhhcCCCc--CHHHHHHH
Q 044047           99 GLFEIHQVEHALKLFDEMQHSDVAAETSTY----------NTFIDGLCKNGYIVEAAELFRTLRVLKCEL--GIEAYSCL  166 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l  166 (260)
                      .+...|++++|...++++.+.. +.+...+          ..+...+...|++++|...++++.... +.  ++.++..+
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l  219 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQN-PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGL  219 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-HHHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhC-ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHH
Confidence            9999999999999999998764 3223333          345888999999999999999998875 33  68899999


Q ss_pred             HHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCch
Q 044047          167 IDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNET  246 (260)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  246 (260)
                      ...+...|++++|...++++.+.. +.+..+|..+..++...|++++|...|+++.+.. +.+..++..+..+|...|++
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  297 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAY  297 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCH
Confidence            999999999999999999998864 2367899999999999999999999999999862 44588899999999999999


Q ss_pred             hHHHHHHHHHhh
Q 044047          247 SKVVELLHRMDE  258 (260)
Q Consensus       247 ~~a~~~~~~m~~  258 (260)
                      ++|...++++.+
T Consensus       298 ~~A~~~~~~al~  309 (365)
T 4eqf_A          298 REAVSNFLTALS  309 (365)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998865

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.90  E-value=5.3e-20  Score=139.68  Aligned_cols=251  Identities=12%  Similarity=0.058  Sum_probs=132.9

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|++.|+.+.+.. +.++..+..+..++...|++++|...++.+.+.. |.+...+..+..++...|++++|...+++.
T Consensus        20 ~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~   97 (359)
T 3ieg_A           20 ADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKV   97 (359)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            45666666666553 3355566666666666666666666666665553 345556666666666666666666666666


Q ss_pred             HhcCCC--CCccchHHH------------HHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHH
Q 044047           82 LSKGIR--PTVVTYNTL------------FHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAEL  147 (260)
Q Consensus        82 ~~~~~~--~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  147 (260)
                      .+....  .+...+..+            ...+...|++++|...++++.+.. +.+...+..+..++...|++++|...
T Consensus        98 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~  176 (359)
T 3ieg_A           98 LKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISD  176 (359)
T ss_dssp             HTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHH
Confidence            554220  122222222            344455555555555555554443 33444455555555555555555555


Q ss_pred             HHHhhhcCCCcCHHHHHHHHHHHHh----------------------------------------------cCCHHHHHH
Q 044047          148 FRTLRVLKCELGIEAYSCLIDGLCK----------------------------------------------IGKLETAWE  181 (260)
Q Consensus       148 ~~~~~~~~~~~~~~~~~~l~~~~~~----------------------------------------------~~~~~~a~~  181 (260)
                      ++.+.... +.+...+..+...+..                                              .|++++|..
T Consensus       177 ~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~  255 (359)
T 3ieg_A          177 LKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATS  255 (359)
T ss_dssp             HHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            55544432 3344444444444444                                              455555555


Q ss_pred             HHHhhhhCCCCCch----hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          182 LFQSLPRVGLMPNV----VTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       182 ~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      .++.+.+.... +.    ..+..+..++...|++++|...+++..+. .+.+..++..+..++...|++++|.+.+++..
T Consensus       256 ~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~  333 (359)
T 3ieg_A          256 KYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQM-EPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQ  333 (359)
T ss_dssp             HHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            55444443211 11    12333445555666666666666666554 13345556666666666666666666666654


Q ss_pred             h
Q 044047          258 E  258 (260)
Q Consensus       258 ~  258 (260)
                      +
T Consensus       334 ~  334 (359)
T 3ieg_A          334 E  334 (359)
T ss_dssp             T
T ss_pred             h
Confidence            4

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.90  E-value=7.2e-20  Score=138.96  Aligned_cols=210  Identities=8%  Similarity=0.005  Sum_probs=146.9

Q ss_pred             HHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccH
Q 044047           27 IDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQV  106 (260)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  106 (260)
                      ...+...|++++|...++.+.+.. +.+...+..+..++...|++++|...+++..+... .+..++..+...+...|++
T Consensus       127 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~  204 (359)
T 3ieg_A          127 ALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKS-DNTEAFYKISTLYYQLGDH  204 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCS-CCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCH
Confidence            355556666666666666665544 44566666677777777777777777777766532 2566677777777777777


Q ss_pred             HHHHHHHHHHhhcCCCcchhhHHH------------HHHHHHhcCcHHHHHHHHHHhhhcCCCcCH----HHHHHHHHHH
Q 044047          107 EHALKLFDEMQHSDVAAETSTYNT------------FIDGLCKNGYIVEAAELFRTLRVLKCELGI----EAYSCLIDGL  170 (260)
Q Consensus       107 ~~a~~~~~~~~~~~~~~~~~~~~~------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~  170 (260)
                      ++|...+++..+.. +.+...+..            +...+...|++++|...++.+.... +.+.    ..+..+...+
T Consensus       205 ~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~la~~~  282 (359)
T 3ieg_A          205 ELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSVAEYTVRSKERICHCF  282 (359)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHHH
Confidence            77777777776654 333333332            2555777888888888888777654 2233    2355678899


Q ss_pred             HhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 044047          171 CKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR  242 (260)
Q Consensus       171 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  242 (260)
                      ...|++++|...++...+.. +.+..++..+...+...|++++|...|+++.+.. +-+...+..+..+...
T Consensus       283 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~  352 (359)
T 3ieg_A          283 SKDEKPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN-ENDQQIREGLEKAQRL  352 (359)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHH
Confidence            99999999999999998864 2367899999999999999999999999999862 3345556666655543

>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=1.9e-20  Score=140.67  Aligned_cols=238  Identities=11%  Similarity=0.026  Sum_probs=206.6

Q ss_pred             CCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHH
Q 044047           16 VRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNT   95 (260)
Q Consensus        16 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   95 (260)
                      .+.++..+..+...+...|++++|.++++++.+.. +.+...+..++.++...|++++|..+++++.+.... +...+..
T Consensus        18 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~   95 (330)
T 3hym_B           18 LQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPS-NPVSWFA   95 (330)
T ss_dssp             --CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHHHH
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHH
Confidence            35567778889999999999999999999998876 667788888999999999999999999999987443 6788889


Q ss_pred             HHHHHhccc-cHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcC
Q 044047           96 LFHGLFEIH-QVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIG  174 (260)
Q Consensus        96 l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  174 (260)
                      +...+...| ++++|...|++..+.. +.+...+..+...+...|++++|...++.+.... +.+...+..+...+...|
T Consensus        96 l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~  173 (330)
T 3hym_B           96 VGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTN  173 (330)
T ss_dssp             HHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHh
Confidence            999999999 9999999999998875 5567889999999999999999999999998775 445677788999999999


Q ss_pred             CHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCC--------CCCChhhHHHHHHHHHhcCch
Q 044047          175 KLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKG--------VAPNCVTFNTLMLGCIRNNET  246 (260)
Q Consensus       175 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--------~~p~~~~~~~l~~~~~~~~~~  246 (260)
                      ++++|...++.+.+.. +.+...+..+...+...|++++|...++++.+..        .+.+..++..+..++...|++
T Consensus       174 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  252 (330)
T 3hym_B          174 NSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKY  252 (330)
T ss_dssp             CHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCH
Confidence            9999999999998875 3357889999999999999999999999987641        134467889999999999999


Q ss_pred             hHHHHHHHHHhh
Q 044047          247 SKVVELLHRMDE  258 (260)
Q Consensus       247 ~~a~~~~~~m~~  258 (260)
                      ++|...+++..+
T Consensus       253 ~~A~~~~~~a~~  264 (330)
T 3hym_B          253 AEALDYHRQALV  264 (330)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998865

>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=5.4e-21  Score=145.89  Aligned_cols=233  Identities=12%  Similarity=0.043  Sum_probs=199.5

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHG   99 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   99 (260)
                      ...+..+...+.+.|++++|...|+++.+.. |.+..++..+..++...|++++|+..++++.+.... +..++..+...
T Consensus        64 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~  141 (368)
T 1fch_A           64 HPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVS  141 (368)
T ss_dssp             CSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCC-CHHHHHHHHHH
Confidence            4567789999999999999999999999876 678889999999999999999999999999987543 77889999999


Q ss_pred             HhccccHHHHHHHHHHHhhcCCCcchhhHHH---------------HHHHHHhcCcHHHHHHHHHHhhhcCCCc--CHHH
Q 044047          100 LFEIHQVEHALKLFDEMQHSDVAAETSTYNT---------------FIDGLCKNGYIVEAAELFRTLRVLKCEL--GIEA  162 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~  162 (260)
                      +...|++++|...++++.... +.+...+..               .+..+...|++++|...++++.... +.  +..+
T Consensus       142 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~  219 (368)
T 1fch_A          142 FTNESLQRQACEILRDWLRYT-PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLD-PTSIDPDV  219 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTS-TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHS-TTSCCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhC-cCcccHHH
Confidence            999999999999999998865 333333321               2333448999999999999998765 33  6889


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 044047          163 YSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR  242 (260)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  242 (260)
                      +..+...+...|++++|...++++.... +.+..++..+...+...|++++|...++++.+.. +.+..++..+..++.+
T Consensus       220 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~  297 (368)
T 1fch_A          220 QCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCIN  297 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHH
Confidence            9999999999999999999999998864 2357889999999999999999999999998863 4467889999999999


Q ss_pred             cCchhHHHHHHHHHhh
Q 044047          243 NNETSKVVELLHRMDE  258 (260)
Q Consensus       243 ~~~~~~a~~~~~~m~~  258 (260)
                      .|++++|...++++.+
T Consensus       298 ~g~~~~A~~~~~~al~  313 (368)
T 1fch_A          298 LGAHREAVEHFLEALN  313 (368)
T ss_dssp             HTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999999999998765

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.88  E-value=6.5e-20  Score=145.83  Aligned_cols=250  Identities=11%  Similarity=-0.007  Sum_probs=179.2

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|++.|+++.+.+  |++..|..+..++.+.|++++|...++.+.+.+ |.+..+|..+..++...|++++|...|+++
T Consensus        23 ~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~   99 (514)
T 2gw1_A           23 DDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFADAMFDLSVL   99 (514)
T ss_dssp             HHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            67999999999875  689999999999999999999999999998876 667889999999999999999999999998


Q ss_pred             HhcCCCCC------------------------------------------------------------------------
Q 044047           82 LSKGIRPT------------------------------------------------------------------------   89 (260)
Q Consensus        82 ~~~~~~~~------------------------------------------------------------------------   89 (260)
                      .+.+...+                                                                        
T Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (514)
T 2gw1_A          100 SLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFAN  179 (514)
T ss_dssp             HHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSS
T ss_pred             HhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHH
Confidence            77643111                                                                        


Q ss_pred             ------ccchHHHHHHHh---ccccHHHHHHHHHHHhh-----cCC--------CcchhhHHHHHHHHHhcCcHHHHHHH
Q 044047           90 ------VVTYNTLFHGLF---EIHQVEHALKLFDEMQH-----SDV--------AAETSTYNTFIDGLCKNGYIVEAAEL  147 (260)
Q Consensus        90 ------~~~~~~l~~~~~---~~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~~~l~~~~~~~~~~~~a~~~  147 (260)
                            ...+......+.   +.|++++|..+|+++.+     ...        +.+..++..+...+...|++++|...
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  259 (514)
T 2gw1_A          180 YDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHED  259 (514)
T ss_dssp             CCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHH
T ss_pred             hcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHH
Confidence                  111122222222   37888888888888776     210        23355677778888888888888888


Q ss_pred             HHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 044047          148 FRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVA  227 (260)
Q Consensus       148 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  227 (260)
                      ++.+......  ...+..+...+...|++++|...++.+..... .+..++..+...+...|++++|...++++.+.. +
T Consensus       260 ~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~  335 (514)
T 2gw1_A          260 IKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDS-NNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-P  335 (514)
T ss_dssp             HHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCT-TCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-S
T ss_pred             HHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCc-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-h
Confidence            8887765422  66677777777777777777777777666532 245566666677777777777777777766642 2


Q ss_pred             CChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          228 PNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       228 p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      .+...+..+...+...|++++|..+++++.+
T Consensus       336 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  366 (514)
T 2gw1_A          336 ENIFPYIQLACLAYRENKFDDCETLFSEAKR  366 (514)
T ss_dssp             SCSHHHHHHHHHTTTTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2455566666666666666666666666543

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.88  E-value=6.9e-20  Score=137.42  Aligned_cols=234  Identities=8%  Similarity=-0.069  Sum_probs=198.6

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      +...+..+...+...|++++|..+|+++.+.. +.+..++..+..++...|++++|...++++.+.... +..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcC-CHHHHHHHHH
Confidence            45567778899999999999999999998875 668889999999999999999999999999887433 6778889999


Q ss_pred             HHhccccHHHHHHHHHHHhhcCCCcchhhHHHH--------------HH-HHHhcCcHHHHHHHHHHhhhcCCCcCHHHH
Q 044047           99 GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTF--------------ID-GLCKNGYIVEAAELFRTLRVLKCELGIEAY  163 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  163 (260)
                      .+...|++++|...++++.+.. +.+...+..+              .. .+...|++++|...++++.... +.+...+
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  175 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLH  175 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHH
Confidence            9999999999999999998764 3344444443              33 4778899999999999998775 5578899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc
Q 044047          164 SCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRN  243 (260)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  243 (260)
                      ..+...+...|++++|...++.+.+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..+..++...
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~  253 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNM  253 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHh
Confidence            999999999999999999999998764 2357889999999999999999999999998863 44678899999999999


Q ss_pred             CchhHHHHHHHHHhh
Q 044047          244 NETSKVVELLHRMDE  258 (260)
Q Consensus       244 ~~~~~a~~~~~~m~~  258 (260)
                      |++++|.+.++++.+
T Consensus       254 g~~~~A~~~~~~a~~  268 (327)
T 3cv0_A          254 SQYDLAAKQLVRAIY  268 (327)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHH
Confidence            999999999998764

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.87  E-value=6e-20  Score=146.06  Aligned_cols=252  Identities=12%  Similarity=0.006  Sum_probs=215.8

Q ss_pred             hhHHHHHHHHHH-----c--CC------CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhc
Q 044047            2 DEASRLLDLMIQ-----R--GV------RPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKT   68 (260)
Q Consensus         2 ~~a~~~~~~~~~-----~--~~------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   68 (260)
                      ++|...++++.+     .  ..      +.+...+..+...+...|++++|...++.+.+.+  |+..++..+..++...
T Consensus       206 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~  283 (514)
T 2gw1_A          206 DKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADR  283 (514)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHC
Confidence            578888888877     3  11      3356788899999999999999999999998875  3388899999999999


Q ss_pred             CChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHH
Q 044047           69 KDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELF  148 (260)
Q Consensus        69 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  148 (260)
                      |++++|...++++.+.... +..++..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+
T Consensus       284 ~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  361 (514)
T 2gw1_A          284 NDSTEYYNYFDKALKLDSN-NSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLF  361 (514)
T ss_dssp             SCCTTGGGHHHHHHTTCTT-CTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhhcCcC-CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999999887443 67788999999999999999999999998875 556788999999999999999999999


Q ss_pred             HHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC-Cc----hhhHHHHHHHHHh---cCChHHHHHHHHH
Q 044047          149 RTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM-PN----VVTYNIMIHGFCN---DGQMDKAHDLFLD  220 (260)
Q Consensus       149 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~---~g~~~~a~~~~~~  220 (260)
                      +.+.... +.+...+..+...+...|++++|...++.+...... ++    ..++..+...+..   .|++++|...+++
T Consensus       362 ~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~  440 (514)
T 2gw1_A          362 SEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEK  440 (514)
T ss_dssp             HHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHH
T ss_pred             HHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHH
Confidence            9998765 556788999999999999999999999998765321 11    3388999999999   9999999999999


Q ss_pred             HHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          221 MEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       221 ~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      +.+.. +.+..++..+..++...|++++|...+++..+.
T Consensus       441 a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  478 (514)
T 2gw1_A          441 ASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESADL  478 (514)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            98863 446788889999999999999999999988653

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.87  E-value=9e-20  Score=134.63  Aligned_cols=225  Identities=10%  Similarity=0.056  Sum_probs=183.9

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-ccchHHHHHH
Q 044047           21 FVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT-VVTYNTLFHG   99 (260)
Q Consensus        21 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~   99 (260)
                      .....+.++|...|+++.|+..++.   . -+|+..++..+...+...++.++|++.++++...+..|+ ...+..+...
T Consensus        35 e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~  110 (291)
T 3mkr_A           35 ERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASI  110 (291)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHH
Confidence            4556678999999999999986654   2 367888899999999999999999999999988765554 5566677789


Q ss_pred             HhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHH--HHHHHHHHHhcCCHH
Q 044047          100 LFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEA--YSCLIDGLCKIGKLE  177 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~  177 (260)
                      +...|++++|+..+++      +.+...+..++..+.+.|++++|.+.++.+.... +.+...  ...++..+...|+++
T Consensus       111 ~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~-p~~~~~~l~~a~~~l~~~~~~~~  183 (291)
T 3mkr_A          111 YFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD-EDATLTQLATAWVSLAAGGEKLQ  183 (291)
T ss_dssp             HHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCTTHHH
T ss_pred             HHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhCchHHH
Confidence            9999999999999987      5677889999999999999999999999998774 222211  122334455668999


Q ss_pred             HHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhH-HHHHHHHH
Q 044047          178 TAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSK-VVELLHRM  256 (260)
Q Consensus       178 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~-a~~~~~~m  256 (260)
                      +|..+|+++.+.. +.+...++.+..++...|++++|...+++..+.. +-+..++..++..+...|+.++ +.++++++
T Consensus       184 eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~  261 (291)
T 3mkr_A          184 DAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQL  261 (291)
T ss_dssp             HHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            9999999998873 4578889999999999999999999999998863 4478889999999999999976 57888887


Q ss_pred             hh
Q 044047          257 DE  258 (260)
Q Consensus       257 ~~  258 (260)
                      .+
T Consensus       262 ~~  263 (291)
T 3mkr_A          262 KD  263 (291)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.87  E-value=8.6e-20  Score=129.14  Aligned_cols=199  Identities=14%  Similarity=0.020  Sum_probs=117.1

Q ss_pred             CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHH
Q 044047           17 RPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTL   96 (260)
Q Consensus        17 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   96 (260)
                      |+++..+..+...+.+.|++++|...|++..+.+ |.+...+..+..++.+.|++++|+..+++..+..+. +...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPR-YLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHH
Confidence            4566677777777778888888888887777665 566777777777777888888888888777776433 45666667


Q ss_pred             HHHHhcc-----------ccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHH
Q 044047           97 FHGLFEI-----------HQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSC  165 (260)
Q Consensus        97 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  165 (260)
                      ...+...           |++++|+..+++..+.. |.+...+..+..++...|++++|+..+++.....  .++..+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            7777666           66666666666655543 3445555555566666666666666666655554  45555555


Q ss_pred             HHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047          166 LIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDM  221 (260)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  221 (260)
                      +..++...|++++|...++.+.+... .+...+..+...+...|++++|...+++.
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQAP-KDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            56666666666666666665555421 23445555555555566666655555543

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.86  E-value=5.9e-19  Score=141.14  Aligned_cols=251  Identities=12%  Similarity=0.038  Sum_probs=188.5

Q ss_pred             ChhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHH
Q 044047            1 MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSE   80 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   80 (260)
                      +++|++.|+.+.+.. |.++..|..+..++.+.|++++|.+.++++.+.+ |.+..++..+..++...|++++|+..|+.
T Consensus        41 ~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~  118 (537)
T 3fp2_A           41 FNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTDAMFDLSV  118 (537)
T ss_dssp             CC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            467899999999876 5588999999999999999999999999998876 66788999999999999999999887753


Q ss_pred             HHhc----------------------------------------------------------------------------
Q 044047           81 MLSK----------------------------------------------------------------------------   84 (260)
Q Consensus        81 ~~~~----------------------------------------------------------------------------   84 (260)
                      +...                                                                            
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  198 (537)
T 3fp2_A          119 LSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSD  198 (537)
T ss_dssp             HC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHH
T ss_pred             HhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHH
Confidence            3110                                                                            


Q ss_pred             -------------------------------CCCCC--------ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcch
Q 044047           85 -------------------------------GIRPT--------VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAET  125 (260)
Q Consensus        85 -------------------------------~~~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  125 (260)
                                                     ...|+        ..++..+...+...|++++|...+++..+..  |+.
T Consensus       199 ~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~  276 (537)
T 3fp2_A          199 ALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTP  276 (537)
T ss_dssp             HHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCc
Confidence                                           00111        1123344455666677777877777777654  346


Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHH
Q 044047          126 STYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGF  205 (260)
Q Consensus       126 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  205 (260)
                      ..+..+...+...|++++|...++.+.... +.+..++..+...+...|++++|...++.+.+... .+...+..+...+
T Consensus       277 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~  354 (537)
T 3fp2_A          277 NSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNP-ENVYPYIQLACLL  354 (537)
T ss_dssp             HHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCSHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            677777777888888888888888777654 55677788888888888888888888888777542 2456777888888


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          206 CNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       206 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ...|++++|...++++.+.. +.+...+..+..++...|++++|...++++.+
T Consensus       355 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  406 (537)
T 3fp2_A          355 YKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKR  406 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            88888888888888887752 44566777888888888888888888887654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.86  E-value=1.1e-19  Score=128.62  Aligned_cols=201  Identities=8%  Similarity=0.002  Sum_probs=166.0

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHH
Q 044047           52 MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTF  131 (260)
Q Consensus        52 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  131 (260)
                      |++...+..+...+...|++++|+..|++..+..+. +...+..+...+.+.|++++|+..+++..+.. |.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            677888999999999999999999999999987544 67888999999999999999999999999886 6678889999


Q ss_pred             HHHHHhc-----------CcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHH
Q 044047          132 IDGLCKN-----------GYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNI  200 (260)
Q Consensus       132 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  200 (260)
                      ..++...           |++++|+..+++..... |.+...+..+...+...|++++|...+++..+..  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            9999999           99999999999998875 5678899999999999999999999999999887  57889999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          201 MIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       201 l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      +..++...|++++|...|++..+.. +.+...+..+..++...|++++|...+++...
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEHH  213 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC----------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHhh
Confidence            9999999999999999999999862 44678888999999999999999999987653

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.86  E-value=3.7e-19  Score=128.94  Aligned_cols=226  Identities=9%  Similarity=0.016  Sum_probs=190.7

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC--CC----ccc
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIR--PT----VVT   92 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~   92 (260)
                      .+..+..+...+...|++++|...|+.+.+..  .+..++..+..++...|++++|+..+++..+....  ++    ..+
T Consensus         4 ~a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   81 (258)
T 3uq3_A            4 MADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKS   81 (258)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHH
Confidence            45678889999999999999999999998877  77889999999999999999999999998775322  11    577


Q ss_pred             hHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHh
Q 044047           93 YNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCK  172 (260)
Q Consensus        93 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  172 (260)
                      +..+...+...|++++|...|++..+..  |+.       ..+...|++++|...++.+.... +.+...+..+...+..
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~  151 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFT  151 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHH
Confidence            8889999999999999999999988754  332       45667788999999999988764 5567788889999999


Q ss_pred             cCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHH
Q 044047          173 IGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVEL  252 (260)
Q Consensus       173 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  252 (260)
                      .|++++|...++.+.+... .+..++..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...
T Consensus       152 ~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  229 (258)
T 3uq3_A          152 KSDWPNAVKAYTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALET  229 (258)
T ss_dssp             TTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            9999999999999887643 357888999999999999999999999998863 44678888999999999999999999


Q ss_pred             HHHHhh
Q 044047          253 LHRMDE  258 (260)
Q Consensus       253 ~~~m~~  258 (260)
                      +++..+
T Consensus       230 ~~~a~~  235 (258)
T 3uq3_A          230 LDAART  235 (258)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988764

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.86  E-value=6.7e-19  Score=140.83  Aligned_cols=250  Identities=12%  Similarity=0.068  Sum_probs=209.2

Q ss_pred             hhHHHHHHHHHHcCCCcc-------HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHH
Q 044047            2 DEASRLLDLMIQRGVRPN-------AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEES   74 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   74 (260)
                      ++|.++++.+.+... .+       ..++..+...+...|++++|...++.+.+..  |+..++..+...+...|++++|
T Consensus       219 ~~A~~~~~~~l~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A  295 (537)
T 3fp2_A          219 TKSTDMYHSLLSANT-VDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEF  295 (537)
T ss_dssp             HHHHHHHHHHHC--C-CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHH
T ss_pred             HHHHHHHHHHHHHCC-CcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHH
Confidence            567888888887642 23       3357777788899999999999999998874  5588899999999999999999


Q ss_pred             HHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhc
Q 044047           75 LNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  154 (260)
                      ...++++.+.... +..++..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...++.+...
T Consensus       296 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  373 (537)
T 3fp2_A          296 FKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLK  373 (537)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999887543 67889999999999999999999999998875 556788999999999999999999999999887


Q ss_pred             CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC-----CchhhHHHHHHHHHhc----------CChHHHHHHHH
Q 044047          155 KCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM-----PNVVTYNIMIHGFCND----------GQMDKAHDLFL  219 (260)
Q Consensus       155 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~----------g~~~~a~~~~~  219 (260)
                      . +.+...+..+...+...|++++|...++.+.+....     .....+......+...          |++++|...++
T Consensus       374 ~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~  452 (537)
T 3fp2_A          374 F-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLT  452 (537)
T ss_dssp             C-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHH
T ss_pred             C-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHH
Confidence            5 667788999999999999999999999998764311     1122344556677777          99999999999


Q ss_pred             HHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          220 DMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       220 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ++.+.. +.+...+..+..++...|++++|.+.+++..+
T Consensus       453 ~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  490 (537)
T 3fp2_A          453 KACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAI  490 (537)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            999863 44678899999999999999999999998765

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.85  E-value=1.3e-21  Score=159.94  Aligned_cols=151  Identities=13%  Similarity=0.178  Sum_probs=124.2

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHh---hcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMD---INGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNT   95 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   95 (260)
                      -..+|+++|++|++.|++++|.++|+.|.   ..|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            34589999999999999999999998875   458899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccccH-HHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcC------HHHHHHHHH
Q 044047           96 LFHGLFEIHQV-EHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELG------IEAYSCLID  168 (260)
Q Consensus        96 l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~  168 (260)
                      +|.++++.|+. ++|.++|++|.+.|+.||..+|+.++....+.    .+++.++++. .++.|+      ..+...+..
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv~-P~f~p~~~~~~~~~t~~LL~d  280 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKVK-PTFSLPPQLPPPVNTSKLLRD  280 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGGC-CCCCCCCCCCCCCCCCTTTHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHhC-cccCCCCCCcccccchHHHHH
Confidence            99999999984 78999999999999999999999998766553    3444444442 222322      334444556


Q ss_pred             HHHhcC
Q 044047          169 GLCKIG  174 (260)
Q Consensus       169 ~~~~~~  174 (260)
                      .|.+.+
T Consensus       281 l~s~d~  286 (1134)
T 3spa_A          281 VYAKDG  286 (1134)
T ss_dssp             HHCCCS
T ss_pred             HHccCC
Confidence            666544

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.85  E-value=1.8e-18  Score=126.50  Aligned_cols=235  Identities=11%  Similarity=0.007  Sum_probs=192.9

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccc----hH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVT----YN   94 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~   94 (260)
                      |+..+......+...|++++|...|+++.+.. |.+...+..+..++...|++++|+..+++..+.+  ++...    |.
T Consensus         2 n~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~   78 (272)
T 3u4t_A            2 NDDVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKV--NATKAKSADFE   78 (272)
T ss_dssp             ---CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTS--CTTTCCHHHHH
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcc--CchhHHHHHHH
Confidence            34456677888999999999999999998875 5567789999999999999999999999998843  23333    78


Q ss_pred             HHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcC
Q 044047           95 TLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIG  174 (260)
Q Consensus        95 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  174 (260)
                      .+...+...|++++|+..|++..+.. +.+...+..+...|...|++++|...+++..... +.+...+..+...+...+
T Consensus        79 ~lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~  156 (272)
T 3u4t_A           79 YYGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNK  156 (272)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHH
Confidence            89999999999999999999998875 5677899999999999999999999999998774 667788888883444556


Q ss_pred             CHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCC---hHHHHHHHHHHHhCC-CCCC------hhhHHHHHHHHHhcC
Q 044047          175 KLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQ---MDKAHDLFLDMEAKG-VAPN------CVTFNTLMLGCIRNN  244 (260)
Q Consensus       175 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~-~~p~------~~~~~~l~~~~~~~~  244 (260)
                      ++++|...++.+.+... .+...+..+..++...|+   +++|...+++..+.. -.|+      ..++..+...|...|
T Consensus       157 ~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  235 (272)
T 3u4t_A          157 EYVKADSSFVKVLELKP-NIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINR  235 (272)
T ss_dssp             CHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcC
Confidence            99999999999988642 246778888888888888   888999998887641 1233      257788899999999


Q ss_pred             chhHHHHHHHHHhhc
Q 044047          245 ETSKVVELLHRMDER  259 (260)
Q Consensus       245 ~~~~a~~~~~~m~~~  259 (260)
                      ++++|.+.+++..+.
T Consensus       236 ~~~~A~~~~~~al~~  250 (272)
T 3u4t_A          236 DKVKADAAWKNILAL  250 (272)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhc
Confidence            999999999988753

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.85  E-value=3.1e-21  Score=157.83  Aligned_cols=115  Identities=13%  Similarity=0.188  Sum_probs=65.7

Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHhh---hcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHH
Q 044047          126 STYNTFIDGLCKNGYIVEAAELFRTLR---VLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMI  202 (260)
Q Consensus       126 ~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  202 (260)
                      .+|+++|.+|++.|++++|.++|.+|.   ..|+.||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.+|
T Consensus       128 ~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI  207 (1134)
T 3spa_A          128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL  207 (1134)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            455566666666666666665555443   23455566666666666666666666666666665555556666666666


Q ss_pred             HHHHhcCCh-HHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 044047          203 HGFCNDGQM-DKAHDLFLDMEAKGVAPNCVTFNTLMLGC  240 (260)
Q Consensus       203 ~~~~~~g~~-~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  240 (260)
                      .++++.|+. ++|.++|++|.+.|+.||..+|+.++..+
T Consensus       208 ~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~  246 (1134)
T 3spa_A          208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEE  246 (1134)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHH
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChh
Confidence            655555553 45555666665555666665555554433

>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=99.84  E-value=3.7e-17  Score=119.71  Aligned_cols=225  Identities=9%  Similarity=-0.018  Sum_probs=197.3

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCccch
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCK----TKDVEESLNLYSEMLSKGIRPTVVTY   93 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~   93 (260)
                      -++..+..+...+...|++++|...|++..+.   .+..++..+...+..    .+++++|+..|++..+.+   +...+
T Consensus         4 ~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~   77 (273)
T 1ouv_A            4 QDPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC   77 (273)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            36778888999999999999999999999874   356788889999999    999999999999999875   67888


Q ss_pred             HHHHHHHhc----cccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHh----cCcHHHHHHHHHHhhhcCCCcCHHHHHH
Q 044047           94 NTLFHGLFE----IHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCK----NGYIVEAAELFRTLRVLKCELGIEAYSC  165 (260)
Q Consensus        94 ~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  165 (260)
                      ..+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...+++....+   +...+..
T Consensus        78 ~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~  151 (273)
T 1ouv_A           78 HLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTI  151 (273)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHH
Confidence            889999999    999999999999998875   56788899999999    999999999999998865   5677888


Q ss_pred             HHHHHHh----cCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCChhhHHHHH
Q 044047          166 LIDGLCK----IGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCN----DGQMDKAHDLFLDMEAKGVAPNCVTFNTLM  237 (260)
Q Consensus       166 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~  237 (260)
                      +...|..    .+++++|...++...+.+   +...+..+...|..    .+++++|...+++..+.+   +...+..+.
T Consensus       152 lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~  225 (273)
T 1ouv_A          152 LGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLG  225 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHH
Confidence            8888888    999999999999998864   56788889999999    999999999999999864   367788888


Q ss_pred             HHHHh----cCchhHHHHHHHHHhhcC
Q 044047          238 LGCIR----NNETSKVVELLHRMDERN  260 (260)
Q Consensus       238 ~~~~~----~~~~~~a~~~~~~m~~~~  260 (260)
                      ..|..    .+++++|.+.+++..+.|
T Consensus       226 ~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          226 AMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            99998    999999999999887653

>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=99.83  E-value=4.2e-18  Score=129.85  Aligned_cols=233  Identities=10%  Similarity=-0.001  Sum_probs=201.5

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCC-hHHHHHHHHHHHhcCCCCCccchHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKD-VEESLNLYSEMLSKGIRPTVVTYNTLF   97 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~   97 (260)
                      +...|..+...+.+.|++++|+..++++.+.+ |.+..+|+.+..++...|+ +++|+..+++..+.... +...|..+.
T Consensus        96 ~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g  173 (382)
T 2h6f_A           96 FRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRR  173 (382)
T ss_dssp             HHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHH
Confidence            45678889999999999999999999999886 6788999999999999996 99999999999997655 788999999


Q ss_pred             HHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHh-cCCH
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCK-IGKL  176 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~  176 (260)
                      .++...|++++|+..|+++.+.. +.+...|..+..++...|++++|+..+++++... +.+...|+.+..++.. .|..
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcc
Confidence            99999999999999999999886 6788999999999999999999999999999886 6688899999999999 6665


Q ss_pred             HHH-----HHHHHhhhhCCCCCchhhHHHHHHHHHhcC--ChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC-----
Q 044047          177 ETA-----WELFQSLPRVGLMPNVVTYNIMIHGFCNDG--QMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNN-----  244 (260)
Q Consensus       177 ~~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~-----  244 (260)
                      ++|     +..+++...... -+...|..+...+...|  ++++|.+.+.++ +. .+.+...+..+..+|.+.|     
T Consensus       252 ~eA~~~~el~~~~~Al~l~P-~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~  328 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKLVP-HNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCD  328 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCS
T ss_pred             hHHHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhccccc
Confidence            777     588888887642 25778999999999888  689999999988 43 3456778888999998874     


Q ss_pred             ----chhHHHHHHHHH-hh
Q 044047          245 ----ETSKVVELLHRM-DE  258 (260)
Q Consensus       245 ----~~~~a~~~~~~m-~~  258 (260)
                          ..++|.++++++ .+
T Consensus       329 ~~~~~~~~A~~~~~~l~~~  347 (382)
T 2h6f_A          329 NKEDILNKALELCEILAKE  347 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHHHHHHHHH
Confidence                358999999998 54

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.83  E-value=1.4e-17  Score=118.14  Aligned_cols=214  Identities=12%  Similarity=-0.020  Sum_probs=177.7

Q ss_pred             CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHH
Q 044047           17 RPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTL   96 (260)
Q Consensus        17 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   96 (260)
                      +.++..+..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|...++++.+.... +..++..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l   82 (225)
T 2vq2_A            5 NQVSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPD-SAEINNNY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-ChHHHHHH
Confidence            4467788899999999999999999999998775 567888999999999999999999999999886433 67788889


Q ss_pred             HHHHhcc-ccHHHHHHHHHHHhhcCC-CcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcC
Q 044047           97 FHGLFEI-HQVEHALKLFDEMQHSDV-AAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIG  174 (260)
Q Consensus        97 ~~~~~~~-~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  174 (260)
                      ...+... |++++|...++++.+.+. +.+...+..+..++...|++++|...++++.... +.+...+..+...+...|
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~  161 (225)
T 2vq2_A           83 GWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAG  161 (225)
T ss_dssp             HHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcC
Confidence            9999999 999999999999887322 3346778889999999999999999999988765 556888899999999999


Q ss_pred             CHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHH
Q 044047          175 KLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNT  235 (260)
Q Consensus       175 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  235 (260)
                      ++++|...++.+.+.....+...+..+...+...|+.+.+..+++.+.+.  .|+......
T Consensus       162 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~  220 (225)
T 2vq2_A          162 QLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEELQT  220 (225)
T ss_dssp             CHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHH
Confidence            99999999999887643135677788888888999999999999998764  355444433

>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=99.83  E-value=1e-17  Score=121.08  Aligned_cols=201  Identities=14%  Similarity=0.039  Sum_probs=149.1

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHG   99 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   99 (260)
                      +..+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|.+.++++.+.... +...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSR-NARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHH
Confidence            5667777778888888888888888877664 556777778888888888888888888887776432 56677777777


Q ss_pred             HhccccHHHHHHHHHHHhhcCC-CcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHH
Q 044047          100 LFEIHQVEHALKLFDEMQHSDV-AAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLET  178 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  178 (260)
                      +...|++++|..+++++.+.+. +.+...+..+...+...|++++|...++++.... +.+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            8888888888888888776222 3345667777777888888888888888777654 4456777778888888888888


Q ss_pred             HHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          179 AWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       179 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      |...++.+.+.. +.+...+..+...+...|++++|...++++.+.
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            888888777653 235566777777777888888888888887764

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.83  E-value=1.3e-18  Score=127.43  Aligned_cols=242  Identities=10%  Similarity=-0.069  Sum_probs=191.4

Q ss_pred             hhHHHHHHHHHHcCC---CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHH
Q 044047            2 DEASRLLDLMIQRGV---RPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLY   78 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   78 (260)
                      ++|++.++.+.+...   +.++..+..+...+...|++++|...|+++.+.+ +.+..+|..+..++...|++++|+..+
T Consensus        22 ~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~  100 (275)
T 1xnf_A           22 EVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAF  100 (275)
T ss_dssp             HHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHHHHH
Confidence            678999999988632   2357789999999999999999999999998876 667899999999999999999999999


Q ss_pred             HHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCc
Q 044047           79 SEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCEL  158 (260)
Q Consensus        79 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  158 (260)
                      ++..+.... +..++..+...+...|++++|...++++.+..  |+.......+..+...|++++|...++...... ++
T Consensus       101 ~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~  176 (275)
T 1xnf_A          101 DSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-DK  176 (275)
T ss_dssp             HHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-CC
T ss_pred             HHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-Cc
Confidence            999987433 67889999999999999999999999998864  333344445556677799999999998877654 44


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCC---chhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHH
Q 044047          159 GIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMP---NVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNT  235 (260)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  235 (260)
                      +...+ .++..+...++.++|...+..........   +..++..+...+...|++++|...|++..+.  .|+.  +..
T Consensus       177 ~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~--~~~  251 (275)
T 1xnf_A          177 EQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHN--FVE  251 (275)
T ss_dssp             CSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTT--CHH
T ss_pred             chHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--Cchh--HHH
Confidence            44444 36777888889999999999887653211   1578889999999999999999999999985  3432  223


Q ss_pred             HHHHHHhcCchhHHHHHH
Q 044047          236 LMLGCIRNNETSKVVELL  253 (260)
Q Consensus       236 l~~~~~~~~~~~~a~~~~  253 (260)
                      ...++...|++++|++.+
T Consensus       252 ~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          252 HRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHhhHHHH
Confidence            456777889998888765

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.83  E-value=1.5e-17  Score=122.81  Aligned_cols=223  Identities=9%  Similarity=0.033  Sum_probs=181.2

Q ss_pred             CCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCC-CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchH
Q 044047           16 VRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGC-MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYN   94 (260)
Q Consensus        16 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   94 (260)
                      -+|+..++..+...+...++.++|.+.++++...+. |.+...+..+...+...|++++|++.+++      +.+...+.
T Consensus        61 ~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~  134 (291)
T 3mkr_A           61 SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMA  134 (291)
T ss_dssp             SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHH
T ss_pred             CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHH
Confidence            366788899999999999999999999999987764 44667778888999999999999999987      35778899


Q ss_pred             HHHHHHhccccHHHHHHHHHHHhhcCCCcchhhH---HHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHH
Q 044047           95 TLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTY---NTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLC  171 (260)
Q Consensus        95 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  171 (260)
                      .++..+.+.|++++|...++++.+..  |+....   ..++..+...|++++|..+|+++.... +.++..++.+..++.
T Consensus       135 ~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~  211 (291)
T 3mkr_A          135 MTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHM  211 (291)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            99999999999999999999998875  332211   223344556699999999999999874 778999999999999


Q ss_pred             hcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHH-HHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHH
Q 044047          172 KIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDK-AHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVV  250 (260)
Q Consensus       172 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  250 (260)
                      +.|++++|...++++..... -+..++..++..+...|+.++ +.++++++.+.  .|+...   +.....+.+.++++.
T Consensus       212 ~~g~~~eA~~~l~~al~~~p-~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~--~P~~~~---~~d~~~~~~~fd~~~  285 (291)
T 3mkr_A          212 AQGRWEAAEGVLQEALDKDS-GHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA--HRSHPF---IKEYRAKENDFDRLV  285 (291)
T ss_dssp             HTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHH---HHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh--CCCChH---HHHHHHHHHHHHHHH
Confidence            99999999999999988652 367889999999999999976 67899999875  555543   334556667777765


Q ss_pred             HHH
Q 044047          251 ELL  253 (260)
Q Consensus       251 ~~~  253 (260)
                      .-|
T Consensus       286 ~~~  288 (291)
T 3mkr_A          286 LQY  288 (291)
T ss_dssp             HHH
T ss_pred             HHc
Confidence            543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.83  E-value=1.7e-18  Score=124.46  Aligned_cols=213  Identities=13%  Similarity=0.091  Sum_probs=163.1

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF   97 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   97 (260)
                      .++..|..+...+...|++++|...|+++.+.. +.+...+..+..++...|++++|+..+++..+.... +..++..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSS-AATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCc-chHHHHHHH
Confidence            456678888899999999999999999998765 667889999999999999999999999999887433 677888899


Q ss_pred             HHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHH
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLE  177 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  177 (260)
                      ..+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.... +.+...+..+...+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999998875 5677888899999999999999999999988765 567888999999999999999


Q ss_pred             HHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHH
Q 044047          178 TAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTL  236 (260)
Q Consensus       178 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  236 (260)
                      +|...++.+.+... .+..++..+..++...|++++|...++++.+.. +.+...+..+
T Consensus       177 ~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~  233 (243)
T 2q7f_A          177 EALSQFAAVTEQDP-GHADAFYNAGVTYAYKENREKALEMLDKAIDIQ-PDHMLALHAK  233 (243)
T ss_dssp             HHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC-cchHHHHHHH
Confidence            99999999887642 357788999999999999999999999998852 2234444433

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.83  E-value=5.9e-18  Score=122.60  Aligned_cols=209  Identities=13%  Similarity=0.058  Sum_probs=181.9

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCC--CCc----hhhHHHHHHHHHhcCChHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGC--MHN----VVTYNTLINGYCKTKDVEESL   75 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~l~~~~~~~~~~~~a~   75 (260)
                      ++|.+.|+...+..  .++..+..+..++...|++++|...++.+.+...  .++    ..++..+..++...|++++|.
T Consensus        22 ~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~   99 (258)
T 3uq3_A           22 DEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTI   99 (258)
T ss_dssp             HHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHH
Confidence            68999999999887  7889999999999999999999999999876531  111    578999999999999999999


Q ss_pred             HHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC
Q 044047           76 NLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK  155 (260)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  155 (260)
                      ..+++..+..  |+       ...+...|++++|...++++.... +.+...+..+...+...|++++|...+++.....
T Consensus       100 ~~~~~a~~~~--~~-------~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~  169 (258)
T 3uq3_A          100 EYYQKSLTEH--RT-------ADILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA  169 (258)
T ss_dssp             HHHHHHHHHC--CC-------HHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhcC--ch-------hHHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            9999998863  33       245677899999999999998875 5667888999999999999999999999998876


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          156 CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       156 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                       +.+...+..+...+...|++++|...++.+.+.. +.+..++..+..++...|++++|...+++..+.
T Consensus       170 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          170 -PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence             6678899999999999999999999999998864 235788999999999999999999999998864

>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=99.82  E-value=2.9e-17  Score=118.75  Aligned_cols=201  Identities=11%  Similarity=-0.028  Sum_probs=175.1

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHH
Q 044047           55 VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDG  134 (260)
Q Consensus        55 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  134 (260)
                      ...|..+...+...|++++|...++++.+.... +..++..+...+...|++++|...++++.+.. +.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPS-SADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            577888999999999999999999999887433 67788899999999999999999999998875 5577889999999


Q ss_pred             HHhcCcHHHHHHHHHHhhhcCC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHH
Q 044047          135 LCKNGYIVEAAELFRTLRVLKC-ELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDK  213 (260)
Q Consensus       135 ~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  213 (260)
                      +...|++++|.+.++++...+. +.+...+..+...+...|++++|...++++.+... .+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNR-NQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999987322 33567888899999999999999999999988642 357888999999999999999


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          214 AHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       214 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      |...++++.+. .+.+...+..+...+...|++++|.++++++.+.
T Consensus       194 A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          194 ARQYYDLFAQG-GGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHTT-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh-CcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            99999999886 3456778888999999999999999999998753

>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=99.81  E-value=1.4e-19  Score=137.48  Aligned_cols=216  Identities=12%  Similarity=0.136  Sum_probs=91.3

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|.+.++++      +++.+|..++.++.+.|++++|++.|.+      .+|..+|..++..+...|++++|+..++..
T Consensus        20 d~A~~fae~~------~~~~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~~a   87 (449)
T 1b89_A           20 DRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMA   87 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHhC------CChHHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            4566666665      3446899999999999999999999965      357779999999999999999999988777


Q ss_pred             HhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHH
Q 044047           82 LSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIE  161 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  161 (260)
                      ++.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|.+++|...|..+         .
T Consensus        88 rk~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~  149 (449)
T 1b89_A           88 RKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------S  149 (449)
T ss_dssp             -----------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------T
T ss_pred             HHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------h
Confidence            664  4467888899999999999999888874       366679999999999999999999999976         3


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 044047          162 AYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCI  241 (260)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  241 (260)
                      .|..++.++.+.|++++|.+.++++      .++.+|..++.+|...|+++.|......     +...+.-...++..|.
T Consensus       150 n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Ye  218 (449)
T 1b89_A          150 NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQ  218 (449)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHH
Confidence            6889999999999999999999988      2678999999999999999999665543     2234444557889999


Q ss_pred             hcCchhHHHHHHHHHhh
Q 044047          242 RNNETSKVVELLHRMDE  258 (260)
Q Consensus       242 ~~~~~~~a~~~~~~m~~  258 (260)
                      +.|.+++|..+++....
T Consensus       219 k~G~~eEai~lLe~aL~  235 (449)
T 1b89_A          219 DRGYFEELITMLEAALG  235 (449)
T ss_dssp             HTTCHHHHHHHHHHHTT
T ss_pred             HCCCHHHHHHHHHHHhC
Confidence            99999999999887643

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.80  E-value=1.1e-17  Score=120.14  Aligned_cols=202  Identities=14%  Similarity=0.153  Sum_probs=160.0

Q ss_pred             CchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHH
Q 044047           53 HNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFI  132 (260)
Q Consensus        53 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  132 (260)
                      .....|..+...+...|++++|...++++.+.... +...+..+...+...|++++|...+++..+.. +.+...+..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKE-DAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHH
Confidence            35667888888999999999999999999886433 67888889999999999999999999998875 56788899999


Q ss_pred             HHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChH
Q 044047          133 DGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMD  212 (260)
Q Consensus       133 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  212 (260)
                      ..+...|++++|...++++.... +.+...+..+...+...|++++|...++++.+... .+...+..+...+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNE-NDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999998765 56788899999999999999999999999987642 36778899999999999999


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          213 KAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       213 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      +|...++++.+.. +.+..++..+..++...|++++|...++++.+.
T Consensus       177 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          177 EALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            9999999998863 446788999999999999999999999988653

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.80  E-value=6.4e-17  Score=114.71  Aligned_cols=204  Identities=10%  Similarity=-0.030  Sum_probs=175.2

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHH
Q 044047           52 MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTF  131 (260)
Q Consensus        52 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  131 (260)
                      +.+...+..+...+...|++++|...++++.+.... +...+..+...+...|++++|...+++..+.. +.+..++..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   82 (225)
T 2vq2_A            5 NQVSNIKTQLAMEYMRGQDYRQATASIEDALKSDPK-NELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHH
Confidence            446778899999999999999999999999887433 57788899999999999999999999998875 5677889999


Q ss_pred             HHHHHhc-CcHHHHHHHHHHhhhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcC
Q 044047          132 IDGLCKN-GYIVEAAELFRTLRVLKCEL-GIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDG  209 (260)
Q Consensus       132 ~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  209 (260)
                      ...+... |++++|...++.+...+..| +...+..+...+...|++++|...++.+.+... .+...+..+...+...|
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~  161 (225)
T 2vq2_A           83 GWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQP-QFPPAFKELARTKMLAG  161 (225)
T ss_dssp             HHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCchHHHHHHHHHHHcC
Confidence            9999999 99999999999998732223 367888999999999999999999999987642 35788899999999999


Q ss_pred             ChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          210 QMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       210 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ++++|...++++.+.....+...+..+...+...|+.+.+..+++.+.+
T Consensus       162 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          162 QLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             CHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            9999999999998763215677788888888999999999999998764

>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=4.5e-17  Score=119.02  Aligned_cols=231  Identities=10%  Similarity=0.069  Sum_probs=185.3

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCch----hhHHHHHHHHHhcCChHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNV----VTYNTLINGYCKTKDVEESLNL   77 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~   77 (260)
                      ++|++.|+...+.. +.+...+..+..++...|++++|...++.+.+.+  ++.    .+|..+..++...|++++|+..
T Consensus        20 ~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~lg~~~~~~~~~~~A~~~   96 (272)
T 3u4t_A           20 AEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKV--NATKAKSADFEYYGKILMKKGQDSLAIQQ   96 (272)
T ss_dssp             HHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTS--CTTTCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcc--CchhHHHHHHHHHHHHHHHcccHHHHHHH
Confidence            67999999999875 3466688899999999999999999999998743  333    3488999999999999999999


Q ss_pred             HHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCC
Q 044047           78 YSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCE  157 (260)
Q Consensus        78 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  157 (260)
                      +++..+.... +..++..+...+...|++++|...+++..+.. +.+...+..+...+...+++++|...++.+.... +
T Consensus        97 ~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p  173 (272)
T 3u4t_A           97 YQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSFVKVLELK-P  173 (272)
T ss_dssp             HHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-c
Confidence            9999987443 67889999999999999999999999998874 5667778788734445569999999999998875 5


Q ss_pred             cCHHHHHHHHHHHHhcCC---HHHHHHHHHhhhhCC-CCCc------hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 044047          158 LGIEAYSCLIDGLCKIGK---LETAWELFQSLPRVG-LMPN------VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVA  227 (260)
Q Consensus       158 ~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  227 (260)
                      .+...+..+...+...|+   +++|...++++.+.. ..|+      ..+|..+...|...|++++|...+++..+.. +
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p  252 (272)
T 3u4t_A          174 NIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALD-P  252 (272)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             cchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-c
Confidence            567888888888888888   888988888876542 1123      2578889999999999999999999999862 3


Q ss_pred             CChhhHHHHHHH
Q 044047          228 PNCVTFNTLMLG  239 (260)
Q Consensus       228 p~~~~~~~l~~~  239 (260)
                      -+......+...
T Consensus       253 ~~~~a~~~l~~~  264 (272)
T 3u4t_A          253 TNKKAIDGLKMK  264 (272)
T ss_dssp             TCHHHHHHHC--
T ss_pred             cHHHHHHHhhhh
Confidence            344444444333

>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=99.78  E-value=1.6e-16  Score=121.18  Aligned_cols=233  Identities=12%  Similarity=0.066  Sum_probs=194.7

Q ss_pred             ChhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCC-HHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHH
Q 044047            1 MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGE-IDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYS   79 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   79 (260)
                      +++|++.++...+.+ +-+...|+.+..++...|+ +++|+..|+++.+.+ +.+...|..+..++...|++++|+..|+
T Consensus       113 ~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~~~~g~~~eAl~~~~  190 (382)
T 2h6f_A          113 SERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLRDPSQELEFIA  190 (382)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHH
T ss_pred             hHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            468999999999886 4578899999999999997 999999999999887 6788999999999999999999999999


Q ss_pred             HHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHh-cCcHHHH-----HHHHHHhhh
Q 044047           80 EMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCK-NGYIVEA-----AELFRTLRV  153 (260)
Q Consensus        80 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a-----~~~~~~~~~  153 (260)
                      ++.+.... +...|..+..++...|++++|+..++++++.. +.+...|+.+..++.. .|..++|     +..+++...
T Consensus       191 kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~  268 (382)
T 2h6f_A          191 DILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIK  268 (382)
T ss_dssp             HHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHH
T ss_pred             HHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHH
Confidence            99997655 78899999999999999999999999999987 6688899999999999 6665777     588888887


Q ss_pred             cCCCcCHHHHHHHHHHHHhcC--CHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcC---------ChHHHHHHHHHH-
Q 044047          154 LKCELGIEAYSCLIDGLCKIG--KLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDG---------QMDKAHDLFLDM-  221 (260)
Q Consensus       154 ~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---------~~~~a~~~~~~~-  221 (260)
                      .. +-+...|..+...+...|  ++++|.+.+..+ +.. +.+...+..+..+|...|         ..++|..+++++ 
T Consensus       269 l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~  345 (382)
T 2h6f_A          269 LV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILA  345 (382)
T ss_dssp             HS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHH
T ss_pred             HC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHH
Confidence            65 667889999999999888  689999999888 432 335678888999998874         358999999998 


Q ss_pred             HhCCCCCC-hhhHHHHHHHHHh
Q 044047          222 EAKGVAPN-CVTFNTLMLGCIR  242 (260)
Q Consensus       222 ~~~~~~p~-~~~~~~l~~~~~~  242 (260)
                      .+.  .|. ...|..+...+..
T Consensus       346 ~~~--DP~r~~~w~~~~~~l~~  365 (382)
T 2h6f_A          346 KEK--DTIRKEYWRYIGRSLQS  365 (382)
T ss_dssp             HTT--CGGGHHHHHHHHHHHHH
T ss_pred             HHh--CchhHHHHHHHHHHHHH
Confidence            554  444 4555555555543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.78  E-value=5.4e-17  Score=118.74  Aligned_cols=224  Identities=9%  Similarity=-0.133  Sum_probs=181.5

Q ss_pred             HhccCCHHHHHHHHHHHhhcCC---CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccH
Q 044047           30 FCLTGEIDRARELFVSMDINGC---MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQV  106 (260)
Q Consensus        30 ~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  106 (260)
                      ....|++++|...++++.+...   +.+..++..+..++...|++++|...++++.+.... +..++..+...+...|++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccCH
Confidence            4456899999999999987631   235678899999999999999999999999987543 678899999999999999


Q ss_pred             HHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhh
Q 044047          107 EHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSL  186 (260)
Q Consensus       107 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  186 (260)
                      ++|...|++..+.. +.+...+..+..++...|++++|...++.+.... +.+. ........+...|++++|...++..
T Consensus        94 ~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~-~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           94 DAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDP-FRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH-HHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCh-HHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            99999999998875 5577889999999999999999999999998764 3333 3344445557779999999999887


Q ss_pred             hhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC---CChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          187 PRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVA---PNCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       187 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      .... +++... ..++..+...++.++|...+.+.......   .+..++..+..++...|++++|...+++..+.
T Consensus       171 ~~~~-~~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          171 FEKS-DKEQWG-WNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHHS-CCCSTH-HHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HhcC-CcchHH-HHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            7653 233334 34777788888999999999988764211   12578889999999999999999999998764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.78  E-value=1e-15  Score=114.09  Aligned_cols=217  Identities=12%  Similarity=0.025  Sum_probs=177.7

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhc-------cCCH-------HHHHHHHHHHhh-cCCCCchhhHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCL-------TGEI-------DRARELFVSMDI-NGCMHNVVTYNTLINGYC   66 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~   66 (260)
                      ++|..+|++..... +.++..|..++..+..       .|++       ++|..+|++..+ .. |.+...|..++..+.
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~-p~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLL-KKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTT-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            46778899888864 5578888888888763       5775       899999999987 34 556778999999999


Q ss_pred             hcCChHHHHHHHHHHHhcCCCCC-cc-chHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHH-hcCcHHH
Q 044047           67 KTKDVEESLNLYSEMLSKGIRPT-VV-TYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLC-KNGYIVE  143 (260)
Q Consensus        67 ~~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~  143 (260)
                      ..|++++|..+|++..+.  .|+ .. +|..++..+.+.|++++|..+|++..+.. +.+...|...+.... ..|++++
T Consensus       111 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             hcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999985  343 33 78999999999999999999999998865 445555554444322 3799999


Q ss_pred             HHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC-CCC--chhhHHHHHHHHHhcCChHHHHHHHHH
Q 044047          144 AAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVG-LMP--NVVTYNIMIHGFCNDGQMDKAHDLFLD  220 (260)
Q Consensus       144 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~  220 (260)
                      |..+|+...... +.++..|..++..+.+.|++++|..+|++..... +.|  ....|..++......|+.+.|..++++
T Consensus       188 A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          188 AFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999988765 5578899999999999999999999999999863 344  356788889999999999999999999


Q ss_pred             HHhC
Q 044047          221 MEAK  224 (260)
Q Consensus       221 ~~~~  224 (260)
                      +.+.
T Consensus       267 a~~~  270 (308)
T 2ond_A          267 RFTA  270 (308)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9875

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.77  E-value=1.7e-15  Score=112.80  Aligned_cols=236  Identities=10%  Similarity=0.041  Sum_probs=186.7

Q ss_pred             cHHHHHHHHHHHhcc----CCH----HHHHHHHHHHhhcCCCCchhhHHHHHHHHHh-------cCCh-------HHHHH
Q 044047           19 NAFVYSTLIDGFCLT----GEI----DRARELFVSMDINGCMHNVVTYNTLINGYCK-------TKDV-------EESLN   76 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~   76 (260)
                      +...|...+....+.    ++.    ++|..+|+++.... |.+...|..++..+..       .|++       ++|..
T Consensus         7 ~~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~   85 (308)
T 2ond_A            7 QVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAAN   85 (308)
T ss_dssp             HHHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHH
Confidence            344566666654443    233    68889999998765 6788899888888763       5886       89999


Q ss_pred             HHHHHHhcCCCC-CccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchh-hHHHHHHHHHhcCcHHHHHHHHHHhhhc
Q 044047           77 LYSEMLSKGIRP-TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETS-TYNTFIDGLCKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus        77 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  154 (260)
                      +|++..+. +.| +...|..++..+...|++++|..+|++..+.. +.+.. .|..++..+.+.|++++|..+|++....
T Consensus        86 ~~~rAl~~-~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  163 (308)
T 2ond_A           86 IYERAIST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED  163 (308)
T ss_dssp             HHHHHHTT-TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSS-SSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHH-hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc-ccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            99999983 233 55688999999999999999999999998853 33344 7999999999999999999999999876


Q ss_pred             CCCcCHHHHHHHHHHHH-hcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCC--Ch
Q 044047          155 KCELGIEAYSCLIDGLC-KIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKG-VAP--NC  230 (260)
Q Consensus       155 ~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~p--~~  230 (260)
                      . +.+...|...+.... ..|+.++|..+|+...+... -+...|..++..+.+.|++++|..+|++..... ++|  ..
T Consensus       164 ~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~  241 (308)
T 2ond_A          164 A-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSG  241 (308)
T ss_dssp             T-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCH
T ss_pred             C-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHH
Confidence            5 445556654444432 37999999999999887632 357888999999999999999999999999863 455  35


Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          231 VTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       231 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      ..|..++....+.|+.+.|..+++++.+.
T Consensus       242 ~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          242 EIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            67888899999999999999999988753

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.77  E-value=9e-17  Score=126.57  Aligned_cols=192  Identities=11%  Similarity=-0.012  Sum_probs=88.2

Q ss_pred             cHHHHHHHHHHHhccCCH-HHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEI-DRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF   97 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   97 (260)
                      +...+..+...+...|++ ++|.+.|++..+.. +.+..+|..+..+|...|++++|...|++..+..  |+...+..+.
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~lg  177 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHC--KNKVSLQNLS  177 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHHHH
Confidence            344444444444455555 55555554444443 3334444445555555555555555555444432  3334444444


Q ss_pred             HHHhcc---------ccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhc--------CcHHHHHHHHHHhhhcCCC---
Q 044047           98 HGLFEI---------HQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKN--------GYIVEAAELFRTLRVLKCE---  157 (260)
Q Consensus        98 ~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~---  157 (260)
                      ..+...         |++++|+..+++..+.. +.+...+..+..+|...        |++++|...|++..... +   
T Consensus       178 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~  255 (474)
T 4abn_A          178 MVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVD-RKAS  255 (474)
T ss_dssp             HHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHC-GGGG
T ss_pred             HHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhC-CCcc
Confidence            444444         45555555555444443 33344444444444444        44555555554444432 2   


Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHH
Q 044047          158 LGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHD  216 (260)
Q Consensus       158 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  216 (260)
                      .+...|..+..+|...|++++|...|++..+... .+...+..+...+...|++++|..
T Consensus       256 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~a~~~l~~~~~~lg~~~eAi~  313 (474)
T 4abn_A          256 SNPDLHLNRATLHKYEESYGEALEGFSQAAALDP-AWPEPQQREQQLLEFLSRLTSLLE  313 (474)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444445555555555555544444321 123344444444444444444443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.76  E-value=5.3e-16  Score=106.74  Aligned_cols=167  Identities=16%  Similarity=0.097  Sum_probs=115.4

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      ++.+|..+...+.+.|++++|+..|++..+.+ |.+..++..+..++.+.|++++|+..+.+....... +...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHH
Confidence            55667777777777777777777777777665 556677777777777777777777777777665333 4555666666


Q ss_pred             HHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHH
Q 044047           99 GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLET  178 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  178 (260)
                      .+...++++.+...+.+..... +.+...+..+..++...|++++|++.+++..+.. +.+..++..+..+|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            6677777777777777766654 4456666667777777777777777777766654 4556666677777777777777


Q ss_pred             HHHHHHhhhhC
Q 044047          179 AWELFQSLPRV  189 (260)
Q Consensus       179 a~~~~~~~~~~  189 (260)
                      |...|++..+.
T Consensus       160 A~~~~~~al~~  170 (184)
T 3vtx_A          160 AVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhC
Confidence            77777766653

>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=99.75  E-value=5.1e-15  Score=108.29  Aligned_cols=206  Identities=10%  Similarity=-0.012  Sum_probs=181.1

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhc----cCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHh----cCChHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCL----TGEIDRARELFVSMDINGCMHNVVTYNTLINGYCK----TKDVEE   73 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~   73 (260)
                      ++|.+.|++..+.+   ++..+..+...+..    .+++++|...|++..+.+   +...+..+...|..    .+++++
T Consensus        23 ~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~   96 (273)
T 1ouv_A           23 TQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNK   96 (273)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHH
Confidence            57889999888843   56778889999999    999999999999998876   77889999999999    999999


Q ss_pred             HHHHHHHHHhcCCCCCccchHHHHHHHhc----cccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHh----cCcHHHHH
Q 044047           74 SLNLYSEMLSKGIRPTVVTYNTLFHGLFE----IHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCK----NGYIVEAA  145 (260)
Q Consensus        74 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  145 (260)
                      |+..+++..+.+   +...+..+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|.
T Consensus        97 A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~  170 (273)
T 1ouv_A           97 ALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKAL  170 (273)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHH
Confidence            999999999874   67888889999998    999999999999998876   45677788888888    99999999


Q ss_pred             HHHHHhhhcCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHh----cCChHHHHHH
Q 044047          146 ELFRTLRVLKCELGIEAYSCLIDGLCK----IGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCN----DGQMDKAHDL  217 (260)
Q Consensus       146 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~  217 (260)
                      ..++.....+   ++..+..+...|..    .+++++|...++...+.+   +...+..+...|..    .+++++|...
T Consensus       171 ~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~~~A~~~  244 (273)
T 1ouv_A          171 ASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIEN  244 (273)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHH
T ss_pred             HHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCcccCHHHHHHH
Confidence            9999988764   56778889999999    999999999999998875   36778888999998    9999999999


Q ss_pred             HHHHHhCC
Q 044047          218 FLDMEAKG  225 (260)
Q Consensus       218 ~~~~~~~~  225 (260)
                      |++..+.|
T Consensus       245 ~~~a~~~~  252 (273)
T 1ouv_A          245 FKKGCKLG  252 (273)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHcC
Confidence            99998865

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.75  E-value=1.5e-16  Score=125.27  Aligned_cols=215  Identities=10%  Similarity=-0.044  Sum_probs=184.9

Q ss_pred             HHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCCh-HHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHH
Q 044047           36 IDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDV-EESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFD  114 (260)
Q Consensus        36 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  114 (260)
                      ++++...++...... +.+...+..+...+...|++ ++|+..|++..+.... +...|..+...|...|++++|...|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            566777777665543 55788999999999999999 9999999999987543 57889999999999999999999999


Q ss_pred             HHhhcCCCcchhhHHHHHHHHHhc---------CcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhc--------CCHH
Q 044047          115 EMQHSDVAAETSTYNTFIDGLCKN---------GYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKI--------GKLE  177 (260)
Q Consensus       115 ~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~  177 (260)
                      +..+..  |+...+..+..++...         |++++|...+++..... +.+...|..+..+|...        |+++
T Consensus       162 ~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            998875  5578899999999999         99999999999998876 66788999999999998        9999


Q ss_pred             HHHHHHHhhhhCCCC--CchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHH
Q 044047          178 TAWELFQSLPRVGLM--PNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHR  255 (260)
Q Consensus       178 ~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  255 (260)
                      +|...|++..+....  .+...|..+..+|...|++++|...|++..+.. +.+...+..+..++...|++++|.+.+.+
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            999999999886421  367889999999999999999999999998863 34567788899999999999999876654


Q ss_pred             H
Q 044047          256 M  256 (260)
Q Consensus       256 m  256 (260)
                      +
T Consensus       318 ~  318 (474)
T 4abn_A          318 T  318 (474)
T ss_dssp             C
T ss_pred             c
Confidence            4

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.75  E-value=4.3e-17  Score=121.29  Aligned_cols=241  Identities=12%  Similarity=0.006  Sum_probs=174.9

Q ss_pred             CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhc-------CCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc-----
Q 044047           17 RPNAFVYSTLIDGFCLTGEIDRARELFVSMDIN-------GCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK-----   84 (260)
Q Consensus        17 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----   84 (260)
                      +.+..++..+...+...|++++|..+++++.+.       ..+....++..+...+...|++++|...+++..+.     
T Consensus        24 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  103 (311)
T 3nf1_A           24 PARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTL  103 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence            446778899999999999999999999998763       22455678899999999999999999999998764     


Q ss_pred             -CC-CCCccchHHHHHHHhccccHHHHHHHHHHHhhc------C-CCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhc-
Q 044047           85 -GI-RPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHS------D-VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVL-  154 (260)
Q Consensus        85 -~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  154 (260)
                       +. .....++..+...+...|++++|...+++..+.      + .+.....+..+...+...|++++|...++++... 
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 223567888899999999999999999988654      2 2334567888999999999999999999988764 


Q ss_pred             -----C-CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC-------CCCc-------hhhHHHHHHHHHhcCChHHH
Q 044047          155 -----K-CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVG-------LMPN-------VVTYNIMIHGFCNDGQMDKA  214 (260)
Q Consensus       155 -----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~-------~~~~~~l~~~~~~~g~~~~a  214 (260)
                           + .+....++..+...+...|++++|...++++.+..       ..+.       ...+..+...+...+.+.++
T Consensus       184 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  263 (311)
T 3nf1_A          184 QTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEY  263 (311)
T ss_dssp             HHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHH
Confidence                 1 13345678889999999999999999999887531       1111       11222333334455666667


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          215 HDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       215 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ...+...... .+....++..+..+|...|++++|.+++++..+
T Consensus       264 ~~~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          264 GGWYKACKVD-SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             C----------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHhhcCCC-CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7777766654 234567788899999999999999999998764

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.74  E-value=1.4e-15  Score=104.65  Aligned_cols=172  Identities=15%  Similarity=0.124  Sum_probs=144.6

Q ss_pred             CchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHH
Q 044047           53 HNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFI  132 (260)
Q Consensus        53 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  132 (260)
                      .++.+|..+...+...|++++|++.|++..+..+. +..++..+..++...|++++|...+....... +.+...+..+.
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~   80 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILG   80 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHH
Confidence            46778889999999999999999999999887544 67788888999999999999999999988775 55677788888


Q ss_pred             HHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChH
Q 044047          133 DGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMD  212 (260)
Q Consensus       133 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  212 (260)
                      ..+...++++.+...+....... +.+...+..+...+...|++++|.+.+++..+... .+..+|..+..++...|+++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKP-GFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcc-hhhhHHHHHHHHHHHCCCHH
Confidence            88899999999999998888765 66788888899999999999999999999887642 35778888999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCh
Q 044047          213 KAHDLFLDMEAKGVAPNC  230 (260)
Q Consensus       213 ~a~~~~~~~~~~~~~p~~  230 (260)
                      +|...|++.++.  .|+.
T Consensus       159 ~A~~~~~~al~~--~p~~  174 (184)
T 3vtx_A          159 EAVKYFKKALEK--EEKK  174 (184)
T ss_dssp             HHHHHHHHHHHT--THHH
T ss_pred             HHHHHHHHHHhC--CccC
Confidence            999999998874  4543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.74  E-value=6.4e-17  Score=125.21  Aligned_cols=256  Identities=12%  Similarity=0.042  Sum_probs=195.6

Q ss_pred             hhHHHHHHHHHHcCCCccH----HHHHHHHHHHhccCCHHHHHHHHHHHhhc----C-CCCchhhHHHHHHHHHhcCChH
Q 044047            2 DEASRLLDLMIQRGVRPNA----FVYSTLIDGFCLTGEIDRARELFVSMDIN----G-CMHNVVTYNTLINGYCKTKDVE   72 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~   72 (260)
                      ++|++.|++..+.+.. +.    ..+..+...+...|++++|...+++..+.    + .+....++..+...+...|+++
T Consensus        65 ~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  143 (411)
T 4a1s_A           65 RAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFD  143 (411)
T ss_dssp             HHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHH
Confidence            6789999998887532 33    57888999999999999999999887653    1 1334567888999999999999


Q ss_pred             HHHHHHHHHHhcC-----CCCCccchHHHHHHHhcccc-----------------HHHHHHHHHHHhhc----C-CCcch
Q 044047           73 ESLNLYSEMLSKG-----IRPTVVTYNTLFHGLFEIHQ-----------------VEHALKLFDEMQHS----D-VAAET  125 (260)
Q Consensus        73 ~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~~~~~----~-~~~~~  125 (260)
                      +|...+++..+..     ......++..+...+...|+                 +++|...+++..+.    + .+...
T Consensus       144 ~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~  223 (411)
T 4a1s_A          144 EAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQG  223 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            9999999876541     11134577788889999999                 99999998876442    1 12234


Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCC-cC----HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC-----Cch
Q 044047          126 STYNTFIDGLCKNGYIVEAAELFRTLRVLKCE-LG----IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM-----PNV  195 (260)
Q Consensus       126 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~  195 (260)
                      .++..+...+...|++++|...+++....... .+    ...+..+...|...|++++|...+++.......     ...
T Consensus       224 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  303 (411)
T 4a1s_A          224 RACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEA  303 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            57788889999999999999999887653211 11    237788899999999999999999887653211     114


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhC----CC-CCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          196 VTYNIMIHGFCNDGQMDKAHDLFLDMEAK----GV-APNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       196 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      .++..+...+...|++++|...+++..+.    +. .....++..+..++...|++++|.+.+++..+
T Consensus       304 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          304 QSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            67888899999999999999999988753    11 11245778888999999999999999998764

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.74  E-value=5.9e-14  Score=111.20  Aligned_cols=236  Identities=12%  Similarity=0.043  Sum_probs=127.7

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhc----cCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHh----cCChHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCL----TGEIDRARELFVSMDINGCMHNVVTYNTLINGYCK----TKDVEE   73 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~   73 (260)
                      ++|.+.|+...+.|   ++..+..+...|..    .+++++|...|++..+.|   +...+..+...|..    .+++++
T Consensus        60 ~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~  133 (490)
T 2xm6_A           60 TQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAE  133 (490)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHH
Confidence            34556666655543   34455556666665    666666666666665544   44455555555555    556666


Q ss_pred             HHHHHHHHHhcCCCCCccchHHHHHHHhc----cccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHh----cCcHHHHH
Q 044047           74 SLNLYSEMLSKGIRPTVVTYNTLFHGLFE----IHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCK----NGYIVEAA  145 (260)
Q Consensus        74 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  145 (260)
                      |+..|++..+.|   +...+..+...|..    .++.++|...|++..+.+   +...+..+...|..    .+++++|.
T Consensus       134 A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~  207 (490)
T 2xm6_A          134 SVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISA  207 (490)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHH
Confidence            666666665543   34445555555554    556666666666655543   34455555555555    56666666


Q ss_pred             HHHHHhhhcCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHh----cCChHHHHHH
Q 044047          146 ELFRTLRVLKCELGIEAYSCLIDGLCK----IGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCN----DGQMDKAHDL  217 (260)
Q Consensus       146 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~  217 (260)
                      ++|+.....+   ++..+..+...|..    .+++++|..+++...+.+   +...+..+...+..    .+++++|...
T Consensus       208 ~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~  281 (490)
T 2xm6_A          208 QWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEW  281 (490)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHH
T ss_pred             HHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHH
Confidence            6666555432   33444455555543    455555555555555442   33344444444444    5555555555


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHhc-----CchhHHHHHHHHHhh
Q 044047          218 FLDMEAKGVAPNCVTFNTLMLGCIRN-----NETSKVVELLHRMDE  258 (260)
Q Consensus       218 ~~~~~~~~~~p~~~~~~~l~~~~~~~-----~~~~~a~~~~~~m~~  258 (260)
                      |++..+.|   +...+..+...|...     +++++|..++++..+
T Consensus       282 ~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~  324 (490)
T 2xm6_A          282 YRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAE  324 (490)
T ss_dssp             HHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHh
Confidence            55555432   333444444545444     555555555555443

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.73  E-value=2.2e-16  Score=118.55  Aligned_cols=256  Identities=14%  Similarity=0.090  Sum_probs=195.5

Q ss_pred             hhHHHHHHHHHHcCCCcc----HHHHHHHHHHHhccCCHHHHHHHHHHHhhc----C-CCCchhhHHHHHHHHHhcCChH
Q 044047            2 DEASRLLDLMIQRGVRPN----AFVYSTLIDGFCLTGEIDRARELFVSMDIN----G-CMHNVVTYNTLINGYCKTKDVE   72 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~   72 (260)
                      ++|.+.|++..+.+.. +    ...+..+...+...|++++|...+++....    + .+....++..+...+...|+++
T Consensus        22 ~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  100 (338)
T 3ro2_A           22 RAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFD  100 (338)
T ss_dssp             HHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHH
Confidence            6789999999887532 3    467888999999999999999999887543    2 1223567888999999999999


Q ss_pred             HHHHHHHHHHhcCCC-CC----ccchHHHHHHHhcccc--------------------HHHHHHHHHHHhhc----C-CC
Q 044047           73 ESLNLYSEMLSKGIR-PT----VVTYNTLFHGLFEIHQ--------------------VEHALKLFDEMQHS----D-VA  122 (260)
Q Consensus        73 ~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~~----~-~~  122 (260)
                      +|...+++..+.... ++    ..++..+...+...|+                    +++|...+++....    + .+
T Consensus       101 ~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~  180 (338)
T 3ro2_A          101 EAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRA  180 (338)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHH
Confidence            999999987654211 11    3377788889999999                    99999998876432    1 12


Q ss_pred             cchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCC-----CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC-Cc--
Q 044047          123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKC-----ELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM-PN--  194 (260)
Q Consensus       123 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~--  194 (260)
                      .....+..+...+...|++++|...+++......     ......+..+...+...|++++|...+++....... ++  
T Consensus       181 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  260 (338)
T 3ro2_A          181 AQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRA  260 (338)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchh
Confidence            2345778888999999999999999988764321     112337788899999999999999999887643111 11  


Q ss_pred             --hhhHHHHHHHHHhcCChHHHHHHHHHHHhC----CC-CCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          195 --VVTYNIMIHGFCNDGQMDKAHDLFLDMEAK----GV-APNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       195 --~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                        ..++..+...+...|++++|...+++..+.    +. .....++..+..++...|++++|...+++..+
T Consensus       261 ~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          261 VEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence              457788889999999999999999988653    11 11244777889999999999999999998865

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.73  E-value=3.4e-16  Score=120.77  Aligned_cols=256  Identities=14%  Similarity=0.075  Sum_probs=195.4

Q ss_pred             hhHHHHHHHHHHcCCCcc----HHHHHHHHHHHhccCCHHHHHHHHHHHhhc----CC-CCchhhHHHHHHHHHhcCChH
Q 044047            2 DEASRLLDLMIQRGVRPN----AFVYSTLIDGFCLTGEIDRARELFVSMDIN----GC-MHNVVTYNTLINGYCKTKDVE   72 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~   72 (260)
                      ++|...|++..+.+.. +    ..++..+...+...|++++|...+++....    +- +....++..+...+...|+++
T Consensus        26 ~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  104 (406)
T 3sf4_A           26 RAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFD  104 (406)
T ss_dssp             HHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHH
Confidence            6789999999887532 3    467888999999999999999999887543    21 223567888899999999999


Q ss_pred             HHHHHHHHHHhcCCC-CC----ccchHHHHHHHhcccc--------------------HHHHHHHHHHHhhc----C-CC
Q 044047           73 ESLNLYSEMLSKGIR-PT----VVTYNTLFHGLFEIHQ--------------------VEHALKLFDEMQHS----D-VA  122 (260)
Q Consensus        73 ~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~~----~-~~  122 (260)
                      +|...+++..+.... ++    ..++..+...+...|+                    +++|...+++....    + .+
T Consensus       105 ~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~  184 (406)
T 3sf4_A          105 EAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRA  184 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcH
Confidence            999999988654111 11    3477888889999999                    99999998876542    1 12


Q ss_pred             cchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCC-Cc----CHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC----CCC
Q 044047          123 AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKC-EL----GIEAYSCLIDGLCKIGKLETAWELFQSLPRVG----LMP  193 (260)
Q Consensus       123 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~  193 (260)
                      ....++..+...+...|++++|...+++...... .+    ...++..+...+...|++++|...+++.....    ..+
T Consensus       185 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  264 (406)
T 3sf4_A          185 AQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRA  264 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCch
Confidence            2345788889999999999999999988764321 11    13378888999999999999999998876431    111


Q ss_pred             -chhhHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCC-ChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          194 -NVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK----GVAP-NCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       194 -~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                       ...++..+...+...|++++|...+++..+.    +..+ ...++..+..++...|++++|.+.+++..+
T Consensus       265 ~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          265 VEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             1457888899999999999999999988753    1111 155778889999999999999999988654

>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=99.72  E-value=6.3e-17  Score=123.02  Aligned_cols=206  Identities=11%  Similarity=0.066  Sum_probs=107.2

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|++.|.+      .+|+..|..++..+...|++++|..+++...+.  .+++.+.+.++.+|.+.|+++++.++++  
T Consensus        49 ~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~--  118 (449)
T 1b89_A           49 KEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN--  118 (449)
T ss_dssp             --------------------------------------------------------------------CHHHHTTTTT--
T ss_pred             HHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc--
Confidence            456666643      357889999999999999999999988776664  4567889999999999999999998884  


Q ss_pred             HhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHH
Q 044047           82 LSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIE  161 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  161 (260)
                           .|+..+|..++..|...|.+++|..+|..+         ..|..++.++.+.|++++|.+.++++      .++.
T Consensus       119 -----~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~  178 (449)
T 1b89_A          119 -----GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTR  178 (449)
T ss_dssp             -----CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHH
T ss_pred             -----CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc------CCch
Confidence                 367789999999999999999999999976         47999999999999999999999987      3788


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 044047          162 AYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCI  241 (260)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  241 (260)
                      +|..++.+|...|+++.|......+.     .++.-...++..|.+.|++++|..+++...... +-....|+-+..+|+
T Consensus       179 ~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~  252 (449)
T 1b89_A          179 TWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYS  252 (449)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHH
Confidence            99999999999999999976655433     233345578899999999999999999988654 445677777766666


Q ss_pred             hc
Q 044047          242 RN  243 (260)
Q Consensus       242 ~~  243 (260)
                      +-
T Consensus       253 ky  254 (449)
T 1b89_A          253 KF  254 (449)
T ss_dssp             TT
T ss_pred             hc
Confidence            53

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.72  E-value=1.9e-13  Score=108.36  Aligned_cols=240  Identities=13%  Similarity=0.057  Sum_probs=119.0

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhc----cCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHh----cCChHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCL----TGEIDRARELFVSMDINGCMHNVVTYNTLINGYCK----TKDVEE   73 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~   73 (260)
                      ++|.+.|++..+.|   ++..+..+...|..    .+++++|...|++..+.|   +...+..+...|..    .+++++
T Consensus        96 ~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~  169 (490)
T 2xm6_A           96 AQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVM  169 (490)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHH
Confidence            34555566555544   34444555555555    556666666666655543   34445555555554    455666


Q ss_pred             HHHHHHHHHhcCCCCCccchHHHHHHHhc----cccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHh----cCcHHHHH
Q 044047           74 SLNLYSEMLSKGIRPTVVTYNTLFHGLFE----IHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCK----NGYIVEAA  145 (260)
Q Consensus        74 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  145 (260)
                      |++.|++..+.|   +...+..+...|..    .++.++|..+|++..+.+   +...+..+...|..    .+++++|.
T Consensus       170 A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~  243 (490)
T 2xm6_A          170 AREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSR  243 (490)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHH
Confidence            666666555542   34444455555544    455555555555554433   22333344444443    44445555


Q ss_pred             HHHHHhhhcCC---------------------------------CcCHHHHHHHHHHHHhc-----CCHHHHHHHHHhhh
Q 044047          146 ELFRTLRVLKC---------------------------------ELGIEAYSCLIDGLCKI-----GKLETAWELFQSLP  187 (260)
Q Consensus       146 ~~~~~~~~~~~---------------------------------~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~  187 (260)
                      .+++.....+.                                 .-++..+..+...|...     +++++|...++...
T Consensus       244 ~~~~~a~~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~  323 (490)
T 2xm6_A          244 VLFSQSAEQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSA  323 (490)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHH
Confidence            55444443220                                 01233344444444443     45555555555554


Q ss_pred             hCCCCCchhhHHHHHHHHHhcC---ChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh----cCchhHHHHHHHHHhhc
Q 044047          188 RVGLMPNVVTYNIMIHGFCNDG---QMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR----NNETSKVVELLHRMDER  259 (260)
Q Consensus       188 ~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~  259 (260)
                      +.+   +...+..+...|...|   ++++|.+.|++..+.|   +...+..+...|..    .+++++|.+++++..+.
T Consensus       324 ~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~  396 (490)
T 2xm6_A          324 EQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQ  396 (490)
T ss_dssp             HTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             hcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhC
Confidence            432   2334444444444433   4555555555555542   34455555555555    55666666666555443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.69  E-value=9.6e-15  Score=112.09  Aligned_cols=231  Identities=10%  Similarity=-0.012  Sum_probs=177.0

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhc----CCCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC------CccchH
Q 044047           26 LIDGFCLTGEIDRARELFVSMDIN----GCMH-NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRP------TVVTYN   94 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~   94 (260)
                      ....+...|++++|...+++..+.    +-++ ...++..+..++...|+++.|+..+++..+.-...      ...+++
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            667778899999999999998763    2111 35678999999999999999999999987642111      135678


Q ss_pred             HHHHHHhccccHHHHHHHHHHHhhcC-----CCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhc----CC-CcCHHHHH
Q 044047           95 TLFHGLFEIHQVEHALKLFDEMQHSD-----VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVL----KC-ELGIEAYS  164 (260)
Q Consensus        95 ~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~  164 (260)
                      .+...|...|++++|...+++..+..     .+....++..+..+|...|++++|...+++....    +. +....++.
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            88899999999999999999876431     1112347888999999999999999999988762    22 44467889


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhhhCC----CCCchhhHHHHHHHHHhcCC---hHHHHHHHHHHHhCCCCCChhhHHHHH
Q 044047          165 CLIDGLCKIGKLETAWELFQSLPRVG----LMPNVVTYNIMIHGFCNDGQ---MDKAHDLFLDMEAKGVAPNCVTFNTLM  237 (260)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~p~~~~~~~l~  237 (260)
                      .+...+...|++++|...+++..+..    -+.....+..+...+...|+   +++|..++++...  .+.....+..+.
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~--~~~~~~~~~~la  346 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKML--YADLEDFAIDVA  346 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcC--HHHHHHHHHHHH
Confidence            99999999999999999999876531    11122345678888888998   7777777776521  122345677889


Q ss_pred             HHHHhcCchhHHHHHHHHHhh
Q 044047          238 LGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       238 ~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ..|...|++++|...+++..+
T Consensus       347 ~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          347 KYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999998764

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.69  E-value=9.3e-15  Score=115.13  Aligned_cols=253  Identities=13%  Similarity=-0.042  Sum_probs=153.6

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHH---hccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHh----cCChHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGF---CLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCK----TKDVEES   74 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a   74 (260)
                      ++|++.|++..+.. |.++..+..+..++   ...++.++|++.+++..+.+ |.+..++..+...+..    .+++++|
T Consensus       155 ~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a  232 (472)
T 4g1t_A          155 ERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEG  232 (472)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHH
Confidence            46777777777654 23455554444443   33456666777777766654 4455555555544443    3456777


Q ss_pred             HHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhc----------------
Q 044047           75 LNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKN----------------  138 (260)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------------  138 (260)
                      .+++++....... +..++..+...+...|++++|...+++..+.. |.+..++..+..+|...                
T Consensus       233 ~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~  310 (472)
T 4g1t_A          233 EKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKR  310 (472)
T ss_dssp             HHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHC------CHH
T ss_pred             HHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            7777777665433 56667777778888888888888888877664 44555666665554321                


Q ss_pred             ---CcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCch--hhHHHHHH-HHHhcCChH
Q 044047          139 ---GYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNV--VTYNIMIH-GFCNDGQMD  212 (260)
Q Consensus       139 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~-~~~~~g~~~  212 (260)
                         +.++.|...++...... +.+...+..+...+...|++++|...|++..+....+..  ..+..+.. .....|+++
T Consensus       311 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~  389 (472)
T 4g1t_A          311 KLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCED  389 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHH
T ss_pred             HHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHH
Confidence               23455666666666554 445566778888899999999999999988876433221  12223322 234678889


Q ss_pred             HHHHHHHHHHhCC-----------------------CCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          213 KAHDLFLDMEAKG-----------------------VAPNCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       213 ~a~~~~~~~~~~~-----------------------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      +|+..|.+..+..                       -+.+..+|..+..++...|++++|++.|++..+.
T Consensus       390 ~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~  459 (472)
T 4g1t_A          390 KAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLES  459 (472)
T ss_dssp             HHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC------------
T ss_pred             HHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            9988888776531                       1345678888999999999999999999988764

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.68  E-value=1.6e-15  Score=117.41  Aligned_cols=239  Identities=14%  Similarity=0.085  Sum_probs=185.3

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCch----hhHHHHHHHHHhcCChHHHHHHHHHHHhc----C-CCCC
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNV----VTYNTLINGYCKTKDVEESLNLYSEMLSK----G-IRPT   89 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~   89 (260)
                      ....+..+...+...|++++|...|+++.+.+ +.+.    .++..+...+...|++++|+..+++..+.    + ....
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            34455667788899999999999999998875 3333    57889999999999999999999988653    1 1123


Q ss_pred             ccchHHHHHHHhccccHHHHHHHHHHHhhcC-----CCcchhhHHHHHHHHHhcCc-----------------HHHHHHH
Q 044047           90 VVTYNTLFHGLFEIHQVEHALKLFDEMQHSD-----VAAETSTYNTFIDGLCKNGY-----------------IVEAAEL  147 (260)
Q Consensus        90 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~  147 (260)
                      ..++..+...+...|++++|...+++..+..     .+....++..+...|...|+                 +++|...
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            5677888899999999999999999876531     12345578888999999999                 9999999


Q ss_pred             HHHhhhc----CC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC-Cc----hhhHHHHHHHHHhcCChHHHHHH
Q 044047          148 FRTLRVL----KC-ELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM-PN----VVTYNIMIHGFCNDGQMDKAHDL  217 (260)
Q Consensus       148 ~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~a~~~  217 (260)
                      +++....    +. +.....+..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...
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            8876542    11 223457888899999999999999999987654211 11    23788899999999999999999


Q ss_pred             HHHHHhCC--CC---CChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          218 FLDMEAKG--VA---PNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       218 ~~~~~~~~--~~---p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      +++..+..  ..   ....++..+..++...|++++|...+++..+
T Consensus       286 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  331 (411)
T 4a1s_A          286 YKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLA  331 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99887531  10   1256778889999999999999999998754

>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=99.68  E-value=7.3e-15  Score=120.44  Aligned_cols=168  Identities=19%  Similarity=0.111  Sum_probs=151.9

Q ss_pred             CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHH
Q 044047           17 RPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTL   96 (260)
Q Consensus        17 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   96 (260)
                      |-++..|+.+...+.+.|++++|+..|++..+.. +-+..+|..+..+|.+.|++++|+..|++..+.... +...|..+
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nL   83 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNM   83 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            4467899999999999999999999999998876 667899999999999999999999999999987544 67889999


Q ss_pred             HHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCH
Q 044047           97 FHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKL  176 (260)
Q Consensus        97 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  176 (260)
                      ..++...|++++|++.|++..+.. +.+...+..+..+|...|++++|+..|++..+.. +-+...+..+..++...|++
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~  161 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccH
Confidence            999999999999999999998876 6678899999999999999999999999998876 66788999999999999999


Q ss_pred             HHHHHHHHhhhh
Q 044047          177 ETAWELFQSLPR  188 (260)
Q Consensus       177 ~~a~~~~~~~~~  188 (260)
                      ++|.+.++++.+
T Consensus       162 ~~A~~~~~kal~  173 (723)
T 4gyw_A          162 TDYDERMKKLVS  173 (723)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999998887654

>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=99.67  E-value=2.7e-14  Score=97.90  Aligned_cols=165  Identities=16%  Similarity=0.097  Sum_probs=102.2

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHG   99 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   99 (260)
                      ...+..+...+...|++++|...++.+.+.. +.+..++..+...+...|++++|...++++.+... .+...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAP-DNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHH
Confidence            4456666677777777777777777766553 44566667777777777777777777777666532 245555666666


Q ss_pred             HhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHH
Q 044047          100 LFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETA  179 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  179 (260)
                      +...|++++|...++++.+.. +.+...+..+...+...|++++|...++.+.... +.+...+..+...+...|++++|
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            666666666666666665553 3445555556666666666666666666655443 33455555555566666666666


Q ss_pred             HHHHHhhhh
Q 044047          180 WELFQSLPR  188 (260)
Q Consensus       180 ~~~~~~~~~  188 (260)
                      ...++.+.+
T Consensus       164 ~~~~~~~~~  172 (186)
T 3as5_A          164 LPHFKKANE  172 (186)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666555544

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.66  E-value=6.7e-15  Score=113.47  Aligned_cols=241  Identities=12%  Similarity=0.093  Sum_probs=186.2

Q ss_pred             CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCc----hhhHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCC
Q 044047           17 RPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHN----VVTYNTLINGYCKTKDVEESLNLYSEMLSK----GIRP   88 (260)
Q Consensus        17 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~   88 (260)
                      .+....+......+...|++++|...|+++.+.+ +.+    ..++..+...+...|++++|...+++....    +..|
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            4456677888999999999999999999998874 333    357888999999999999999999987543    1111


Q ss_pred             -CccchHHHHHHHhccccHHHHHHHHHHHhhcC-----CCcchhhHHHHHHHHHhcCc--------------------HH
Q 044047           89 -TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD-----VAAETSTYNTFIDGLCKNGY--------------------IV  142 (260)
Q Consensus        89 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~--------------------~~  142 (260)
                       ...++..+...+...|++++|...+++..+..     ......++..+...+...|+                    ++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence             24567788889999999999999999876531     11124478888899999999                    99


Q ss_pred             HHHHHHHHhhhc----C-CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC-Cc----hhhHHHHHHHHHhcCChH
Q 044047          143 EAAELFRTLRVL----K-CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM-PN----VVTYNIMIHGFCNDGQMD  212 (260)
Q Consensus       143 ~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~  212 (260)
                      +|...++.....    + .+....++..+...+...|++++|...+++..+.... ++    ..++..+...+...|+++
T Consensus       165 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  244 (406)
T 3sf4_A          165 AAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFE  244 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            999998876542    1 1222457888899999999999999999887653111 11    347888999999999999


Q ss_pred             HHHHHHHHHHhC----CCCC-ChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          213 KAHDLFLDMEAK----GVAP-NCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       213 ~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      +|...+++..+.    +..+ ...++..+...+...|++++|...+++..+
T Consensus       245 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  295 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLA  295 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            999999988753    1111 156778889999999999999999988754

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.65  E-value=2e-14  Score=117.88  Aligned_cols=168  Identities=14%  Similarity=0.077  Sum_probs=150.5

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHH
Q 044047           52 MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTF  131 (260)
Q Consensus        52 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  131 (260)
                      |.+..+|+.+...+.+.|++++|++.|++..+.... +..++..+..+|.+.|++++|+..|++..+.. +.+...+..+
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nL   83 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNM   83 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            446788999999999999999999999999987544 57889999999999999999999999998876 6678899999


Q ss_pred             HHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCCh
Q 044047          132 IDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQM  211 (260)
Q Consensus       132 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  211 (260)
                      ..++...|++++|++.|++..+.. +-+...|+.+..+|...|++++|...|++..+... -+...+..+..++...|++
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            999999999999999999998876 66788999999999999999999999999988642 2578899999999999999


Q ss_pred             HHHHHHHHHHHh
Q 044047          212 DKAHDLFLDMEA  223 (260)
Q Consensus       212 ~~a~~~~~~~~~  223 (260)
                      ++|.+.++++.+
T Consensus       162 ~~A~~~~~kal~  173 (723)
T 4gyw_A          162 TDYDERMKKLVS  173 (723)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988764

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.65  E-value=1.2e-14  Score=109.09  Aligned_cols=239  Identities=12%  Similarity=0.096  Sum_probs=182.5

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCc----hhhHHHHHHHHHhcCChHHHHHHHHHHHhc----CCC-CC
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHN----VVTYNTLINGYCKTKDVEESLNLYSEMLSK----GIR-PT   89 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~   89 (260)
                      +...+......+...|++++|...|+++.+.+ +.+    ...+..+...+...|++++|...+++..+.    +.. ..
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            34556667888899999999999999998874 333    467888999999999999999999987543    111 12


Q ss_pred             ccchHHHHHHHhccccHHHHHHHHHHHhhcCC-----CcchhhHHHHHHHHHhcCc--------------------HHHH
Q 044047           90 VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDV-----AAETSTYNTFIDGLCKNGY--------------------IVEA  144 (260)
Q Consensus        90 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~--------------------~~~a  144 (260)
                      ..++..+...+...|++++|...+++..+...     .....++..+...+...|+                    +++|
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            55677888999999999999999998754311     1113477888899999999                    9999


Q ss_pred             HHHHHHhhhc----C-CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC-Cc----hhhHHHHHHHHHhcCChHHH
Q 044047          145 AELFRTLRVL----K-CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM-PN----VVTYNIMIHGFCNDGQMDKA  214 (260)
Q Consensus       145 ~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~a  214 (260)
                      ...+++....    + .+.....+..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|
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            9998876532    1 1222457788899999999999999999887653111 11    34788889999999999999


Q ss_pred             HHHHHHHHhC----CCCC-ChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          215 HDLFLDMEAK----GVAP-NCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       215 ~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ...+++..+.    +..+ ...++..+...+...|++++|...+++..+
T Consensus       243 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  291 (338)
T 3ro2_A          243 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLA  291 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            9999988753    1111 155777888999999999999999988754

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.64  E-value=3.7e-13  Score=106.01  Aligned_cols=184  Identities=9%  Similarity=-0.069  Sum_probs=105.4

Q ss_pred             hhHHHHHHHHHHc--------CCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhc-----C--CCCchhhHHHHHHHHH
Q 044047            2 DEASRLLDLMIQR--------GVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDIN-----G--CMHNVVTYNTLINGYC   66 (260)
Q Consensus         2 ~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~   66 (260)
                      ++|++.|++..+.        .-+....+|+.+..+|...|++++|...+++..+.     +  ......++.....++.
T Consensus        68 ~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~  147 (472)
T 4g1t_A           68 EAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRL  147 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHH
Confidence            5677777665432        12334678999999999999999999999887542     1  0123456666655555


Q ss_pred             hc--CChHHHHHHHHHHHhcCCCCCccchHHHHHHH---hccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHh----
Q 044047           67 KT--KDVEESLNLYSEMLSKGIRPTVVTYNTLFHGL---FEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCK----  137 (260)
Q Consensus        67 ~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----  137 (260)
                      ..  +++++|+..|++..+..+. ++..+..+..++   ...++.++|+..+++..+.+ +.+...+..+...+..    
T Consensus       148 ~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~  225 (472)
T 4g1t_A          148 KCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREE  225 (472)
T ss_dssp             HHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC--
T ss_pred             HHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhh
Confidence            54  4689999999998876432 344444443332   23344555666666555543 3344444444333332    


Q ss_pred             cCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhh
Q 044047          138 NGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPR  188 (260)
Q Consensus       138 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (260)
                      .+++++|.+.+++..... +.+...+..+...|...|++++|...++++.+
T Consensus       226 ~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  275 (472)
T 4g1t_A          226 GEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALE  275 (472)
T ss_dssp             ----CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Confidence            234455566665555443 44455555566666666666666665555544

>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=99.64  E-value=1.3e-13  Score=98.09  Aligned_cols=201  Identities=12%  Similarity=0.021  Sum_probs=157.9

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF   97 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   97 (260)
                      .++..+......+...|++++|...|+...+...+++...+..+..++...|++++|+..+++..+.... +..++..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            4678888999999999999999999999988763378888888999999999999999999999987443 677888999


Q ss_pred             HHHhccccHHHHHHHHHHHhhcCCCcch-------hhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCc--CHHHHHHHHH
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSDVAAET-------STYNTFIDGLCKNGYIVEAAELFRTLRVLKCEL--GIEAYSCLID  168 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~  168 (260)
                      ..+...|++++|+..+++..+.. |.+.       ..+..+...+...|++++|+..+++..... +.  +...+..+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~  161 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT-SKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS-CHHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC-CCcccHHHHHHHHH
Confidence            99999999999999999998865 4445       457888888999999999999999998764 44  4677888888


Q ss_pred             HHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChh
Q 044047          169 GLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCV  231 (260)
Q Consensus       169 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  231 (260)
                      +|...|     ...++.+...+. .+...|....  ....+.+++|...+++..+.  .|+..
T Consensus       162 ~~~~~~-----~~~~~~a~~~~~-~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l--~p~~~  214 (228)
T 4i17_A          162 LFYNNG-----ADVLRKATPLAS-SNKEKYASEK--AKADAAFKKAVDYLGEAVTL--SPNRT  214 (228)
T ss_dssp             HHHHHH-----HHHHHHHGGGTT-TCHHHHHHHH--HHHHHHHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHHHH-----HHHHHHHHhccc-CCHHHHHHHH--HHHHHHHHHHHHHHHHHhhc--CCCCH
Confidence            876554     344555555432 2344444333  33467789999999999985  45443

>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=99.64  E-value=7.5e-14  Score=95.65  Aligned_cols=166  Identities=11%  Similarity=0.034  Sum_probs=123.3

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHH
Q 044047           55 VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDG  134 (260)
Q Consensus        55 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  134 (260)
                      ...+..+...+...|++++|...++++.+... .+..++..+...+...|++++|...++++.+.. +.+...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            45566777778888888888888887766533 256667777778888888888888888877664 4566777777788


Q ss_pred             HHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHH
Q 044047          135 LCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKA  214 (260)
Q Consensus       135 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  214 (260)
                      +...|++++|...++.+.... +.+...+..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            888888888888888777654 5566777777788888888888888888777654 23466777777778888888888


Q ss_pred             HHHHHHHHhC
Q 044047          215 HDLFLDMEAK  224 (260)
Q Consensus       215 ~~~~~~~~~~  224 (260)
                      ...++++.+.
T Consensus       164 ~~~~~~~~~~  173 (186)
T 3as5_A          164 LPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            8888777653

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.63  E-value=1.9e-13  Score=104.69  Aligned_cols=232  Identities=10%  Similarity=-0.017  Sum_probs=175.4

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHhhcC--C---CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-C-----Cccc
Q 044047           24 STLIDGFCLTGEIDRARELFVSMDING--C---MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIR-P-----TVVT   92 (260)
Q Consensus        24 ~~l~~~~~~~~~~~~a~~~~~~~~~~~--~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-----~~~~   92 (260)
                      ......+...|++++|...|++..+..  .   +....++..+...|...|+++.|+..+++..+.... +     ...+
T Consensus       105 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  184 (378)
T 3q15_A          105 FFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQS  184 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHH
T ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHH
Confidence            345566778999999999999986541  1   123567888999999999999999999988753111 1     2456


Q ss_pred             hHHHHHHHhccccHHHHHHHHHHHhhc----CCC-cchhhHHHHHHHHHhcCcHHHHHHHHHHhhh-----cCCCcCHHH
Q 044047           93 YNTLFHGLFEIHQVEHALKLFDEMQHS----DVA-AETSTYNTFIDGLCKNGYIVEAAELFRTLRV-----LKCELGIEA  162 (260)
Q Consensus        93 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  162 (260)
                      ++.+...|...|++++|...+++..+.    +.+ ....++..+..+|...|++++|...+++...     .. +....+
T Consensus       185 ~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~  263 (378)
T 3q15_A          185 LFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKV  263 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHH
Confidence            778899999999999999999987653    111 2245778899999999999999999998876     43 334778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhCCC----CCchhhHHHHHHHHHhcCC---hHHHHHHHHHHHhCCCCCChhhHHH
Q 044047          163 YSCLIDGLCKIGKLETAWELFQSLPRVGL----MPNVVTYNIMIHGFCNDGQ---MDKAHDLFLDMEAKGVAPNCVTFNT  235 (260)
Q Consensus       163 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~p~~~~~~~  235 (260)
                      +..+...+.+.|++++|...+++..+...    +.....+..+...+...++   +.+|...+++...  .+.....+..
T Consensus       264 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~--~~~~~~~~~~  341 (378)
T 3q15_A          264 LFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNL--HAYIEACARS  341 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTC--HHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCC--hhHHHHHHHH
Confidence            89999999999999999999998876421    1123456666677777888   7777777766221  1223456678


Q ss_pred             HHHHHHhcCchhHHHHHHHHHhh
Q 044047          236 LMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       236 l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      +...|...|++++|...+++..+
T Consensus       342 la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          342 AAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            88999999999999999998764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.62  E-value=6.3e-13  Score=106.32  Aligned_cols=217  Identities=11%  Similarity=0.019  Sum_probs=165.9

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHHHhc-------cCCHH-------HHHHHHHHHhhcCCCCchhhHHHHHHHHHhc
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCL-------TGEID-------RARELFVSMDINGCMHNVVTYNTLINGYCKT   68 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   68 (260)
                      +|..+|++..... +.++..|..++..+.+       .|+++       +|..+|+...+.-.|.+...|..++..+.+.
T Consensus       256 ~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~  334 (530)
T 2ooe_A          256 RVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  334 (530)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            4566777777763 4577888888888775       68876       8999999888632255788899999999999


Q ss_pred             CChHHHHHHHHHHHhcCCCCCc--cchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHH-HHhcCcHHHHH
Q 044047           69 KDVEESLNLYSEMLSKGIRPTV--VTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDG-LCKNGYIVEAA  145 (260)
Q Consensus        69 ~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~  145 (260)
                      |++++|..+|+++.+.  .|+.  ..|..++..+.+.|+.++|..+|++..+.. +.+...+...+.. +...|++++|.
T Consensus       335 g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~  411 (530)
T 2ooe_A          335 MKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  411 (530)
T ss_dssp             TCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHH
T ss_pred             CCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHH
Confidence            9999999999999885  3432  478888888888999999999999988753 3333333332222 34589999999


Q ss_pred             HHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCC-CCc--hhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047          146 ELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGL-MPN--VVTYNIMIHGFCNDGQMDKAHDLFLDME  222 (260)
Q Consensus       146 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~  222 (260)
                      .+|+...+.. +.++..|..++..+.+.|+.++|..+|++....+. .|+  ...|...+......|+.+.+..++.++.
T Consensus       412 ~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~  490 (530)
T 2ooe_A          412 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  490 (530)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999887764 55688888899999999999999999999887642 222  3477777887888899999999998887


Q ss_pred             hC
Q 044047          223 AK  224 (260)
Q Consensus       223 ~~  224 (260)
                      +.
T Consensus       491 ~~  492 (530)
T 2ooe_A          491 TA  492 (530)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

>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=99.62  E-value=2.5e-13  Score=96.63  Aligned_cols=194  Identities=14%  Similarity=0.026  Sum_probs=153.5

Q ss_pred             CchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHH
Q 044047           53 HNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFI  132 (260)
Q Consensus        53 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  132 (260)
                      .++..+......+...|++++|+..|++..+....++...+..+..++...|++++|+..+++..+.. +.+...+..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            46688889999999999999999999999987654677788889999999999999999999998876 55778899999


Q ss_pred             HHHHhcCcHHHHHHHHHHhhhcCCCcCH-------HHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc---hhhHHHHH
Q 044047          133 DGLCKNGYIVEAAELFRTLRVLKCELGI-------EAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPN---VVTYNIMI  202 (260)
Q Consensus       133 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~  202 (260)
                      .++...|++++|...+++..... +.+.       ..|..+...+...|++++|...++++.+.  .|+   ...+..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            99999999999999999998765 4455       55888888999999999999999999886  344   46777777


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          203 HGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       203 ~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      .++...|     ...++++...+ ..+...+....  ....+.+++|...+++..+
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~  208 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVT  208 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhh
Confidence            7776554     34455555542 22344444333  3445678888888887765

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.62  E-value=7.7e-13  Score=101.08  Aligned_cols=257  Identities=11%  Similarity=0.021  Sum_probs=182.5

Q ss_pred             hhHHHHHHHHHHcCCCccH----HHHHHHHHHHhccCCHHHHHHHHHHHhhcCC---CC--chhhHHHHHHHHHhcCChH
Q 044047            2 DEASRLLDLMIQRGVRPNA----FVYSTLIDGFCLTGEIDRARELFVSMDINGC---MH--NVVTYNTLINGYCKTKDVE   72 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~   72 (260)
                      ++|.+.+++........+.    ..++.+...+...|++++|...+++......   .+  ...++..+...+...|+++
T Consensus        31 ~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~  110 (373)
T 1hz4_A           31 DEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQ  110 (373)
T ss_dssp             HHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHH
Confidence            5678888887775422222    2566777888899999999999998765310   11  1234667788899999999


Q ss_pred             HHHHHHHHHHhc----CCC--C-CccchHHHHHHHhccccHHHHHHHHHHHhhcCCC----cchhhHHHHHHHHHhcCcH
Q 044047           73 ESLNLYSEMLSK----GIR--P-TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA----AETSTYNTFIDGLCKNGYI  141 (260)
Q Consensus        73 ~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~  141 (260)
                      +|...+++..+.    +..  | ....+..+...+...|++++|...+++.......    .....+..+...+...|++
T Consensus       111 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~  190 (373)
T 1hz4_A          111 TAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDL  190 (373)
T ss_dssp             HHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCH
Confidence            999999988653    221  2 2345566788889999999999999987654211    1234677888889999999


Q ss_pred             HHHHHHHHHhhhcCCCcC--HHHHH----HHHHHHHhcCCHHHHHHHHHhhhhCCCCCc---hhhHHHHHHHHHhcCChH
Q 044047          142 VEAAELFRTLRVLKCELG--IEAYS----CLIDGLCKIGKLETAWELFQSLPRVGLMPN---VVTYNIMIHGFCNDGQMD  212 (260)
Q Consensus       142 ~~a~~~~~~~~~~~~~~~--~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~  212 (260)
                      ++|...+++.......++  .....    ..+..+...|++++|...++........++   ...+..+...+...|+++
T Consensus       191 ~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~  270 (373)
T 1hz4_A          191 DNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFE  270 (373)
T ss_dssp             HHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHH
Confidence            999999998765421211  12111    233457799999999999998876432211   235667788899999999


Q ss_pred             HHHHHHHHHHhC----CCCCCh-hhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          213 KAHDLFLDMEAK----GVAPNC-VTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       213 ~a~~~~~~~~~~----~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      +|...+++....    |..++. ..+..+..++...|+.++|...+++..+
T Consensus       271 ~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          271 PAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            999999988643    222222 3666777889999999999999988654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.61  E-value=9.6e-15  Score=108.56  Aligned_cols=221  Identities=13%  Similarity=0.007  Sum_probs=156.5

Q ss_pred             hhHHHHHHHHHHc-------CCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhc------C-CCCchhhHHHHHHHHHh
Q 044047            2 DEASRLLDLMIQR-------GVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDIN------G-CMHNVVTYNTLINGYCK   67 (260)
Q Consensus         2 ~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~   67 (260)
                      ++|..+++++.+.       ..+....++..+...+...|++++|...++++...      + .+....++..+...+..
T Consensus        44 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~  123 (311)
T 3nf1_A           44 EVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGK  123 (311)
T ss_dssp             HHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHH
Confidence            5677888777763       33456778999999999999999999999988654      2 23456788899999999


Q ss_pred             cCChHHHHHHHHHHHhc------CCCC-CccchHHHHHHHhccccHHHHHHHHHHHhhc------C-CCcchhhHHHHHH
Q 044047           68 TKDVEESLNLYSEMLSK------GIRP-TVVTYNTLFHGLFEIHQVEHALKLFDEMQHS------D-VAAETSTYNTFID  133 (260)
Q Consensus        68 ~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~  133 (260)
                      .|++++|...+++..+.      +..| ...++..+...+...|++++|..++++..+.      + .+....++..+..
T Consensus       124 ~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~  203 (311)
T 3nf1_A          124 RGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLAS  203 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            99999999999998764      2222 3456788889999999999999999998664      1 2334567888999


Q ss_pred             HHHhcCcHHHHHHHHHHhhhcC-------CCcC-------HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHH
Q 044047          134 GLCKNGYIVEAAELFRTLRVLK-------CELG-------IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYN  199 (260)
Q Consensus       134 ~~~~~~~~~~a~~~~~~~~~~~-------~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  199 (260)
                      ++...|++++|...++++....       ..+.       ...+......+...+.+.++...+....... +.+..++.
T Consensus       204 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~  282 (311)
T 3nf1_A          204 CYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDS-PTVTTTLK  282 (311)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------C-HHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCC-chHHHHHH
Confidence            9999999999999999887531       1111       1122333334445556666666666665532 23467888


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHh
Q 044047          200 IMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       200 ~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      .+..+|...|++++|...+++..+
T Consensus       283 ~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          283 NLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999999998876

>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=99.61  E-value=3.2e-14  Score=104.18  Aligned_cols=226  Identities=12%  Similarity=-0.017  Sum_probs=141.4

Q ss_pred             ccCCHHHHHHHHHHHhh-------cCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc------CCC-CCccchHHHH
Q 044047           32 LTGEIDRARELFVSMDI-------NGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK------GIR-PTVVTYNTLF   97 (260)
Q Consensus        32 ~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~-~~~~~~~~l~   97 (260)
                      ..|++++|...+++..+       .+.+....++..+...+...|++++|+..+++..+.      +-. ....++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            44555555555555433       222334566777778888888888888888777654      111 2345677777


Q ss_pred             HHHhccccHHHHHHHHHHHhhc------C-CCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhc------C-CCcCHHHH
Q 044047           98 HGLFEIHQVEHALKLFDEMQHS------D-VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVL------K-CELGIEAY  163 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~  163 (260)
                      ..+...|++++|...+++....      . .+....++..+...+...|++++|...+++....      + .+....++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            7888888888888888776543      1 1334567777888888888888888888877654      1 12335577


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhhhC-------CCCCc-hhhHHHHHHHHHhcCChHHHHH------HHHHHHhCCCCCC
Q 044047          164 SCLIDGLCKIGKLETAWELFQSLPRV-------GLMPN-VVTYNIMIHGFCNDGQMDKAHD------LFLDMEAKGVAPN  229 (260)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~-~~~~~~l~~~~~~~g~~~~a~~------~~~~~~~~~~~p~  229 (260)
                      ..+...+...|++++|...++++.+.       ...+. ...+..+.......+....+..      .+..... ..+..
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~  251 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPTV  251 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHHH
Confidence            78888888888888888888877653       11122 2334444434333333322222      2221111 11223


Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          230 CVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       230 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ..++..+..+|...|++++|..++++..+
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            45677888999999999999999988765

>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=99.61  E-value=1.9e-14  Score=105.34  Aligned_cols=221  Identities=13%  Similarity=-0.007  Sum_probs=154.7

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhc------C-CCCchhhHHHHHHHHHhcCChHHHH
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDIN------G-CMHNVVTYNTLINGYCKTKDVEESL   75 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~   75 (260)
                      +|+++++.......+....++..+...+...|++++|...++++.+.      + .+....++..+..++...|++++|.
T Consensus        26 ~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  105 (283)
T 3edt_B           26 QALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAE  105 (283)
T ss_dssp             HHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHH
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHH
Confidence            34444444443343456788999999999999999999999988654      2 1335678899999999999999999


Q ss_pred             HHHHHHHhcC-----C--CCCccchHHHHHHHhccccHHHHHHHHHHHhhc------C-CCcchhhHHHHHHHHHhcCcH
Q 044047           76 NLYSEMLSKG-----I--RPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHS------D-VAAETSTYNTFIDGLCKNGYI  141 (260)
Q Consensus        76 ~~~~~~~~~~-----~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~  141 (260)
                      ..+++..+..     .  +....++..+...+...|++++|...+++..+.      + .+....++..+..++...|++
T Consensus       106 ~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  185 (283)
T 3edt_B          106 PLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKY  185 (283)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCH
Confidence            9999987641     1  223567888999999999999999999998764      1 233466788899999999999


Q ss_pred             HHHHHHHHHhhhcC-------C-CcCHHHHHHHHHHHHhcCC------HHHHHHHHHhhhhCCCCCchhhHHHHHHHHHh
Q 044047          142 VEAAELFRTLRVLK-------C-ELGIEAYSCLIDGLCKIGK------LETAWELFQSLPRVGLMPNVVTYNIMIHGFCN  207 (260)
Q Consensus       142 ~~a~~~~~~~~~~~-------~-~~~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  207 (260)
                      ++|...+++.....       . ......+..+...+...+.      +..+...++..... .+....++..+...|..
T Consensus       186 ~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~la~~~~~  264 (283)
T 3edt_B          186 QDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVD-SPTVNTTLRSLGALYRR  264 (283)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCC-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHH
Confidence            99999999887531       1 1122233334444433333      23333333333221 12235678889999999


Q ss_pred             cCChHHHHHHHHHHHhC
Q 044047          208 DGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       208 ~g~~~~a~~~~~~~~~~  224 (260)
                      .|++++|..++++..+.
T Consensus       265 ~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          265 QGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             TTCHHHHHHHHHHHHTT
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            99999999999988763

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.61  E-value=1.4e-13  Score=101.62  Aligned_cols=234  Identities=10%  Similarity=0.030  Sum_probs=140.2

Q ss_pred             ChhHHHHHHHHHHcCCCccHHHHHHHHHHHhc--cCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHH
Q 044047            1 MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCL--TGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLY   78 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   78 (260)
                      +.+|.+++.+..+. .+++...| .++   ..  .+++++|...|+..               ...|...|++++|...|
T Consensus         1 ~~~a~~~~~~a~k~-~~~~~~~~-~~~---~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~   60 (292)
T 1qqe_A            1 ISDPVELLKRAEKK-GVPSSGFM-KLF---SGSDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDSF   60 (292)
T ss_dssp             CCCHHHHHHHHHHH-SSCCCTHH-HHH---SCCSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHH
T ss_pred             CCcHHHHHHHHHHH-hCcCCCcc-hhc---CCCCCccHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHH
Confidence            45778888877776 23322222 221   11  12477777777665               33456677778777777


Q ss_pred             HHHHhc----CCCCC-ccchHHHHHHHhccccHHHHHHHHHHHhhcCC---Cc--chhhHHHHHHHHHhc-CcHHHHHHH
Q 044047           79 SEMLSK----GIRPT-VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDV---AA--ETSTYNTFIDGLCKN-GYIVEAAEL  147 (260)
Q Consensus        79 ~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~-~~~~~a~~~  147 (260)
                      .+..+.    |..+. ..+|+.+..+|...|++++|+..+++..+...   .+  ...++..+..+|... |++++|+..
T Consensus        61 ~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~  140 (292)
T 1qqe_A           61 LKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDC  140 (292)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHH
Confidence            776543    21111 45677777777777888888777777654210   11  134667777777775 888888888


Q ss_pred             HHHhhhcCCCc-C----HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCch------hhHHHHHHHHHhcCChHHHHH
Q 044047          148 FRTLRVLKCEL-G----IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNV------VTYNIMIHGFCNDGQMDKAHD  216 (260)
Q Consensus       148 ~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~a~~  216 (260)
                      +++........ +    ..++..+...+...|++++|...+++..........      ..|..+..++...|++++|..
T Consensus       141 ~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~  220 (292)
T 1qqe_A          141 YELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAAR  220 (292)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            87766432111 1    345677777888888888888888877765432211      145666777777888888888


Q ss_pred             HHHHHHhCCCCCCh------hhHHHHHHHHH--hcCchhHHHHHHHHH
Q 044047          217 LFLDMEAKGVAPNC------VTFNTLMLGCI--RNNETSKVVELLHRM  256 (260)
Q Consensus       217 ~~~~~~~~~~~p~~------~~~~~l~~~~~--~~~~~~~a~~~~~~m  256 (260)
                      .|++..+.  .|+.      ..+..++.++.  ..+++++|+..|+++
T Consensus       221 ~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~  266 (292)
T 1qqe_A          221 TLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (292)
T ss_dssp             HHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccC
Confidence            88777653  2321      12334455553  345577777766554

>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=1.7e-12  Score=103.88  Aligned_cols=218  Identities=10%  Similarity=0.051  Sum_probs=172.6

Q ss_pred             HHHHHHHHHHhhcCCCCchhhHHHHHHHHHh-------cCChH-------HHHHHHHHHHhcCCCCCccchHHHHHHHhc
Q 044047           37 DRARELFVSMDINGCMHNVVTYNTLINGYCK-------TKDVE-------ESLNLYSEMLSKGIRPTVVTYNTLFHGLFE  102 (260)
Q Consensus        37 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  102 (260)
                      +++..+|+++.... |.+...|..++..+..       .|+++       +|..++++..+.-.+.+...|..++..+.+
T Consensus       255 ~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~  333 (530)
T 2ooe_A          255 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  333 (530)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            46778888887764 6678899999888876       79987       899999999863123357788899999999


Q ss_pred             cccHHHHHHHHHHHhhcCCCcch-hhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHH-HHhcCCHHHHH
Q 044047          103 IHQVEHALKLFDEMQHSDVAAET-STYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDG-LCKIGKLETAW  180 (260)
Q Consensus       103 ~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~  180 (260)
                      .|++++|..+|+++.+.. +.+. ..|..++..+.+.|++++|..+|+...... +.+...+...+.. +...|+.++|.
T Consensus       334 ~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~  411 (530)
T 2ooe_A          334 RMKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  411 (530)
T ss_dssp             TTCHHHHHHHHHHHHHSS-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHH
T ss_pred             cCCHHHHHHHHHHHhCcc-ccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHH
Confidence            999999999999998853 2233 588899999999999999999999998764 3334444333322 34689999999


Q ss_pred             HHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCCC--hhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          181 ELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKG-VAPN--CVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      .+|+...+.. +.+...|..++..+.+.|+.++|..+|++....+ ..|+  ...|...+......|+.+.+..+.+++.
T Consensus       412 ~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~  490 (530)
T 2ooe_A          412 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  490 (530)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999988763 2357889999999999999999999999999863 2332  3477777888888999999999998876


Q ss_pred             h
Q 044047          258 E  258 (260)
Q Consensus       258 ~  258 (260)
                      +
T Consensus       491 ~  491 (530)
T 2ooe_A          491 T  491 (530)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.59  E-value=2.3e-12  Score=109.76  Aligned_cols=204  Identities=11%  Similarity=0.137  Sum_probs=142.9

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      ++.+|..+..++...|++++|.+.|.+.      .|...|..++.++.+.|++++|.+.+...++..  +++...+.++.
T Consensus      1104 ~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~Laf 1175 (1630)
T 1xi4_A         1104 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIF 1175 (1630)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHH
Confidence            4667778888888888888888887553      366777778888888888888888887776653  33334445777


Q ss_pred             HHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHH
Q 044047           99 GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLET  178 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  178 (260)
                      +|++.+++++...+.    +   .++...+..+...|...|++++|..+|...         ..|..++..+.+.|+++.
T Consensus      1176 aYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~ 1239 (1630)
T 1xi4_A         1176 ALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQA 1239 (1630)
T ss_pred             HHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHH
Confidence            788887777533332    1   334556667888888888888888888764         367788888888888888


Q ss_pred             HHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          179 AWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       179 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      |.+.+++..      +..+|..+..+|...|++..|......     +..++..+..++..|.+.|.+++|+.+++...
T Consensus      1240 AIEaarKA~------n~~aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL 1307 (1630)
T 1xi4_A         1240 AVDGARKAN------STRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAAL 1307 (1630)
T ss_pred             HHHHHHHhC------CHHHHHHHHHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            888887663      446666666666666666666665443     22355566677777777788877777776553

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.59  E-value=1.9e-13  Score=104.90  Aligned_cols=219  Identities=11%  Similarity=0.033  Sum_probs=168.5

Q ss_pred             hhHHHHHHHHHHc----CCCc-cHHHHHHHHHHHhccCCHHHHHHHHHHHhhc----C--CCCchhhHHHHHHHHHhcCC
Q 044047            2 DEASRLLDLMIQR----GVRP-NAFVYSTLIDGFCLTGEIDRARELFVSMDIN----G--CMHNVVTYNTLINGYCKTKD   70 (260)
Q Consensus         2 ~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~--~~~~~~~~~~l~~~~~~~~~   70 (260)
                      ++|.+.+++..+.    +-++ ...++..+...+...|++++|...+++..+.    +  .+....+++.+..+|...|+
T Consensus       120 ~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~  199 (383)
T 3ulq_A          120 LSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQ  199 (383)
T ss_dssp             HHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcC
Confidence            5788888888764    2122 4578899999999999999999999988653    1  11234578889999999999


Q ss_pred             hHHHHHHHHHHHhcCCCC-C----ccchHHHHHHHhccccHHHHHHHHHHHhh-----cCCCcchhhHHHHHHHHHhcCc
Q 044047           71 VEESLNLYSEMLSKGIRP-T----VVTYNTLFHGLFEIHQVEHALKLFDEMQH-----SDVAAETSTYNTFIDGLCKNGY  140 (260)
Q Consensus        71 ~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~  140 (260)
                      +++|+..+++..+..... +    ..++..+...|...|++++|...+++..+     ...+....++..+..++...|+
T Consensus       200 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~  279 (383)
T 3ulq_A          200 YEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGK  279 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCC
Confidence            999999999887542111 1    24788899999999999999999999876     2224456778899999999999


Q ss_pred             HHHHHHHHHHhhhcC----CCcCHHHHHHHHHHHHhcCC---HHHHHHHHHhhhhCCCCCc-hhhHHHHHHHHHhcCChH
Q 044047          141 IVEAAELFRTLRVLK----CELGIEAYSCLIDGLCKIGK---LETAWELFQSLPRVGLMPN-VVTYNIMIHGFCNDGQMD  212 (260)
Q Consensus       141 ~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~  212 (260)
                      +++|...+++.....    .+.....+..+...+...|+   +++|..+++....   .|+ ...+..+...|...|+++
T Consensus       280 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~---~~~~~~~~~~la~~y~~~g~~~  356 (383)
T 3ulq_A          280 IDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKML---YADLEDFAIDVAKYYHERKNFQ  356 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcC---HHHHHHHHHHHHHHHHHCCCHH
Confidence            999999999876432    12223346778888889999   7778777776632   233 457788999999999999


Q ss_pred             HHHHHHHHHHh
Q 044047          213 KAHDLFLDMEA  223 (260)
Q Consensus       213 ~a~~~~~~~~~  223 (260)
                      +|...+++..+
T Consensus       357 ~A~~~~~~al~  367 (383)
T 3ulq_A          357 KASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998865

>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=1.1e-11  Score=94.74  Aligned_cols=237  Identities=12%  Similarity=-0.015  Sum_probs=169.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCch----hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-CC----ccc
Q 044047           22 VYSTLIDGFCLTGEIDRARELFVSMDINGCMHNV----VTYNTLINGYCKTKDVEESLNLYSEMLSKGIR-PT----VVT   92 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~   92 (260)
                      ........+...|++++|...+++........+.    .+++.+...+...|++++|...+++....... .+    ..+
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            3444556677899999999999998765412222    24667778888999999999999988753211 11    223


Q ss_pred             hHHHHHHHhccccHHHHHHHHHHHhhc----CCC--c-chhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCC----cCHH
Q 044047           93 YNTLFHGLFEIHQVEHALKLFDEMQHS----DVA--A-ETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCE----LGIE  161 (260)
Q Consensus        93 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~  161 (260)
                      +..+...+...|++++|...+++....    +.+  | ....+..+...+...|++++|...+++.......    ....
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            566778889999999999999987543    211  2 3445667888899999999999999987654311    1345


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCch-hhHH-----HHHHHHHhcCChHHHHHHHHHHHhCCCCC---Chhh
Q 044047          162 AYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNV-VTYN-----IMIHGFCNDGQMDKAHDLFLDMEAKGVAP---NCVT  232 (260)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~-----~l~~~~~~~g~~~~a~~~~~~~~~~~~~p---~~~~  232 (260)
                      .+..+...+...|++++|...+++.......++. ..+.     ..+..+...|++++|...+++.......+   ....
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            6788889999999999999999987654211111 1122     23344778999999999999887643211   1234


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          233 FNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       233 ~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      +..+...+...|++++|...+++..+
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~  281 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNE  281 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            56778899999999999999988653

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.51  E-value=3e-12  Score=92.92  Aligned_cols=212  Identities=11%  Similarity=-0.008  Sum_probs=140.1

Q ss_pred             CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCc---hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-C-Ccc
Q 044047           17 RPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHN---VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIR-P-TVV   91 (260)
Q Consensus        17 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~   91 (260)
                      +.++..+..+...+.+.|++++|...|+.+.+.. |.+   ...+..+..++...|++++|+..|++..+..+. | ...
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            3456777778888999999999999999998764 334   677888889999999999999999999886332 1 234


Q ss_pred             chHHHHHHHhc--------cccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHH
Q 044047           92 TYNTLFHGLFE--------IHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAY  163 (260)
Q Consensus        92 ~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  163 (260)
                      .+..+..++..        .|++++|+..|+++.+.. |.+......+....              .+..    .-...+
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~~~--------------~~~~----~~~~~~  151 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY-PNHELVDDATQKIR--------------ELRA----KLARKQ  151 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC-TTCTTHHHHHHHHH--------------HHHH----HHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC-cCchhHHHHHHHHH--------------HHHH----HHHHHH
Confidence            56667777777        899999999999988764 33333332221110              0000    001124


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhhhCCCCC--chhhHHHHHHHHHhc----------CChHHHHHHHHHHHhCCCCCCh-
Q 044047          164 SCLIDGLCKIGKLETAWELFQSLPRVGLMP--NVVTYNIMIHGFCND----------GQMDKAHDLFLDMEAKGVAPNC-  230 (260)
Q Consensus       164 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~p~~-  230 (260)
                      ..+...|...|++++|...|+.+.+.....  ....+..+..++...          |++++|...|+++.+.  .|+. 
T Consensus       152 ~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~  229 (261)
T 3qky_A          152 YEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI--FPDSP  229 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH--CTTCT
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH--CCCCh
Confidence            556777778888888888888777653211  234666677777655          7778888888888764  3333 


Q ss_pred             ---hhHHHHHHHHHhcCchhHHH
Q 044047          231 ---VTFNTLMLGCIRNNETSKVV  250 (260)
Q Consensus       231 ---~~~~~l~~~~~~~~~~~~a~  250 (260)
                         .....+...+...++++++.
T Consensus       230 ~~~~a~~~l~~~~~~~~~~~~~~  252 (261)
T 3qky_A          230 LLRTAEELYTRARQRLTELEGDA  252 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCT
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhh
Confidence               33444555555555555443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.51  E-value=4.1e-12  Score=88.99  Aligned_cols=188  Identities=9%  Similarity=-0.017  Sum_probs=88.5

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHG   99 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   99 (260)
                      +..+......+...|++++|...|++..+.+ |.+...|...     .....              ..........+..+
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~-----~~~~~--------------~~~~~~~~~~lg~~   63 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIALN-IDRTEMYYWT-----NVDKN--------------SEISSKLATELALA   63 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-HHHHHHHHHH-----HSCTT--------------SHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHh-----hhcch--------------hhhhHHHHHHHHHH
Confidence            3444455666778888888888888887764 3344444440     00000              00001111224445


Q ss_pred             HhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCC--HH
Q 044047          100 LFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGK--LE  177 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~  177 (260)
                      +.+.|++++|+..|++..+.. |.+...+..+..++...|++++|...|++..... |.+...+..+...|...|+  .+
T Consensus        64 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~  141 (208)
T 3urz_A           64 YKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKK  141 (208)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHH
Confidence            555555555555555555443 3344555555555555555555555555555443 3344455555554443332  22


Q ss_pred             HHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhH
Q 044047          178 TAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTF  233 (260)
Q Consensus       178 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  233 (260)
                      .+...++....  ..|....+.....++...|++++|...|++..+.  .|+....
T Consensus       142 ~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~  193 (208)
T 3urz_A          142 KLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQ  193 (208)
T ss_dssp             HHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHH
T ss_pred             HHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHH
Confidence            23333333321  1122222333344444455566666666655552  4444433

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.51  E-value=8.7e-12  Score=97.69  Aligned_cols=188  Identities=13%  Similarity=0.062  Sum_probs=117.4

Q ss_pred             hHHHHHHHHHhcC---ChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcc----ccHHHHHHHHHHHhhcCCCcchhhHH
Q 044047           57 TYNTLINGYCKTK---DVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEI----HQVEHALKLFDEMQHSDVAAETSTYN  129 (260)
Q Consensus        57 ~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~  129 (260)
                      .+..+...|...|   +.++|++.|++..+.|.. +...+..+...|...    ++.++|+.+|++.. .   .+...+.
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~~  252 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPASWV  252 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHHH
Confidence            5666666666666   677777777777666533 444445555555544    56777777777765 2   3344555


Q ss_pred             HHHHH-H--HhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcC-----CHHHHHHHHHhhhhCCCCCchhhHHHH
Q 044047          130 TFIDG-L--CKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIG-----KLETAWELFQSLPRVGLMPNVVTYNIM  201 (260)
Q Consensus       130 ~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l  201 (260)
                      .+... +  ...+++++|..+|++....+   ++..+..+...|. .|     ++++|...|++.. .|   +...+..+
T Consensus       253 ~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~L  324 (452)
T 3e4b_A          253 SLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAADYYL  324 (452)
T ss_dssp             HHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHH
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHH
Confidence            55555 3  45677777777777766554   5556666666665 44     7777777777766 32   55666666


Q ss_pred             HHHHHh----cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh----cCchhHHHHHHHHHhhcC
Q 044047          202 IHGFCN----DGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIR----NNETSKVVELLHRMDERN  260 (260)
Q Consensus       202 ~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~  260 (260)
                      ...|..    ..++++|...|++..+.|   +......|...|..    ..+.++|..+++...+.|
T Consensus       325 g~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g  388 (452)
T 3e4b_A          325 GQIYRRGYLGKVYPQKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQD  388 (452)
T ss_dssp             HHHHHTTTTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHCCCCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCC
Confidence            666655    337777777777777655   33445556666653    346777777777766554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.50  E-value=7.4e-11  Score=92.42  Aligned_cols=188  Identities=12%  Similarity=0.022  Sum_probs=104.2

Q ss_pred             HHHHHHHHHhccC---CHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhc----CChHHHHHHHHHHHhcCCCCCccchH
Q 044047           22 VYSTLIDGFCLTG---EIDRARELFVSMDINGCMHNVVTYNTLINGYCKT----KDVEESLNLYSEMLSKGIRPTVVTYN   94 (260)
Q Consensus        22 ~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~   94 (260)
                      .+..+...|...|   +.++|...|+...+.| +++...+..+...|...    +++++|+.+|++.. .   -+...+.
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~~  252 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPASWV  252 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHHH
Confidence            4555566666666   6666666666666655 44444445555555443    46666666666655 2   2344444


Q ss_pred             HHHHH-H--hccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcC-----cHHHHHHHHHHhhhcCCCcCHHHHHHH
Q 044047           95 TLFHG-L--FEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNG-----YIVEAAELFRTLRVLKCELGIEAYSCL  166 (260)
Q Consensus        95 ~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l  166 (260)
                      .+... +  ...+++++|+.+|++..+.|   +...+..+...|. .|     ++++|..+|++..    +-++..+..+
T Consensus       253 ~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa----~g~~~A~~~L  324 (452)
T 3e4b_A          253 SLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV----GREVAADYYL  324 (452)
T ss_dssp             HHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT----TTCHHHHHHH
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh----CCCHHHHHHH
Confidence            55544 3  34566666666666666554   3344555555554 33     6666666666555    2244555555


Q ss_pred             HHHHHh----cCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHh----cCChHHHHHHHHHHHhCC
Q 044047          167 IDGLCK----IGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCN----DGQMDKAHDLFLDMEAKG  225 (260)
Q Consensus       167 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  225 (260)
                      ...|..    ..+.++|...|+...+.|   +......|...|..    ..++++|..+|+...+.|
T Consensus       325 g~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g  388 (452)
T 3e4b_A          325 GQIYRRGYLGKVYPQKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQD  388 (452)
T ss_dssp             HHHHHTTTTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHCCCCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCC
Confidence            555544    236666666666666554   23344455555543    345666666666666655

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.50  E-value=3e-12  Score=89.70  Aligned_cols=128  Identities=9%  Similarity=0.030  Sum_probs=99.6

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHh
Q 044047          128 YNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCN  207 (260)
Q Consensus       128 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  207 (260)
                      ...+..++...|++++|+..+++..... |.+...+..+..++...|++++|...|+++.+... .+..++..+...+..
T Consensus        57 ~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~  134 (208)
T 3urz_A           57 ATELALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEA-DNLAANIFLGNYYYL  134 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHH
Confidence            3458899999999999999999999876 66889999999999999999999999999998753 357788888888876


Q ss_pred             cCC--hHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          208 DGQ--MDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       208 ~g~--~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      .|+  ...+...+.....  ..|....+.....++...|++++|...|++.++.
T Consensus       135 ~~~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  186 (208)
T 3urz_A          135 TAEQEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR  186 (208)
T ss_dssp             HHHHHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT
T ss_pred             HhHHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            654  4455666665543  2333344555667778899999999999988764

>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=99.50  E-value=1e-12  Score=107.95  Aligned_cols=173  Identities=10%  Similarity=-0.022  Sum_probs=147.3

Q ss_pred             hccCCHHHHHHHHHHHh--------hcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhc
Q 044047           31 CLTGEIDRARELFVSMD--------INGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFE  102 (260)
Q Consensus        31 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  102 (260)
                      ...|++++|++.+++..        +.. +.+...+..+..++...|++++|+..+++..+.... +...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHH
Confidence            78899999999999988        443 567788999999999999999999999999887443 67888999999999


Q ss_pred             cccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHH
Q 044047          103 IHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWEL  182 (260)
Q Consensus       103 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  182 (260)
                      .|++++|+..|++..+.. +.+...+..+..++...|++++ +..|++..+.. +.+...+..+..++...|++++|...
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999998876 5677889999999999999999 99999998876 66788999999999999999999999


Q ss_pred             HHhhhhCCCCCc-hhhHHHHHHHHHhcCC
Q 044047          183 FQSLPRVGLMPN-VVTYNIMIHGFCNDGQ  210 (260)
Q Consensus       183 ~~~~~~~~~~~~-~~~~~~l~~~~~~~g~  210 (260)
                      |+++.+..  |+ ...+..+..++...++
T Consensus       557 ~~~al~l~--P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPTS--RHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTTS--TTHHHHHHHHHHHTC----
T ss_pred             HHhhcccC--cccHHHHHHHHHHHHccCC
Confidence            99998764  44 5677777777766554

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.49  E-value=6.3e-12  Score=91.24  Aligned_cols=188  Identities=8%  Similarity=-0.061  Sum_probs=127.2

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC---ccchHHHHHHHhccccHHHHHHHHHHHhhcCC--Ccchh
Q 044047           52 MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT---VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDV--AAETS  126 (260)
Q Consensus        52 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~  126 (260)
                      +.+...+-.....+.+.|++++|+..|+++.+..+. +   ...+..+..++...|++++|+..|++..+...  +....
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            345666777777888888888888888888776432 2   45667777788888888888888888876531  12244


Q ss_pred             hHHHHHHHHHh--------cCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhH
Q 044047          127 TYNTFIDGLCK--------NGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTY  198 (260)
Q Consensus       127 ~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  198 (260)
                      .+..+..++..        .|++++|...|+++.... +.+.......              ..+..+...    ....+
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~--------------~~~~~~~~~----~~~~~  151 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY-PNHELVDDAT--------------QKIRELRAK----LARKQ  151 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC-TTCTTHHHHH--------------HHHHHHHHH----HHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC-cCchhHHHHH--------------HHHHHHHHH----HHHHH
Confidence            56667777777        788888888888777653 2222222111              111111110    11235


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCC--CChhhHHHHHHHHHhc----------CchhHHHHHHHHHhhc
Q 044047          199 NIMIHGFCNDGQMDKAHDLFLDMEAKGVA--PNCVTFNTLMLGCIRN----------NETSKVVELLHRMDER  259 (260)
Q Consensus       199 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--p~~~~~~~l~~~~~~~----------~~~~~a~~~~~~m~~~  259 (260)
                      ..+...+...|++++|...|+++.+....  .....+..+..++...          |++++|...++++.+.
T Consensus       152 ~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          152 YEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            67788999999999999999999875211  1345677888888876          8899999999988753

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.48  E-value=7.1e-12  Score=95.98  Aligned_cols=219  Identities=9%  Similarity=-0.018  Sum_probs=166.1

Q ss_pred             hhHHHHHHHHHHcC--C---CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhc----C-CC-CchhhHHHHHHHHHhcCC
Q 044047            2 DEASRLLDLMIQRG--V---RPNAFVYSTLIDGFCLTGEIDRARELFVSMDIN----G-CM-HNVVTYNTLINGYCKTKD   70 (260)
Q Consensus         2 ~~a~~~~~~~~~~~--~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~-~~~~~~~~l~~~~~~~~~   70 (260)
                      ++|++.+++..+..  .   +....++..+...+...|+++.|...+++..+.    + .+ ....+++.+..+|...|+
T Consensus       118 ~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~  197 (378)
T 3q15_A          118 VEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKH  197 (378)
T ss_dssp             HHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCC
Confidence            57888888877641  1   123568888999999999999999999987653    1 11 135678899999999999


Q ss_pred             hHHHHHHHHHHHhcC----CC-CCccchHHHHHHHhccccHHHHHHHHHHHhhc----CCCcchhhHHHHHHHHHhcCcH
Q 044047           71 VEESLNLYSEMLSKG----IR-PTVVTYNTLFHGLFEIHQVEHALKLFDEMQHS----DVAAETSTYNTFIDGLCKNGYI  141 (260)
Q Consensus        71 ~~~a~~~~~~~~~~~----~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~  141 (260)
                      +++|...+++..+..    .. ....++..+...|...|++++|...+++..+.    +.+....++..+...+...|++
T Consensus       198 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~  277 (378)
T 3q15_A          198 YDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQT  277 (378)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCH
Confidence            999999999887631    11 12356778899999999999999999998761    2244477888999999999999


Q ss_pred             HHHHHHHHHhhhcC----CCcCHHHHHHHHHHHHhcCC---HHHHHHHHHhhhhCCCCCc-hhhHHHHHHHHHhcCChHH
Q 044047          142 VEAAELFRTLRVLK----CELGIEAYSCLIDGLCKIGK---LETAWELFQSLPRVGLMPN-VVTYNIMIHGFCNDGQMDK  213 (260)
Q Consensus       142 ~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~  213 (260)
                      ++|...+++.....    .+.....+..+...+...++   +.+|...++....   .|+ ...+..+...|...|++++
T Consensus       278 ~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~---~~~~~~~~~~la~~y~~~g~~~~  354 (378)
T 3q15_A          278 QKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNL---HAYIEACARSAAAVFESSCHFEQ  354 (378)
T ss_dssp             HHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCC---hhHHHHHHHHHHHHHHHCCCHHH
Confidence            99999999887542    12234456667777778888   7777777776322   222 4567788999999999999


Q ss_pred             HHHHHHHHHh
Q 044047          214 AHDLFLDMEA  223 (260)
Q Consensus       214 a~~~~~~~~~  223 (260)
                      |...|++..+
T Consensus       355 A~~~~~~al~  364 (378)
T 3q15_A          355 AAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998865

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.47  E-value=5.4e-12  Score=93.16  Aligned_cols=201  Identities=11%  Similarity=0.027  Sum_probs=150.4

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHhhc----CCCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-C----c
Q 044047           21 FVYSTLIDGFCLTGEIDRARELFVSMDIN----GCMH-NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRP-T----V   90 (260)
Q Consensus        21 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~----~   90 (260)
                      ..|......|...|++++|...|++....    |-++ ...+|+.+..+|...|++++|+..+++..+..... +    .
T Consensus        38 ~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a  117 (292)
T 1qqe_A           38 DLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGA  117 (292)
T ss_dssp             HHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            46888888999999999999999987653    3122 25689999999999999999999999887642111 1    3


Q ss_pred             cchHHHHHHHhcc-ccHHHHHHHHHHHhhcCCCc-----chhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCH----
Q 044047           91 VTYNTLFHGLFEI-HQVEHALKLFDEMQHSDVAA-----ETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGI----  160 (260)
Q Consensus        91 ~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----  160 (260)
                      .+++.+...|... |++++|+..|++..+.....     ...++..+...+...|++++|+..+++..........    
T Consensus       118 ~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  197 (292)
T 1qqe_A          118 NFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS  197 (292)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG
T ss_pred             HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHH
Confidence            5788889999996 99999999999986542110     1356888999999999999999999998876432221    


Q ss_pred             --HHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCch------hhHHHHHHHHH--hcCChHHHHHHHHHHHh
Q 044047          161 --EAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNV------VTYNIMIHGFC--NDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       161 --~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~--~~g~~~~a~~~~~~~~~  223 (260)
                        ..+..+..++...|++++|...+++..+..  |+.      ..+..++..+.  ..+++++|...|+.+..
T Consensus       198 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          198 LKDYFLKKGLCQLAATDAVAAARTLQEGQSED--PNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc
Confidence              256778889999999999999999988743  321      13444556554  45678888888876654

>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=99.47  E-value=9e-12  Score=80.50  Aligned_cols=127  Identities=17%  Similarity=0.276  Sum_probs=67.1

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhc
Q 044047           23 YSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFE  102 (260)
Q Consensus        23 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  102 (260)
                      |..+...+...|++++|..+++.+.+.+ +.+...+..+...+...|++++|...++++.+.+.. +...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCC-chHHHHHHHHHHHH
Confidence            4455555666666666666666655443 334555555555566666666666666655554321 33444455555555


Q ss_pred             cccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhh
Q 044047          103 IHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLR  152 (260)
Q Consensus       103 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  152 (260)
                      .|++++|...++++.+.. +.+...+..+...+...|++++|...++.+.
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  130 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL  130 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            555555555555554443 2334444445555555555555555555444

>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=99.46  E-value=1e-12  Score=87.09  Aligned_cols=145  Identities=11%  Similarity=-0.017  Sum_probs=84.4

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcccc
Q 044047           26 LIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQ  105 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  105 (260)
                      |...+...|++++|+..++...... +.+...+-.+...|.+.|++++|++.|++..+..+. +..+|..+..++...|+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCc
Confidence            3444555666777777666665442 333445556666677777777777777776665333 55666666666666677


Q ss_pred             HHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHH-HHHhhhcCCCcCHHHHHHHHHHHHhcC
Q 044047          106 VEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAEL-FRTLRVLKCELGIEAYSCLIDGLCKIG  174 (260)
Q Consensus       106 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~  174 (260)
                      +++|+..|++..+.. |.+...+..+...|...|+++++.+. +++..+.. |-++.+|......+...|
T Consensus        81 ~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           81 TDKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCC
T ss_pred             hHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            777777666666654 44556666666666666666554433 35555443 445555555555554444

>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=99.46  E-value=1.3e-11  Score=79.69  Aligned_cols=125  Identities=16%  Similarity=0.241  Sum_probs=56.5

Q ss_pred             HHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCC
Q 044047           96 LFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGK  175 (260)
Q Consensus        96 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  175 (260)
                      +...+...|++++|..+++++.+.+ +.+...+..+...+...|++++|...++++.... +.+...+..+...+...|+
T Consensus         7 l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~   84 (136)
T 2fo7_A            7 LGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGD   84 (136)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHhcC
Confidence            3334444444444444444443332 2233344444444444444444444444444332 2334444444445555555


Q ss_pred             HHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          176 LETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       176 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      +++|...++.+..... .+...+..+...+...|++++|...++++.+
T Consensus        85 ~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           85 YDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             HHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            5555555554444321 1334444455555555555555555555443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.46  E-value=4.6e-10  Score=82.66  Aligned_cols=216  Identities=8%  Similarity=-0.046  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcC--ChHHHHHHHHHHHhcCCCCCccchHHHHHHH----hcc---ccHH
Q 044047           37 DRARELFVSMDINGCMHNVVTYNTLINGYCKTK--DVEESLNLYSEMLSKGIRPTVVTYNTLFHGL----FEI---HQVE  107 (260)
Q Consensus        37 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~~  107 (260)
                      ++|+.+++.+...+ |.+..+|+.--..+...|  ++++++.+++.+....++ +..+|+.-...+    ...   ++++
T Consensus        50 ~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~~  127 (306)
T 3dra_A           50 ERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDPY  127 (306)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCTH
T ss_pred             HHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCHH
Confidence            44555555554443 334444444444444444  555555555555544332 333333322222    222   3445


Q ss_pred             HHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHH--HHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCC------HHHH
Q 044047          108 HALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIV--EAAELFRTLRVLKCELGIEAYSCLIDGLCKIGK------LETA  179 (260)
Q Consensus       108 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~a  179 (260)
                      +++.+++.+.+.. +-+..+|+.-.-.+...|.++  ++++.++.+...+ +-+...|+.-...+.+.+.      ++++
T Consensus       128 ~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~eE  205 (306)
T 3dra_A          128 REFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTIDEE  205 (306)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHHHH
Confidence            5555555554443 334444444444444444444  5555555554443 3344444444444444443      4455


Q ss_pred             HHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHH-HHHHHHHHHhCC--CCCChhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          180 WELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDK-AHDLFLDMEAKG--VAPNCVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      ++.++.+....+. |...|+.+...+.+.|+... +..+..++.+.+  -+.+...+..+..++.+.|+.++|.++++.+
T Consensus       206 l~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l  284 (306)
T 3dra_A          206 LNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLL  284 (306)
T ss_dssp             HHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            5555554444322 44445444444444444222 333444333221  1223444445555555555555555555554


Q ss_pred             h
Q 044047          257 D  257 (260)
Q Consensus       257 ~  257 (260)
                      .
T Consensus       285 ~  285 (306)
T 3dra_A          285 K  285 (306)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.45  E-value=2.8e-10  Score=83.84  Aligned_cols=228  Identities=9%  Similarity=0.048  Sum_probs=183.9

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccC--CHHHHHHHHHHHhhcCCCCchhhHHHHHHHH----Hhc---CChH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTG--EIDRARELFVSMDINGCMHNVVTYNTLINGY----CKT---KDVE   72 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~~   72 (260)
                      ++|+++++.+...+ |-+...|+.-..++...|  ++++++.+++.+...+ |-+..+|+.--..+    ...   ++++
T Consensus        50 ~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~~  127 (306)
T 3dra_A           50 ERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDPY  127 (306)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCTH
T ss_pred             HHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCHH
Confidence            57889999998886 446778888888888888  9999999999998876 66777787666655    555   7899


Q ss_pred             HHHHHHHHHHhcCCCCCccchHHHHHHHhccccHH--HHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCc------HHHH
Q 044047           73 ESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVE--HALKLFDEMQHSDVAAETSTYNTFIDGLCKNGY------IVEA  144 (260)
Q Consensus        73 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~a  144 (260)
                      +++.+++++.+...+ +..+|+.-...+.+.+.++  +++..++++.+.+ +.+...|+.-...+...+.      ++++
T Consensus       128 ~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~eE  205 (306)
T 3dra_A          128 REFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTIDEE  205 (306)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHHHH
Confidence            999999999998655 7888888888888888888  9999999999887 6678888887777777776      8899


Q ss_pred             HHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHH-HHHHHHHhhhhCC--CCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047          145 AELFRTLRVLKCELGIEAYSCLIDGLCKIGKLE-TAWELFQSLPRVG--LMPNVVTYNIMIHGFCNDGQMDKAHDLFLDM  221 (260)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  221 (260)
                      ++.++.+.... +-|...|+.+...+.+.|+.. .+..+...+.+.+  -..+...+..++..+.+.|+.++|.++++.+
T Consensus       206 l~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l  284 (306)
T 3dra_A          206 LNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLL  284 (306)
T ss_dssp             HHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            99999988876 678889998888888888754 4666777776543  1236788999999999999999999999999


Q ss_pred             HhCCCCC-ChhhHHH
Q 044047          222 EAKGVAP-NCVTFNT  235 (260)
Q Consensus       222 ~~~~~~p-~~~~~~~  235 (260)
                      .+. +.| ....|..
T Consensus       285 ~~~-~Dpir~~yW~~  298 (306)
T 3dra_A          285 KSK-YNPIRSNFWDY  298 (306)
T ss_dssp             HHT-TCGGGHHHHHH
T ss_pred             Hhc-cChHHHHHHHH
Confidence            874 233 3444443

>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=99.45  E-value=5.9e-11  Score=101.35  Aligned_cols=186  Identities=15%  Similarity=0.153  Sum_probs=123.0

Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHH
Q 044047           32 LTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALK  111 (260)
Q Consensus        32 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  111 (260)
                      ..+++++|.++.++.      .++.+|..+..++...|++++|+..|.+.      -|...|..++.++.+.|++++|.+
T Consensus      1088 ~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIe 1155 (1630)
T 1xi4_A         1088 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK 1155 (1630)
T ss_pred             HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHH
Confidence            344555555555432      24666777777777777777777777553      256667777777777777777777


Q ss_pred             HHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCC
Q 044047          112 LFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGL  191 (260)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  191 (260)
                      .+...++..  +++...+.++.+|++.+++++...+.    .   .++...|..+...|...|++++|..+|..+     
T Consensus      1156 yL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA----- 1221 (1630)
T 1xi4_A         1156 YLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----- 1221 (1630)
T ss_pred             HHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh-----
Confidence            777666543  23233334777777777766533332    1   345556666777777788888887777763     


Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHH
Q 044047          192 MPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELL  253 (260)
Q Consensus       192 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  253 (260)
                          ..|..++.++.+.|++++|.+.+++.      .+..+|..+..+|...|++..|....
T Consensus      1222 ----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cg 1273 (1630)
T 1xi4_A         1222 ----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCG 1273 (1630)
T ss_pred             ----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHH
Confidence                36777777888888888888777765      24577777777777777777776655

>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=99.44  E-value=3.1e-12  Score=105.14  Aligned_cols=179  Identities=9%  Similarity=-0.066  Sum_probs=147.6

Q ss_pred             hhHHHHHHHHH--------HcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHH
Q 044047            2 DEASRLLDLMI--------QRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEE   73 (260)
Q Consensus         2 ~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   73 (260)
                      ++|++.+++..        +.. +.+...+..+..++.+.|++++|...|+++.+.+ +.+...|..+..++...|++++
T Consensus       408 ~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~  485 (681)
T 2pzi_A          408 VQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLTGDYDS  485 (681)
T ss_dssp             HHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHcCCHHH
Confidence            57888888887        443 4567889999999999999999999999998875 6678899999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhh
Q 044047           74 SLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRV  153 (260)
Q Consensus        74 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  153 (260)
                      |+..|++..+.... +...+..+..++.+.|++++ +..|++..+.+ +.+...+..+..++...|++++|...|++..+
T Consensus       486 A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  562 (681)
T 2pzi_A          486 ATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTLDEVPP  562 (681)
T ss_dssp             HHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCT
T ss_pred             HHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHHHhhcc
Confidence            99999999987544 67888999999999999999 99999998876 66788999999999999999999999999887


Q ss_pred             cCCCcCHHHHHHHHHHHHhcCC--------HHHHHHHHHhh
Q 044047          154 LKCELGIEAYSCLIDGLCKIGK--------LETAWELFQSL  186 (260)
Q Consensus       154 ~~~~~~~~~~~~l~~~~~~~~~--------~~~a~~~~~~~  186 (260)
                      .. +.+...+..+..++...++        +++|.+.+..+
T Consensus       563 l~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~  602 (681)
T 2pzi_A          563 TS-RHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEAL  602 (681)
T ss_dssp             TS-TTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTS
T ss_pred             cC-cccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhC
Confidence            64 4456778888888766554        44555555444

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.44  E-value=9.5e-12  Score=91.60  Aligned_cols=168  Identities=13%  Similarity=0.014  Sum_probs=111.5

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchh-hHHH
Q 044047           52 MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETS-TYNT  130 (260)
Q Consensus        52 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~  130 (260)
                      +.+...+..+...+...|++++|...+++..+..+. +...+..+...+...|++++|...++++....  |+.. ....
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHH
Confidence            445566666777777777777777777777765333 45666777777777777777777777766543  2322 2222


Q ss_pred             HHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCC-chhhHHHHHHHHHhcC
Q 044047          131 FIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMP-NVVTYNIMIHGFCNDG  209 (260)
Q Consensus       131 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g  209 (260)
                      ....+...++.+.|...+++..... +.+...+..+...+...|++++|...+.++.+..... +...+..++..+...|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            2333555666666777777776654 5567777777777777788888887777777654221 2456777777777778


Q ss_pred             ChHHHHHHHHHHHh
Q 044047          210 QMDKAHDLFLDMEA  223 (260)
Q Consensus       210 ~~~~a~~~~~~~~~  223 (260)
                      +.++|...+++...
T Consensus       270 ~~~~a~~~~r~al~  283 (287)
T 3qou_A          270 TGDALASXYRRQLY  283 (287)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            77777777776543

>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=99.44  E-value=5e-11  Score=83.70  Aligned_cols=141  Identities=16%  Similarity=0.122  Sum_probs=71.4

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcC----ChHHHHHHH
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTK----DVEESLNLY   78 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~   78 (260)
                      +|.+.|+...+.|   ++..+..+...|...+++++|...|++..+.|   ++..+..+...|.. +    ++++|+++|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            4555555555543   44555555666666666666666666655543   34445555555554 4    555566555


Q ss_pred             HHHHhcCCCCCccchHHHHHHHhc----cccHHHHHHHHHHHhhcCCC-cchhhHHHHHHHHHh----cCcHHHHHHHHH
Q 044047           79 SEMLSKGIRPTVVTYNTLFHGLFE----IHQVEHALKLFDEMQHSDVA-AETSTYNTFIDGLCK----NGYIVEAAELFR  149 (260)
Q Consensus        79 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~  149 (260)
                      ++..+.|   +...+..+...|..    .+++++|+.+|++..+.+.. ..+..+..+...|..    .+++++|..+|+
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            5554432   33444444444444    44555555555555544311 013344444444444    444555555555


Q ss_pred             Hhhh
Q 044047          150 TLRV  153 (260)
Q Consensus       150 ~~~~  153 (260)
                      ....
T Consensus       154 ~A~~  157 (212)
T 3rjv_A          154 GSSS  157 (212)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.43  E-value=1.3e-10  Score=84.92  Aligned_cols=178  Identities=10%  Similarity=0.043  Sum_probs=104.8

Q ss_pred             HHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCC-CcchhhHHHHHHHHHhcCcHHHHHHHHHHhh
Q 044047           74 SLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDV-AAETSTYNTFIDGLCKNGYIVEAAELFRTLR  152 (260)
Q Consensus        74 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  152 (260)
                      |+..+++..+.+ .++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+++.|.+.++.|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            555566555543 33444555666777777777777777777655542 1355566677777777777777777777776


Q ss_pred             hcCCCc-----CHHHHHHHHHHH--HhcC--CHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          153 VLKCEL-----GIEAYSCLIDGL--CKIG--KLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       153 ~~~~~~-----~~~~~~~l~~~~--~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      ..  .|     +..+...++.++  ...|  +..+|..+|+++.+..  |+..+...++.++.+.|++++|...++.+.+
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            54  33     234444444442  2223  6777777777776542  3322333334466777777777777776544


Q ss_pred             C-----CC----CCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          224 K-----GV----APNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       224 ~-----~~----~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      .     +.    +-++.++..++......|+  +|.++++++.+
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~  281 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVK  281 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHH
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHH
Confidence            2     00    3345555555555555665  66666666654

>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=99.42  E-value=6.2e-12  Score=83.29  Aligned_cols=146  Identities=10%  Similarity=-0.113  Sum_probs=100.4

Q ss_pred             HHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCC
Q 044047           96 LFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGK  175 (260)
Q Consensus        96 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  175 (260)
                      |...+...|++++|+..++...... +.+...+..+...|...|++++|++.|++..+.. +-++.+|..+..+|...|+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCc
Confidence            4455666778888888887776543 3345566677888888888888888888887765 5577788888888888888


Q ss_pred             HHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHH-HHHHHhCCCCCChhhHHHHHHHHHhcCc
Q 044047          176 LETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDL-FLDMEAKGVAPNCVTFNTLMLGCIRNNE  245 (260)
Q Consensus       176 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~~~~~~p~~~~~~~l~~~~~~~~~  245 (260)
                      +++|...|+...+... -+..++..+...+.+.|++++|... +++..+.. |-++.+|......+...|+
T Consensus        81 ~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           81 TDKAVECYRRSVELNP-TQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCCC
T ss_pred             hHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCc
Confidence            8888888888777542 2467777888888888887765554 46666641 3345566655566655553

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.41  E-value=1.5e-10  Score=82.05  Aligned_cols=187  Identities=10%  Similarity=-0.049  Sum_probs=125.9

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCC--CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCc--cchH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGC--MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTV--VTYN   94 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~   94 (260)
                      ++..+..+...+.+.|++++|...|+.+.+...  +.....+..+..++.+.|++++|+..|+++.+..+....  ..+.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            445566678889999999999999999987631  112357888899999999999999999999886433111  1344


Q ss_pred             HHHHHHhc------------------cccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCC
Q 044047           95 TLFHGLFE------------------IHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKC  156 (260)
Q Consensus        95 ~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  156 (260)
                      .+..++..                  .|+.++|...|+++.+.. |.+...........          .+...+     
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-P~~~~a~~a~~~l~----------~~~~~~-----  146 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY-PNSQYTTDATKRLV----------FLKDRL-----  146 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC-TTCTTHHHHHHHHH----------HHHHHH-----
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC-cCChhHHHHHHHHH----------HHHHHH-----
Confidence            44444443                  467777777777777653 33333322211100          000000     


Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc--hhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          157 ELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPN--VVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       157 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                         ......+...|.+.|++++|...|+.+.+......  ...+..+..++.+.|++++|.+.++.+...
T Consensus       147 ---~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          147 ---AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             ---HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             ---HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence               01123467788889999999999999887632211  256788889999999999999999988876

>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=99.41  E-value=9.6e-11  Score=82.25  Aligned_cols=177  Identities=11%  Similarity=-0.009  Sum_probs=140.0

Q ss_pred             HHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccc----cHHHHHHHH
Q 044047           38 RARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIH----QVEHALKLF  113 (260)
Q Consensus        38 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~  113 (260)
                      +|.+.|++..+.|   ++..+..+...|...+++++|+..|++..+.|   +...+..+...|.. +    ++++|..+|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            4677788777765   77788888888989999999999999998865   56777788888887 6    899999999


Q ss_pred             HHHhhcCCCcchhhHHHHHHHHHh----cCcHHHHHHHHHHhhhcCCC-cCHHHHHHHHHHHHh----cCCHHHHHHHHH
Q 044047          114 DEMQHSDVAAETSTYNTFIDGLCK----NGYIVEAAELFRTLRVLKCE-LGIEAYSCLIDGLCK----IGKLETAWELFQ  184 (260)
Q Consensus       114 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~  184 (260)
                      ++..+.+   +...+..+...|..    .+++++|..+|++....+.. ..+..+..+...|..    .+++++|...|+
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            9987765   45577788888877    88999999999998876521 126778888888888    788999999999


Q ss_pred             hhhhCCCCCchhhHHHHHHHHHhc-C-----ChHHHHHHHHHHHhCCC
Q 044047          185 SLPRVGLMPNVVTYNIMIHGFCND-G-----QMDKAHDLFLDMEAKGV  226 (260)
Q Consensus       185 ~~~~~~~~~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~~~~~~~  226 (260)
                      +..+.  ..+...+..|...|... |     ++++|...|++..+.|.
T Consensus       154 ~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          154 GSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            98876  23455677777777643 3     88999999998888763

>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=99.40  E-value=2.2e-11  Score=82.93  Aligned_cols=162  Identities=11%  Similarity=0.022  Sum_probs=97.9

Q ss_pred             chHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHH-H
Q 044047           92 TYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDG-L  170 (260)
Q Consensus        92 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~  170 (260)
                      .+..+...+...|++++|...|++..+.. |.+...+..+..++...|++++|...++...... + ++..+...... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~-p-~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY-Q-DNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG-C-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc-C-ChHHHHHHHHHHH
Confidence            34445556666677777777777665543 4455666666777777777777777776665543 2 44333222211 1


Q ss_pred             HhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC-ChhhHHHHHHHHHhcCchhHH
Q 044047          171 CKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAP-NCVTFNTLMLGCIRNNETSKV  249 (260)
Q Consensus       171 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a  249 (260)
                      ...+....|...+++..+... .+...+..+...+...|++++|...|+++.+....+ +...+..+..++...|+.++|
T Consensus        85 ~~~~~~~~a~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAANP-DNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             HhhcccchHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            122223345666666665431 245667777777777777777777777777653221 244666777777777777777


Q ss_pred             HHHHHHHh
Q 044047          250 VELLHRMD  257 (260)
Q Consensus       250 ~~~~~~m~  257 (260)
                      ...+++..
T Consensus       164 ~~~y~~al  171 (176)
T 2r5s_A          164 ASKYRRQL  171 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77777654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.39  E-value=3.3e-11  Score=88.68  Aligned_cols=168  Identities=9%  Similarity=-0.038  Sum_probs=136.8

Q ss_pred             CCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHH-HH
Q 044047           87 RPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAY-SC  165 (260)
Q Consensus        87 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~  165 (260)
                      +.+...+..+...+...|++++|...|++..... |.+...+..+...+...|++++|...++.+....  |+.... ..
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHH
Confidence            3355667788888999999999999999998876 6678889999999999999999999999987764  444433 33


Q ss_pred             HHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CChhhHHHHHHHHHhcC
Q 044047          166 LIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVA-PNCVTFNTLMLGCIRNN  244 (260)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~~  244 (260)
                      ....+...++.+.|...+++...... .+...+..+...+...|++++|...|.++.+.... .+...+..++..+...|
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            33446677888889999999887642 36788999999999999999999999999986321 12678899999999999


Q ss_pred             chhHHHHHHHHHhh
Q 044047          245 ETSKVVELLHRMDE  258 (260)
Q Consensus       245 ~~~~a~~~~~~m~~  258 (260)
                      +.++|...+++...
T Consensus       270 ~~~~a~~~~r~al~  283 (287)
T 3qou_A          270 TGDALASXYRRQLY  283 (287)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            99999999887653

>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=99.39  E-value=2.2e-11  Score=98.21  Aligned_cols=150  Identities=10%  Similarity=-0.073  Sum_probs=84.0

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|.+.+++..+.. +.+...+..+...+.+.|++++|.+.+++..+.. +.+...+..+..++...|++++|.+.+++.
T Consensus         6 ~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~a   83 (568)
T 2vsy_A            6 PRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLLQQA   83 (568)
T ss_dssp             ----------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            45566666655543 3345566666666666666666666666666554 445566666666666666666666666666


Q ss_pred             HhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhc---CcHHHHHHHHHHhhhcC
Q 044047           82 LSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKN---GYIVEAAELFRTLRVLK  155 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~  155 (260)
                      .+.... +...+..+..++...|++++|...+++..+.. +.+...+..+..++...   |++++|.+.+++....+
T Consensus        84 l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           84 SDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            655322 45556666666666666666666666666554 34455666666666666   66666666666665544

>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=99.39  E-value=7.6e-12  Score=85.22  Aligned_cols=61  Identities=11%  Similarity=0.029  Sum_probs=36.3

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044047           23 YSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK   84 (260)
Q Consensus        23 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   84 (260)
                      +......+.+.|++++|...|++..+.. |.+...+..+..++...|++++|+..+++..+.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~   69 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLE   69 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc
Confidence            3344555666666666666666655443 445556666666666666666666666665443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.38  E-value=1.9e-10  Score=84.10  Aligned_cols=184  Identities=10%  Similarity=0.000  Sum_probs=136.5

Q ss_pred             HHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCC-CCCccchHHHHHHHhccccHHHHHHHHHHHh
Q 044047           39 ARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGI-RPTVVTYNTLFHGLFEIHQVEHALKLFDEMQ  117 (260)
Q Consensus        39 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  117 (260)
                      |...|++....+ +++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.++.|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            566777766554 55666667888999999999999999999877654 2256778889999999999999999999998


Q ss_pred             hcCCCc-----chhhHHHHHHHH--Hh--cCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhh
Q 044047          118 HSDVAA-----ETSTYNTFIDGL--CK--NGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPR  188 (260)
Q Consensus       118 ~~~~~~-----~~~~~~~l~~~~--~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (260)
                      +.  .|     +..+...++.++  ..  .+++.+|..+|+++...  .|+...-..++.++.+.|++++|.+.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            75  35     345555666553  22  34899999999998764  45533334444589999999999999987655


Q ss_pred             CC---------CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChh
Q 044047          189 VG---------LMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCV  231 (260)
Q Consensus       189 ~~---------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  231 (260)
                      ..         -+-|+.++..++......|+  +|.+++.++.+.  .|+..
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~hp  287 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL--DHEHA  287 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT--TCCCH
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh--CCCCh
Confidence            31         02356777666666666776  889999999985  55544

>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=99.36  E-value=4.9e-11  Score=96.22  Aligned_cols=154  Identities=11%  Similarity=-0.038  Sum_probs=119.4

Q ss_pred             cCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHH
Q 044047           68 TKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAEL  147 (260)
Q Consensus        68 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  147 (260)
                      .|++++|+..+++..+.... +...+..+...+...|++++|...+++..+.. +.+...+..+..+|...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            47889999999998876433 57788899999999999999999999998875 56788899999999999999999999


Q ss_pred             HHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhc---CChHHHHHHHHHHHhC
Q 044047          148 FRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCND---GQMDKAHDLFLDMEAK  224 (260)
Q Consensus       148 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~  224 (260)
                      +++..+.. +.+...+..+..++...|++++|.+.+++..+... .+...+..+...+...   |+.++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99998875 56788999999999999999999999999988642 3567888999999999   9999999999999886


Q ss_pred             C
Q 044047          225 G  225 (260)
Q Consensus       225 ~  225 (260)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            3

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.36  E-value=2.7e-10  Score=80.70  Aligned_cols=184  Identities=6%  Similarity=-0.105  Sum_probs=122.0

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchh---hH
Q 044047           54 NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT--VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETS---TY  128 (260)
Q Consensus        54 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~  128 (260)
                      +...+..+...+...|++++|+..|+++.+..+...  ...+..+..++.+.|++++|+..|+++.+.. |.+..   .+
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~-P~~~~~~~a~   81 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN-PTHPNIDYVM   81 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCcHHHHH
Confidence            345566677788899999999999999987633211  3467778889999999999999999988764 22222   34


Q ss_pred             HHHHHHHHh------------------cCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC
Q 044047          129 NTFIDGLCK------------------NGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVG  190 (260)
Q Consensus       129 ~~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  190 (260)
                      ..+..++..                  .|++++|...|+++.... |-+...........          .+...+    
T Consensus        82 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-P~~~~a~~a~~~l~----------~~~~~~----  146 (225)
T 2yhc_A           82 YMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY-PNSQYTTDATKRLV----------FLKDRL----  146 (225)
T ss_dssp             HHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC-TTCTTHHHHHHHHH----------HHHHHH----
T ss_pred             HHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC-cCChhHHHHHHHHH----------HHHHHH----
Confidence            444444443                  345666666666655432 21221111110000          000000    


Q ss_pred             CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC----hhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          191 LMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPN----CVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       191 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                          ......+...+.+.|++++|...|+++.+.  .|+    ...+..+..++.+.|++++|.+.++.+...
T Consensus       147 ----~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          147 ----AKYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             ----HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             ----HHHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence                011235677889999999999999999985  333    256888999999999999999999988764

>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=99.32  E-value=1.4e-10  Score=86.23  Aligned_cols=130  Identities=8%  Similarity=-0.009  Sum_probs=53.0

Q ss_pred             chHHHHHHHhccccHHHHHHHHHHHhhc----CCC-cchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCc-----CHH
Q 044047           92 TYNTLFHGLFEIHQVEHALKLFDEMQHS----DVA-AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCEL-----GIE  161 (260)
Q Consensus        92 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~  161 (260)
                      +|+.+...|...|++++|+..|++..+.    |-+ ....++..+..+|.. |++++|+..+++........     ...
T Consensus        78 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~  156 (307)
T 2ifu_A           78 AFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAE  156 (307)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHH
Confidence            3444444444444554444444443221    100 012334444444444 55555555554443221000     123


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhhhC----CCCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047          162 AYSCLIDGLCKIGKLETAWELFQSLPRV----GLMPN-VVTYNIMIHGFCNDGQMDKAHDLFLDME  222 (260)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~  222 (260)
                      ++..+...|...|++++|...+++....    +..+. ...+..+..++...|++++|...|++..
T Consensus       157 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          157 LIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            3444455555555555555555444332    10000 1133333444444455555555555544

>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=99.29  E-value=1.4e-09  Score=88.71  Aligned_cols=231  Identities=11%  Similarity=-0.015  Sum_probs=167.7

Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHH-HHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047            4 ASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRAR-ELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEML   82 (260)
Q Consensus         4 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   82 (260)
                      +..+|++.... .+.++..|...+..+...|+.++|. .+|+...... |.+...|...+...-+.|+++.|.++|+++.
T Consensus       328 v~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l  405 (679)
T 4e6h_A          328 MTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEIETTILSCI  405 (679)
T ss_dssp             HHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            34567777765 3557788888888888888888886 9999887653 5667778888888888999999999999887


Q ss_pred             hcCC---------CCC------------ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhc-Cc
Q 044047           83 SKGI---------RPT------------VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKN-GY  140 (260)
Q Consensus        83 ~~~~---------~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~  140 (260)
                      ....         .|+            ..+|...+....+.|..+.|..+|....+.-.......|...+..-.+. ++
T Consensus       406 ~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d  485 (679)
T 4e6h_A          406 DRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKD  485 (679)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSC
T ss_pred             HHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCC
Confidence            6410         132            2357777888888889999999999987751122334444444333444 45


Q ss_pred             HHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCC--chhhHHHHHHHHHhcCChHHHHHHH
Q 044047          141 IVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMP--NVVTYNIMIHGFCNDGQMDKAHDLF  218 (260)
Q Consensus       141 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~  218 (260)
                      ++.|.++|+...+. .+.++..+...+......|+.+.|..+|+........+  ....|...+..-.+.|+.+.+..+.
T Consensus       486 ~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~  564 (679)
T 4e6h_A          486 TKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLE  564 (679)
T ss_dssp             CHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            89999999988876 35567777788888888899999999999988764321  3457777788778899999999999


Q ss_pred             HHHHhCCCCCChhhHHHHHHH
Q 044047          219 LDMEAKGVAPNCVTFNTLMLG  239 (260)
Q Consensus       219 ~~~~~~~~~p~~~~~~~l~~~  239 (260)
                      +++.+.  .|+......++.-
T Consensus       565 ~R~~~~--~P~~~~~~~f~~r  583 (679)
T 4e6h_A          565 KRFFEK--FPEVNKLEEFTNK  583 (679)
T ss_dssp             HHHHHH--STTCCHHHHHHHH
T ss_pred             HHHHHh--CCCCcHHHHHHHH
Confidence            999875  4454444444433

>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=99.26  E-value=8e-09  Score=77.01  Aligned_cols=225  Identities=10%  Similarity=0.020  Sum_probs=145.2

Q ss_pred             HHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcC-ChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcc-c-c
Q 044047           29 GFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTK-DVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEI-H-Q  105 (260)
Q Consensus        29 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~  105 (260)
                      ...+.+..++|+++++.+...+ |-+..+|+.--..+...| ++++++.+++.+.....+ +..+|+.-...+... + +
T Consensus        63 ~~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~  140 (349)
T 3q7a_A           63 IAAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQD  140 (349)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSC
T ss_pred             HHHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCC
Confidence            3344455567888888887776 556667777777777777 488888888888876554 666676666666555 5 6


Q ss_pred             HHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHH--------HHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCC--
Q 044047          106 VEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIV--------EAAELFRTLRVLKCELGIEAYSCLIDGLCKIGK--  175 (260)
Q Consensus       106 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--  175 (260)
                      +++++.+++.+.+.. +-+..+|+.-.-.+.+.|.++        ++++.++++.+.. +-+...|+.....+.+.+.  
T Consensus       141 ~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~  218 (349)
T 3q7a_A          141 PVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAE  218 (349)
T ss_dssp             CHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCC
T ss_pred             hHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccc
Confidence            778888888887765 556666665555555555555        7777777777765 5567777777777766665  


Q ss_pred             -----HHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCCh--------------------HHHHHHHHHHHhCC-----
Q 044047          176 -----LETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQM--------------------DKAHDLFLDMEAKG-----  225 (260)
Q Consensus       176 -----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--------------------~~a~~~~~~~~~~~-----  225 (260)
                           ++++++.++++....+ -|...|+.+-..+.+.|+.                    ....++..++...+     
T Consensus       219 ~~~~~~~eELe~~~~aI~~~P-~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  297 (349)
T 3q7a_A          219 TSSRSLQDELIYILKSIHLIP-HNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDT  297 (349)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSC
T ss_pred             cchHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhccccccc
Confidence                 5777777777776543 2566776666666555543                    22333333332221     


Q ss_pred             CCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          226 VAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       226 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      -.++...+..++..|...|+.++|.++++.+.+
T Consensus       298 ~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          298 PLPVPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            134666777788888888888888888887753

>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=99.26  E-value=1.7e-08  Score=75.24  Aligned_cols=218  Identities=11%  Similarity=0.107  Sum_probs=169.1

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccC-CHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhc-C-ChHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTG-EIDRARELFVSMDINGCMHNVVTYNTLINGYCKT-K-DVEESLNLY   78 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~~a~~~~   78 (260)
                      ++|+++++.+...+ +-+..+|+.--..+...| .+++++.+++.+...+ |-+..+|+.-...+... + ++++++.++
T Consensus        71 e~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~EL~~~  148 (349)
T 3q7a_A           71 ERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVSEIEYI  148 (349)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHHHHHHH
Confidence            57889999999886 446778888888888888 5999999999999887 67888898888777776 7 899999999


Q ss_pred             HHHHhcCCCCCccchHHHHHHHhccccHH--------HHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCc-------HHH
Q 044047           79 SEMLSKGIRPTVVTYNTLFHGLFEIHQVE--------HALKLFDEMQHSDVAAETSTYNTFIDGLCKNGY-------IVE  143 (260)
Q Consensus        79 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~~  143 (260)
                      +++.+...+ +..+|+.-...+.+.+.++        +++..++++.+.. +.+...|+.....+.+.+.       +++
T Consensus       149 ~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~e  226 (349)
T 3q7a_A          149 HGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRSLQD  226 (349)
T ss_dssp             HHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHHHH
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHHHHH
Confidence            999987655 7778877666666666666        8999999999886 6788889888888888776       688


Q ss_pred             HHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCH--------------------HHHHHHHHhhhhCC-----CCCchhhH
Q 044047          144 AAELFRTLRVLKCELGIEAYSCLIDGLCKIGKL--------------------ETAWELFQSLPRVG-----LMPNVVTY  198 (260)
Q Consensus       144 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~~~~~-----~~~~~~~~  198 (260)
                      +++.+++..... +-|...|+.+-..+.+.|..                    .........+...+     -.++...+
T Consensus       227 ELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al  305 (349)
T 3q7a_A          227 ELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLAL  305 (349)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHH
Confidence            888888888765 66888888777777766653                    33444444444332     12467788


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          199 NIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       199 ~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      ..++..|...|+.++|.++++.+.+.
T Consensus       306 ~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          306 EYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            99999999999999999999998765

>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=99.25  E-value=1.4e-09  Score=80.80  Aligned_cols=213  Identities=8%  Similarity=0.040  Sum_probs=150.2

Q ss_pred             hhHHHHHHHHHHc------CCCcc----HHHHHHHHHHHhccCCHHHHHHHHHHHhhc----CCC-CchhhHHHHHHHHH
Q 044047            2 DEASRLLDLMIQR------GVRPN----AFVYSTLIDGFCLTGEIDRARELFVSMDIN----GCM-HNVVTYNTLINGYC   66 (260)
Q Consensus         2 ~~a~~~~~~~~~~------~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~   66 (260)
                      ++|.+++++..+.      +..++    ...|......|...|++++|...|.+....    +-+ .-..+|+.+..+|.
T Consensus         8 ~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~   87 (307)
T 2ifu_A            8 SEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLK   87 (307)
T ss_dssp             HHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            5677777766552      11233    347788888899999999999999887543    211 12457889999999


Q ss_pred             hcCChHHHHHHHHHHHhcCC---CC--CccchHHHHHHHhccccHHHHHHHHHHHhhcCCC-----cchhhHHHHHHHHH
Q 044047           67 KTKDVEESLNLYSEMLSKGI---RP--TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA-----AETSTYNTFIDGLC  136 (260)
Q Consensus        67 ~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~  136 (260)
                      ..|++++|+..+++..+.-.   .+  ...++..+...|.. |++++|+..|++.......     ....++..+...|.
T Consensus        88 ~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~  166 (307)
T 2ifu_A           88 DLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLV  166 (307)
T ss_dssp             HTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHH
Confidence            99999999999998765311   11  13567788888988 9999999999987653211     11467888999999


Q ss_pred             hcCcHHHHHHHHHHhhhcC----CCcC-HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC-Cc---hhhHHHHHHHHHh
Q 044047          137 KNGYIVEAAELFRTLRVLK----CELG-IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM-PN---VVTYNIMIHGFCN  207 (260)
Q Consensus       137 ~~~~~~~a~~~~~~~~~~~----~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~~l~~~~~~  207 (260)
                      ..|++++|+..+++.....    ..+. ...+..++.++...|++++|...+++.. .... ++   ......++..+ .
T Consensus       167 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~  244 (307)
T 2ifu_A          167 RQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SIPGFSGSEDCAALEDLLQAY-D  244 (307)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHHHHHHHHH-H
T ss_pred             HcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHHHHH-H
Confidence            9999999999999887532    1111 2356677788888899999999999988 4211 11   12344555555 5


Q ss_pred             cCChHHHHHH
Q 044047          208 DGQMDKAHDL  217 (260)
Q Consensus       208 ~g~~~~a~~~  217 (260)
                      .|+.+.+..+
T Consensus       245 ~~d~~~~~~~  254 (307)
T 2ifu_A          245 EQDEEQLLRV  254 (307)
T ss_dssp             TTCHHHHHHH
T ss_pred             hcCHHHHHHH
Confidence            6777666553

>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=99.24  E-value=9.2e-09  Score=75.86  Aligned_cols=164  Identities=13%  Similarity=0.076  Sum_probs=105.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCC-CCc----cchHHHHHHHhccccHHHHHHHHHHHhhcCCC-cc----hhhHH
Q 044047           60 TLINGYCKTKDVEESLNLYSEMLSKGIR-PTV----VTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA-AE----TSTYN  129 (260)
Q Consensus        60 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~  129 (260)
                      ..+..+...|++++|..++++..+.... |+.    ..+..+...+...+++++|+..+++..+.... ++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            3466677788888888888887764221 121    12234556666677888888888887663222 12    22577


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHhhhc-----CCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC----CCCCc-hhhH
Q 044047          130 TFIDGLCKNGYIVEAAELFRTLRVL-----KCE-LGIEAYSCLIDGLCKIGKLETAWELFQSLPRV----GLMPN-VVTY  198 (260)
Q Consensus       130 ~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~  198 (260)
                      .+..+|...|++++|...++++...     +.. ....++..+...|.+.|++++|...+++..+.    +..+. ..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            7788888888888888888777631     111 12336777788888888888888887776542    11111 4567


Q ss_pred             HHHHHHHHhcCC-hHHHHHHHHHHHh
Q 044047          199 NIMIHGFCNDGQ-MDKAHDLFLDMEA  223 (260)
Q Consensus       199 ~~l~~~~~~~g~-~~~a~~~~~~~~~  223 (260)
                      ..+..++...|+ +++|...+++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            777777888884 5788877777653

>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=99.23  E-value=5.1e-09  Score=77.24  Aligned_cols=164  Identities=9%  Similarity=-0.036  Sum_probs=123.9

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHhhcCC-CCch----hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCc-----cchH
Q 044047           25 TLIDGFCLTGEIDRARELFVSMDINGC-MHNV----VTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTV-----VTYN   94 (260)
Q Consensus        25 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~   94 (260)
                      ..+..+...|++++|..++++...... .|+.    ..+..+...+...+++++|+..+++..+.....+.     .+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346778889999999999999876431 2221    13345677777888999999999999884333222     2688


Q ss_pred             HHHHHHhccccHHHHHHHHHHHhh------cCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC----CCcC-HHHH
Q 044047           95 TLFHGLFEIHQVEHALKLFDEMQH------SDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK----CELG-IEAY  163 (260)
Q Consensus        95 ~l~~~~~~~~~~~~a~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~-~~~~  163 (260)
                      .+...|...|++++|+..|++..+      ...+....++..+...|...|++++|...+++.....    ..+. ..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            899999999999999999999873      1112234478899999999999999999998876432    1222 6788


Q ss_pred             HHHHHHHHhcCC-HHHHHHHHHhhhh
Q 044047          164 SCLIDGLCKIGK-LETAWELFQSLPR  188 (260)
Q Consensus       164 ~~l~~~~~~~~~-~~~a~~~~~~~~~  188 (260)
                      ..+..++...|+ +++|...+++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            999999999995 6999998887654

>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=99.23  E-value=1.9e-09  Score=75.53  Aligned_cols=127  Identities=10%  Similarity=-0.020  Sum_probs=78.4

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHH
Q 044047           21 FVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGL  100 (260)
Q Consensus        21 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  100 (260)
                      ..+..+...+...|++++|...|++..    +|+..+|..+..++...|++++|+..+++..+.... +...+..+..++
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHH
Confidence            344556666777777777777776653    456667777777777777777777777777665322 455666677777


Q ss_pred             hccccHHHHHHHHHHHhhcCCCcch----------------hhHHHHHHHHHhcCcHHHHHHHHHHhhh
Q 044047          101 FEIHQVEHALKLFDEMQHSDVAAET----------------STYNTFIDGLCKNGYIVEAAELFRTLRV  153 (260)
Q Consensus       101 ~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~  153 (260)
                      ...|++++|...|++..+.. +.+.                ..+..+..++...|++++|...++....
T Consensus        82 ~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  149 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  149 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHcccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            77777777777777766543 2222                3444444445555555555555554443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.23  E-value=4.1e-10  Score=72.08  Aligned_cols=108  Identities=10%  Similarity=0.104  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHG   99 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   99 (260)
                      ...+......+.+.|++++|+..|++..+.+ |.+..+|..+..++.+.|++++|+..+++..+.... +...|..+..+
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~   90 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK-FIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh-hhHHHHHHHHH
Confidence            3456666677777777777777777766654 556666777777777777777777777776665332 45566666666


Q ss_pred             HhccccHHHHHHHHHHHhhcCCCcchhhHHH
Q 044047          100 LFEIHQVEHALKLFDEMQHSDVAAETSTYNT  130 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  130 (260)
                      +...|++++|...|++..+.. |.+......
T Consensus        91 ~~~~~~~~~A~~~~~~al~l~-P~~~~a~~~  120 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQVD-PSNEEAREG  120 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-cCCHHHHHH
Confidence            667777777777776666654 334443333

>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=99.23  E-value=1.1e-10  Score=85.71  Aligned_cols=195  Identities=12%  Similarity=0.016  Sum_probs=133.9

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF   97 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   97 (260)
                      .+...+..+...+.+.|++++|...|+...+.. +.+...|..+..++.+.|++++|+..+++..+.... +...+..+.
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg   79 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHH
Confidence            356778889999999999999999999998875 568889999999999999999999999999886433 677888899


Q ss_pred             HHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHH
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLE  177 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  177 (260)
                      .++...|++++|...|++..+.+ +.+...+...+....+.   ..+... ........+.+......+...  ..|+.+
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~i~~~l~~l--~~~~~~  152 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLA-KEQRLNFGDDIPSALRI---AKKKRW-NSIEERRIHQESELHSYLTRL--IAAERE  152 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH-HHTTCCCCSHHHHHHHH---HHHHHH-HHHHHTCCCCCCHHHHHHHHH--HHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHH---HHHHHH-HHHHHHHHhhhHHHHHHHHHH--HHHHHH
Confidence            99999999999999999987653 21211222222222111   111111 112222334455444444332  368889


Q ss_pred             HHHHHHHhhhhCCCCCch-hhHHHHHHHHHhc-CChHHHHHHHHHHHh
Q 044047          178 TAWELFQSLPRVGLMPNV-VTYNIMIHGFCND-GQMDKAHDLFLDMEA  223 (260)
Q Consensus       178 ~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~-g~~~~a~~~~~~~~~  223 (260)
                      +|.+.++...+..  |+. .....+...+.+. +.+++|.++|.++.+
T Consensus       153 ~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          153 RELEECQRNHEGH--EDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHTTTSGGGTTT--SCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHhhhccc--cchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            9999888887753  443 3333343444444 678889999988765

>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=99.22  E-value=2.3e-09  Score=75.06  Aligned_cols=144  Identities=11%  Similarity=-0.043  Sum_probs=116.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHH
Q 044047           57 TYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLC  136 (260)
Q Consensus        57 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  136 (260)
                      .+..+...+...|++++|+..+++..    .|+...+..+...+...|++++|+..+++..+.. +.+...+..+..++.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            45566778889999999999998774    5578899999999999999999999999998875 667888999999999


Q ss_pred             hcCcHHHHHHHHHHhhhcCCC---------------cCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHH
Q 044047          137 KNGYIVEAAELFRTLRVLKCE---------------LGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIM  201 (260)
Q Consensus       137 ~~~~~~~a~~~~~~~~~~~~~---------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  201 (260)
                      ..|++++|...++........               .....+..+..++...|++++|...++...+.........+...
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~a  162 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKA  162 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHH
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcccccchHHHH
Confidence            999999999999998875311               12378889999999999999999999999887543333444444


Q ss_pred             HHHH
Q 044047          202 IHGF  205 (260)
Q Consensus       202 ~~~~  205 (260)
                      +..+
T Consensus       163 ~~~~  166 (213)
T 1hh8_A          163 MECV  166 (213)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4444

>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=99.21  E-value=1.2e-08  Score=83.33  Aligned_cols=235  Identities=11%  Similarity=-0.008  Sum_probs=174.6

Q ss_pred             HHHHHHHHHHhccC-------CHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHH-HHHHHHHhcCCCCCccc
Q 044047           21 FVYSTLIDGFCLTG-------EIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESL-NLYSEMLSKGIRPTVVT   92 (260)
Q Consensus        21 ~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~   92 (260)
                      ..|...+..--..+       ..+.+..+|+++.... +.....|-..+..+...|+.++|. +++++.... .+.+...
T Consensus       303 ~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~L  380 (679)
T 4e6h_A          303 LIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVL  380 (679)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHH
T ss_pred             HHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHH
Confidence            45555555433322       1345667888887664 668889999999999999999997 999999875 3335556


Q ss_pred             hHHHHHHHhccccHHHHHHHHHHHhhcC----------CCc-----------chhhHHHHHHHHHhcCcHHHHHHHHHHh
Q 044047           93 YNTLFHGLFEIHQVEHALKLFDEMQHSD----------VAA-----------ETSTYNTFIDGLCKNGYIVEAAELFRTL  151 (260)
Q Consensus        93 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~----------~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~  151 (260)
                      |..++....+.|+++.|..+|+.+....          .+.           ...+|...+....+.|+.+.|..+|...
T Consensus       381 wl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A  460 (679)
T 4e6h_A          381 AFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKC  460 (679)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            7778888889999999999999987631          111           2346788888888899999999999999


Q ss_pred             hhcCCCcCHHHHHHHHHHHHhc-CCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC--
Q 044047          152 RVLKCELGIEAYSCLIDGLCKI-GKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAP--  228 (260)
Q Consensus       152 ~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p--  228 (260)
                      .+.........|...+..-.+. ++.+.|..+|+...+. .+-+...|...+......|+.+.|..+|++.......+  
T Consensus       461 ~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~  539 (679)
T 4e6h_A          461 RRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHL  539 (679)
T ss_dssp             HHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTH
T ss_pred             HHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHH
Confidence            8762133445555444444444 4599999999998876 23355667788888888999999999999999863221  


Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          229 NCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       229 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ....|...+.--.+.|+.+.+..+.+++.+
T Consensus       540 ~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~  569 (679)
T 4e6h_A          540 LKMIFQKVIFFESKVGSLNSVRTLEKRFFE  569 (679)
T ss_dssp             HHHHHHHHHHHHHHTCCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            346777778877889999999999999875

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.19  E-value=1.4e-08  Score=74.81  Aligned_cols=168  Identities=11%  Similarity=0.039  Sum_probs=117.5

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCc-----cchHHHHHHHhccccHHHHHHHHHHHhhcCCC---cc--
Q 044047           55 VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTV-----VTYNTLFHGLFEIHQVEHALKLFDEMQHSDVA---AE--  124 (260)
Q Consensus        55 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~--  124 (260)
                      ...+...+..+...|++++|.+.+.+..+.......     ..+..+...+...|++++|+..+++..+....   +.  
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            345566777888899999999999887775322111     12334556667788999999998887643211   11  


Q ss_pred             hhhHHHHHHHHHhcCcHHHHHHHHHHhhhc--CCCc----CHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC----CCC-
Q 044047          125 TSTYNTFIDGLCKNGYIVEAAELFRTLRVL--KCEL----GIEAYSCLIDGLCKIGKLETAWELFQSLPRVG----LMP-  193 (260)
Q Consensus       125 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-  193 (260)
                      ..+++.+...|...|++++|...+++....  ..+.    ...++..+...|...|++++|...+++..+..    ... 
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            347788888899999999999998887621  1111    12578888889999999999999888775431    111 


Q ss_pred             chhhHHHHHHHHHhcCChHHH-HHHHHHHH
Q 044047          194 NVVTYNIMIHGFCNDGQMDKA-HDLFLDME  222 (260)
Q Consensus       194 ~~~~~~~l~~~~~~~g~~~~a-~~~~~~~~  222 (260)
                      -..+|..+..++...|++++| ...+++..
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            156778888888899999988 77677665

>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=99.19  E-value=1.7e-09  Score=72.50  Aligned_cols=129  Identities=10%  Similarity=0.049  Sum_probs=76.9

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHG   99 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   99 (260)
                      +..+..+...+...|++++|...|+...+.. +.+..++..+..++...|++++|+..+++..+.... +...+..+..+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHH
Confidence            3455666666677777777777777766554 445666666677777777777777777766665322 45556666666


Q ss_pred             HhccccHHHHHHHHHHHhhcCCCcchhhHHH--HHHHHHhcCcHHHHHHHHHHh
Q 044047          100 LFEIHQVEHALKLFDEMQHSDVAAETSTYNT--FIDGLCKNGYIVEAAELFRTL  151 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~~~~~~a~~~~~~~  151 (260)
                      +...|++++|...+++..+.. +.+...+..  .+..+...|++++|...+...
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            666666666666666665543 233333322  222244556666666555543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=99.19  E-value=1.9e-09  Score=77.87  Aligned_cols=197  Identities=7%  Similarity=-0.087  Sum_probs=140.2

Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCchhhHHHH-------HHHHHhcCChHHHHHHHHHHHhcCCCCCc--------------
Q 044047           32 LTGEIDRARELFVSMDINGCMHNVVTYNTL-------INGYCKTKDVEESLNLYSEMLSKGIRPTV--------------   90 (260)
Q Consensus        32 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------------   90 (260)
                      ..++...|.+.|.++.... |-....|..+       ...+...++..+++..+..-.+  +.|+.              
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            5799999999999998886 6677888877       4555555555666555555443  22221              


Q ss_pred             --------cchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcC--H
Q 044047           91 --------VTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELG--I  160 (260)
Q Consensus        91 --------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~  160 (260)
                              .....+...+...|++++|.++|+.+...+ +-+. ....+...+.+.+++++|+..|+...... .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~-p~~~-~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG-SEHL-VAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT-CHHH-HHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CchH-HHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                    112235567888999999999999887654 3233 66666778889999999999998665432 121  2


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc--hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHH
Q 044047          161 EAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPN--VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTL  236 (260)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  236 (260)
                      ..+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...  .|+......|
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~~~~aL  247 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPEPKVAAAL  247 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHHHH
Confidence            4677888999999999999999998875432243  346677788888999999999999999885  4554433333

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.18  E-value=8.7e-10  Score=70.52  Aligned_cols=97  Identities=15%  Similarity=0.124  Sum_probs=53.7

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHH
Q 044047           56 VTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGL  135 (260)
Q Consensus        56 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  135 (260)
                      ..+......+.+.|++++|++.|++..+..+. +...|..+..++.+.|++++|+..+++..+.+ +.+...|..+..++
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHH
Confidence            34555555566666666666666665554322 44555555555555566666665555555543 34445555555555


Q ss_pred             HhcCcHHHHHHHHHHhhhc
Q 044047          136 CKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus       136 ~~~~~~~~a~~~~~~~~~~  154 (260)
                      ...|++++|.+.|++..+.
T Consensus        92 ~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH
Confidence            5555555555555555544

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.17  E-value=2.2e-09  Score=68.10  Aligned_cols=112  Identities=16%  Similarity=0.247  Sum_probs=66.8

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHG   99 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   99 (260)
                      ...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+.... +..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHH
Confidence            4556666666677777777777777666554 445566666666666667777777766666654322 44555566666


Q ss_pred             HhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHH
Q 044047          100 LFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDG  134 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  134 (260)
                      +...|++++|...++++.+.. +.+...+..+...
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  120 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNA  120 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            666666666666666665543 3333344444333

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.17  E-value=1.8e-09  Score=69.47  Aligned_cols=116  Identities=10%  Similarity=0.106  Sum_probs=63.4

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF   97 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   97 (260)
                      .+...+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|+..+++..+.... +...+..+.
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la   91 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPT-FIKGYTRKA   91 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-chHHHHHHH
Confidence            345556666666666666666666666665543 335555666666666666666666666665554222 344555555


Q ss_pred             HHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHH
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLC  136 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  136 (260)
                      .++...|++++|...|++..+.. +.+...+..+..++.
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~  129 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMM  129 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHH
Confidence            55555666666666665555443 223334444444433

>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=3.9e-10  Score=74.43  Aligned_cols=104  Identities=13%  Similarity=0.032  Sum_probs=78.0

Q ss_pred             chhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHH
Q 044047          124 ETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIH  203 (260)
Q Consensus       124 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  203 (260)
                      +...+..+...+...|++++|...|+...... |.++..|..+..+|...|++++|...|++...... .+...|..+..
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P-~~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGK-NDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS-SCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCC-CCcHHHHHHHH
Confidence            45566777777888888888888888877765 56677788888888888888888888888777642 24667777888


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCChh
Q 044047          204 GFCNDGQMDKAHDLFLDMEAKGVAPNCV  231 (260)
Q Consensus       204 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~  231 (260)
                      ++...|++++|...|++..+.  .|+..
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l--~~~~~  138 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQH--SNDEK  138 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CCCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCHH
Confidence            888888888888888888774  34543

>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=99.16  E-value=6e-10  Score=81.69  Aligned_cols=195  Identities=10%  Similarity=0.003  Sum_probs=132.9

Q ss_pred             CchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHH
Q 044047           53 HNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFI  132 (260)
Q Consensus        53 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  132 (260)
                      .+...+..+...+...|++++|+..|++..+.... +...+..+..++...|++++|...+++..+.. +.+...+..+.
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            35677888899999999999999999999887433 67888899999999999999999999998875 66788899999


Q ss_pred             HHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChH
Q 044047          133 DGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMD  212 (260)
Q Consensus       133 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  212 (260)
                      .++...|++++|...++...... +.+...+...+....+.   ..+... ..........+......+.. + ..|+.+
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~i~~~l~~-l-~~~~~~  152 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLA-KEQRLNFGDDIPSALRI---AKKKRW-NSIEERRIHQESELHSYLTR-L-IAAERE  152 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH-HHTTCCCCSHHHHHHHH---HHHHHH-HHHHHTCCCCCCHHHHHHHH-H-HHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHH---HHHHHH-HHHHHHHHhhhHHHHHHHHH-H-HHHHHH
Confidence            99999999999999999887643 11111111111111111   111111 11222223334444333332 2 368899


Q ss_pred             HHHHHHHHHHhCCCCCChh-hHHHHHHHHHhc-CchhHHHHHHHHHhh
Q 044047          213 KAHDLFLDMEAKGVAPNCV-TFNTLMLGCIRN-NETSKVVELLHRMDE  258 (260)
Q Consensus       213 ~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~-~~~~~a~~~~~~m~~  258 (260)
                      +|.+.+++..+.  .|+.. ....+...+.+. +.+++|.++|++..+
T Consensus       153 ~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          153 RELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            999998887764  45443 333444444444 678889999987654

>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=99.16  E-value=4.6e-09  Score=70.31  Aligned_cols=94  Identities=14%  Similarity=0.132  Sum_probs=43.3

Q ss_pred             hHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHh
Q 044047           93 YNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCK  172 (260)
Q Consensus        93 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  172 (260)
                      +..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...++...... +.+...+..+..++..
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~   93 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH
Confidence            3344444444455555555555444432 2334444444444444555555555444444432 2334444444444444


Q ss_pred             cCCHHHHHHHHHhhhh
Q 044047          173 IGKLETAWELFQSLPR  188 (260)
Q Consensus       173 ~~~~~~a~~~~~~~~~  188 (260)
                      .|++++|...++++.+
T Consensus        94 ~~~~~~A~~~~~~a~~  109 (166)
T 1a17_A           94 LGKFRAALRDYETVVK  109 (166)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHH
Confidence            4444444444444443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.16  E-value=1.4e-09  Score=69.64  Aligned_cols=118  Identities=10%  Similarity=0.007  Sum_probs=68.0

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      +...+..+...+...|++++|...++...... +.+...+..+..++...|++++|...+++..+.... +...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPA-YSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCcc-CHHHHHHHHH
Confidence            44556666666666666666666666665543 345556666666666666666666666666554222 3445555555


Q ss_pred             HHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcC
Q 044047           99 GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNG  139 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  139 (260)
                      .+...|++++|...+++..+.. +.+...+..+..++...|
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  128 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLR  128 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHh
Confidence            6666666666666666655543 334444445555444444

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=99.15  E-value=6.9e-10  Score=80.09  Aligned_cols=187  Identities=10%  Similarity=-0.032  Sum_probs=140.0

Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCccchHHH-------HHHHhccccHHHHHHHHHHHhhcCCCcc---------------
Q 044047           67 KTKDVEESLNLYSEMLSKGIRPTVVTYNTL-------FHGLFEIHQVEHALKLFDEMQHSDVAAE---------------  124 (260)
Q Consensus        67 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------  124 (260)
                      ..++...|.+.|.++.+..+. ....|..+       ...+...++..+++..+..-...  .|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l--~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQI--SMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTC--CGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcC--ChhhhhhhhccCCccccc
Confidence            579999999999999987544 56677766       45566666666666666554431  111               


Q ss_pred             -------hhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc--h
Q 044047          125 -------TSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPN--V  195 (260)
Q Consensus       125 -------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~  195 (260)
                             ......+...+...|++++|.++|..+...+  |+......+...+.+.+++++|+..|+...... .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                   1234456788899999999999999887654  333366677778999999999999998776542 111  3


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          196 VTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPN--CVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       196 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                      ..+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|...|+++...
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            4678889999999999999999999986433253  346677888999999999999999998764

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.14  E-value=1.4e-09  Score=75.41  Aligned_cols=158  Identities=11%  Similarity=-0.026  Sum_probs=96.1

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhc----C-CCcchhhHHHHHHHHHhcCc
Q 044047           66 CKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHS----D-VAAETSTYNTFIDGLCKNGY  140 (260)
Q Consensus        66 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~  140 (260)
                      ...|++++|.+.++.+... ......++..+...+...|++++|...+++....    + .+....++..+...+...|+
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            4567888888855444332 2234566777777777888888888888776541    1 12234566677777777888


Q ss_pred             HHHHHHHHHHhhhcC--CC----cCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCC---CCc--hhhHHHHHHHHHhcC
Q 044047          141 IVEAAELFRTLRVLK--CE----LGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGL---MPN--VVTYNIMIHGFCNDG  209 (260)
Q Consensus       141 ~~~a~~~~~~~~~~~--~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~~~~~l~~~~~~~g  209 (260)
                      +++|...+++.....  .+    .....+..+...+...|++++|...+++......   .+.  ..++..+...+...|
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            888887777665430  11    1234566677777777888888777777653210   111  223466667777777


Q ss_pred             ChHHHHHHHHHHHhC
Q 044047          210 QMDKAHDLFLDMEAK  224 (260)
Q Consensus       210 ~~~~a~~~~~~~~~~  224 (260)
                      ++++|...+++..+.
T Consensus       162 ~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          162 NLLEAQQHWLRARDI  176 (203)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            777777777766653

>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=99.14  E-value=1.2e-09  Score=74.28  Aligned_cols=121  Identities=7%  Similarity=0.081  Sum_probs=76.2

Q ss_pred             hccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHH-HHhcCCH--H
Q 044047          101 FEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDG-LCKIGKL--E  177 (260)
Q Consensus       101 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~  177 (260)
                      ...|++++|...++...+.. +.+...+..+..+|...|++++|...+++..... +.+...+..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchH
Confidence            34566666766676666554 4455666677777777777777777777766554 4455666666666 6666776  7


Q ss_pred             HHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          178 TAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       178 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      +|...++.+..... .+...+..+...+...|++++|...|+++.+.
T Consensus        99 ~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           99 QTRAMIDKALALDS-NEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            77777777666532 23556666777777777777777777777664

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.13  E-value=3.3e-09  Score=68.14  Aligned_cols=118  Identities=13%  Similarity=0.081  Sum_probs=69.5

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHH
Q 044047           52 MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTF  131 (260)
Q Consensus        52 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  131 (260)
                      +.+...+..+...+...|++++|...+++..+.... +...+..+...+...|++++|...+++..+.. +.+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPK-DAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            334556666667777777777777777776655322 45556666666666666666666666665553 3445556666


Q ss_pred             HHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHh
Q 044047          132 IDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCK  172 (260)
Q Consensus       132 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  172 (260)
                      ..++...|++++|...+++..... +.+...+..+..++..
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~  130 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMA  130 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHH
Confidence            666666666666666666655443 2233444444444443

>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=99.13  E-value=2.6e-10  Score=85.78  Aligned_cols=87  Identities=10%  Similarity=-0.031  Sum_probs=46.3

Q ss_pred             cchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHH
Q 044047           91 VTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGL  170 (260)
Q Consensus        91 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  170 (260)
                      .+|..+..++.+.|++++|+..+++..+.. +.+...+..+..+|...|++++|...|++..... +.+...+..+..++
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~  274 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQ  274 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
Confidence            445555555555555555555555555543 3344555555555555555555555555555443 33444555555555


Q ss_pred             HhcCCHHHH
Q 044047          171 CKIGKLETA  179 (260)
Q Consensus       171 ~~~~~~~~a  179 (260)
                      ...|+.++|
T Consensus       275 ~~~~~~~~a  283 (336)
T 1p5q_A          275 QRIRRQLAR  283 (336)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555554

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.13  E-value=9e-09  Score=75.90  Aligned_cols=167  Identities=10%  Similarity=-0.005  Sum_probs=124.4

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCc-----hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC---CC--cc
Q 044047           22 VYSTLIDGFCLTGEIDRARELFVSMDINGCMHN-----VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIR---PT--VV   91 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~--~~   91 (260)
                      .+...+..+...|++++|.+.+....+......     ...+..+...+...|++++|+..+++..+....   +.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            445567778899999999999998876532211     122445666778889999999999998764222   11  34


Q ss_pred             chHHHHHHHhccccHHHHHHHHHHHhh---cC-CCc--chhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC----CCc-CH
Q 044047           92 TYNTLFHGLFEIHQVEHALKLFDEMQH---SD-VAA--ETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK----CEL-GI  160 (260)
Q Consensus        92 ~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~  160 (260)
                      +++.+...|...|++++|...|++..+   .. ..+  ...++..+...|...|++++|...+++.....    ... -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            788889999999999999999998862   21 111  12588899999999999999999999876432    111 26


Q ss_pred             HHHHHHHHHHHhcCCHHHH-HHHHHhhhh
Q 044047          161 EAYSCLIDGLCKIGKLETA-WELFQSLPR  188 (260)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a-~~~~~~~~~  188 (260)
                      .+|..+...|...|++++| ...+++...
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            6788999999999999999 777776543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.12  E-value=1.3e-09  Score=71.91  Aligned_cols=98  Identities=10%  Similarity=-0.037  Sum_probs=47.6

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHH
Q 044047           55 VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDG  134 (260)
Q Consensus        55 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  134 (260)
                      ...+..+...+.+.|++++|+..|++.....+. +...|..+..++...|++++|+..|++..+.. |.++..+..+..+
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~  113 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHH
Confidence            334444444555555555555555555444222 34444445555555555555555555554443 3344444455555


Q ss_pred             HHhcCcHHHHHHHHHHhhhc
Q 044047          135 LCKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus       135 ~~~~~~~~~a~~~~~~~~~~  154 (260)
                      |...|++++|...|+.....
T Consensus       114 ~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            55555555555555554443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.12  E-value=5e-09  Score=66.36  Aligned_cols=98  Identities=17%  Similarity=0.287  Sum_probs=52.2

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHH
Q 044047           55 VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDG  134 (260)
Q Consensus        55 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  134 (260)
                      ...+..+...+...|++++|.+.++++.+... .+..++..+...+...|++++|...++++.+.. +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            34555555566666666666666666555422 134445555555555555555555555555443 3344445555555


Q ss_pred             HHhcCcHHHHHHHHHHhhhc
Q 044047          135 LCKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus       135 ~~~~~~~~~a~~~~~~~~~~  154 (260)
                      +...|++++|...++.+...
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHh
Confidence            55555555555555555443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.11  E-value=3e-09  Score=68.01  Aligned_cols=119  Identities=15%  Similarity=0.081  Sum_probs=63.2

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHH
Q 044047           54 NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFID  133 (260)
Q Consensus        54 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  133 (260)
                      +...+..+...+...|++++|...+++..+.... +...+..+...+...|++++|...+++..+.. +.+...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPA-NAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            3445555566666666666666666666554221 34455555555555666666666665555443 334445555555


Q ss_pred             HHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCC
Q 044047          134 GLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGK  175 (260)
Q Consensus       134 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  175 (260)
                      ++...|++++|...++...... +.+...+..+..++...|+
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            5555555555555555555443 3344444444444444443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.11  E-value=2e-09  Score=74.63  Aligned_cols=158  Identities=11%  Similarity=-0.066  Sum_probs=110.7

Q ss_pred             HhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc----CCC-CCccchHHHHHHHhccc
Q 044047           30 FCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK----GIR-PTVVTYNTLFHGLFEIH  104 (260)
Q Consensus        30 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~  104 (260)
                      +...|++++|.+.++.+... ......++..+...+...|++++|...+++..+.    +.. ....++..+...+...|
T Consensus         2 ~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g   80 (203)
T 3gw4_A            2 AFEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG   80 (203)
T ss_dssp             -----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             ccccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcC
Confidence            34678999999965555432 1346678888889999999999999999887762    111 13456777888888999


Q ss_pred             cHHHHHHHHHHHhhc----CCC--cchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCC-CcC----HHHHHHHHHHHHhc
Q 044047          105 QVEHALKLFDEMQHS----DVA--AETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKC-ELG----IEAYSCLIDGLCKI  173 (260)
Q Consensus       105 ~~~~a~~~~~~~~~~----~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~  173 (260)
                      ++++|...+++....    +-.  .....+..+...+...|++++|...+++...... ..+    ..++..+...+...
T Consensus        81 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  160 (203)
T 3gw4_A           81 NWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQE  160 (203)
T ss_dssp             CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHC
Confidence            999999999887543    201  2245577788888899999999999988764311 112    23457788888899


Q ss_pred             CCHHHHHHHHHhhhh
Q 044047          174 GKLETAWELFQSLPR  188 (260)
Q Consensus       174 ~~~~~a~~~~~~~~~  188 (260)
                      |++++|...+++..+
T Consensus       161 g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          161 KNLLEAQQHWLRARD  175 (203)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH
Confidence            999999888877665

>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=99.08  E-value=1.3e-09  Score=71.83  Aligned_cols=98  Identities=11%  Similarity=-0.046  Sum_probs=49.7

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      +...+..+...+.+.|++++|...|+.....+ |.+...|..+..++...|++++|+..|++....... +...+..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIX-EPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHH
Confidence            33444445555555555555555555554443 334455555555555555555555555555544222 3444444555


Q ss_pred             HHhccccHHHHHHHHHHHhh
Q 044047           99 GLFEIHQVEHALKLFDEMQH  118 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~  118 (260)
                      ++...|++++|...|++..+
T Consensus        98 ~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555555443

>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=99.08  E-value=2e-09  Score=70.94  Aligned_cols=109  Identities=10%  Similarity=0.084  Sum_probs=74.4

Q ss_pred             HHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC
Q 044047          113 FDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM  192 (260)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  192 (260)
                      ++++.... +.+...+..+...+...|++++|...|+...... +.+...|..+..++...|++++|...++.+..... 
T Consensus        10 ~~~al~~~-p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-   86 (148)
T 2vgx_A           10 IAMLNEIS-SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI-   86 (148)
T ss_dssp             HHHHTTCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-
T ss_pred             HHHHHcCC-HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-
Confidence            34444433 3345556666777777777777777777776654 55677777777777777777777777777776532 


Q ss_pred             CchhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          193 PNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       193 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      .+...+..+..++...|++++|...|++..+.
T Consensus        87 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           87 XEPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            24566777777777777777777777777654

>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=99.07  E-value=1.7e-09  Score=73.53  Aligned_cols=119  Identities=11%  Similarity=0.099  Sum_probs=64.9

Q ss_pred             cCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHH-HHhcCcH--HHH
Q 044047           68 TKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDG-LCKNGYI--VEA  144 (260)
Q Consensus        68 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~~a  144 (260)
                      .|++++|+..+++..+... .+...+..+...+...|++++|...|++..+.. +.+...+..+..+ +...|++  ++|
T Consensus        23 ~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~A  100 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQT  100 (177)
T ss_dssp             ----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred             ccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHHH
Confidence            4555555555555554422 144555555555556666666666666555443 3344455555555 5556665  666


Q ss_pred             HHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC
Q 044047          145 AELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  189 (260)
                      ...++...... +.+...+..+...+...|++++|...++.+.+.
T Consensus       101 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          101 RAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            66666665543 334555666666666666666666666666554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.05  E-value=5.2e-09  Score=68.39  Aligned_cols=100  Identities=13%  Similarity=-0.035  Sum_probs=77.0

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      +...+..+...+.+.|++++|...|+.....+ |.+...|..+..++...|++++|+..|++....... +...+..+..
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHH
Confidence            45566667777888888888888888887765 567777888888888888888888888888776433 5666777788


Q ss_pred             HHhccccHHHHHHHHHHHhhcC
Q 044047           99 GLFEIHQVEHALKLFDEMQHSD  120 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~  120 (260)
                      ++...|++++|...|++..+..
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARALA  116 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC
Confidence            8888888888888888876653

>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=99.05  E-value=7.6e-09  Score=77.84  Aligned_cols=96  Identities=13%  Similarity=-0.056  Sum_probs=80.2

Q ss_pred             hhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHH
Q 044047          125 TSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHG  204 (260)
Q Consensus       125 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  204 (260)
                      ...+..+..+|...|++++|+..++...... +.+...+..+..+|...|++++|...|+++.+... .+...+..+..+
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~  273 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVC  273 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHH
Confidence            4678889999999999999999999988876 66788899999999999999999999999888642 256788888889


Q ss_pred             HHhcCChHHH-HHHHHHHH
Q 044047          205 FCNDGQMDKA-HDLFLDME  222 (260)
Q Consensus       205 ~~~~g~~~~a-~~~~~~~~  222 (260)
                      +...|+.++| ...+..|.
T Consensus       274 ~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          274 QQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            9999998888 45666664

>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=99.05  E-value=4.5e-10  Score=77.89  Aligned_cols=174  Identities=16%  Similarity=0.025  Sum_probs=81.6

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcccc
Q 044047           26 LIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQ  105 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  105 (260)
                      .+......|+++.+.+.++.-.... ......+..+...+...|++++|+..|++..+.... +. .+...        .
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~-~~~~~--------~   78 (198)
T 2fbn_A           10 HSSGRENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIH-TE-EWDDQ--------I   78 (198)
T ss_dssp             ------------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTT-CT-TCCCH--------H
T ss_pred             hhhhhhhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhc-cc-ccchh--------h
Confidence            3444445566666666664332211 224556777777888888888888888888764222 11 01000        0


Q ss_pred             HHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHh
Q 044047          106 VEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQS  185 (260)
Q Consensus       106 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  185 (260)
                      ...-.   .       ......+..+..+|...|++++|+..++...... +.+...+..+..++...|++++|...|+.
T Consensus        79 ~~~~~---~-------~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~  147 (198)
T 2fbn_A           79 LLDKK---K-------NIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYK  147 (198)
T ss_dssp             HHHHH---H-------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHH---H-------HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            00000   0       0012345555566666666666666666655543 44555666666666666666666666666


Q ss_pred             hhhCCCCCchhhHHHHHHHHHhcCChHHHH-HHHHHHH
Q 044047          186 LPRVGLMPNVVTYNIMIHGFCNDGQMDKAH-DLFLDME  222 (260)
Q Consensus       186 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~-~~~~~~~  222 (260)
                      ..+... .+...+..+..++...++.+++. ..+..+.
T Consensus       148 al~~~p-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f  184 (198)
T 2fbn_A          148 AASLNP-NNLDIRNSYELCVNKLKEARKKDKLTFGGMF  184 (198)
T ss_dssp             HHHHST-TCHHHHHHHHHHHHHHHHHHC----------
T ss_pred             HHHHCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            555421 13445555555555555555554 3344443

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=99.04  E-value=2.1e-08  Score=62.73  Aligned_cols=100  Identities=16%  Similarity=0.094  Sum_probs=62.6

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      .+..+..+...+...|++++|...++...... +.+...+..+..++...|++++|...+++..+.... +...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHHHHHHHHH
Confidence            34556666666667777777777777666554 445666666666666677777777777666655322 4455556666


Q ss_pred             HHhccccHHHHHHHHHHHhhcC
Q 044047           99 GLFEIHQVEHALKLFDEMQHSD  120 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~  120 (260)
                      ++...|++++|...+++..+.+
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHhhHHHHHHHHHHHHHcC
Confidence            6666666666666666665543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.02  E-value=2.6e-09  Score=69.88  Aligned_cols=99  Identities=12%  Similarity=0.006  Sum_probs=69.1

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHH
Q 044047           54 NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFID  133 (260)
Q Consensus        54 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  133 (260)
                      +...+..+...+...|++++|+..|++.....+. +...|..+..++...|++++|+..|++..... |.+...+..+..
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            4455666667777777777777777777765433 56666677777777777777777777777665 455666677777


Q ss_pred             HHHhcCcHHHHHHHHHHhhhc
Q 044047          134 GLCKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus       134 ~~~~~~~~~~a~~~~~~~~~~  154 (260)
                      ++...|++++|...|+.....
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            777777777777777776654

>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=99.02  E-value=9.9e-07  Score=65.52  Aligned_cols=215  Identities=10%  Similarity=0.008  Sum_probs=146.7

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCC----------HHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcC--
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGE----------IDRARELFVSMDINGCMHNVVTYNTLINGYCKTK--   69 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--   69 (260)
                      ++|+++++.+...+ |-+..+|+.--..+...+.          +++++.+++.+...+ |-+..+|+.-...+...+  
T Consensus        47 ~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~  124 (331)
T 3dss_A           47 ESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEP  124 (331)
T ss_dssp             HHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSC
T ss_pred             HHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcc
Confidence            46788888888775 3355666665555544433          678888888888766 667788887777777777  


Q ss_pred             ChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcccc-HHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhc----------
Q 044047           70 DVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQ-VEHALKLFDEMQHSDVAAETSTYNTFIDGLCKN----------  138 (260)
Q Consensus        70 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------  138 (260)
                      ++++++.+++++.+..+. |..+|+.-...+...|. +++++..++.+.+.+ +.+...|+.....+...          
T Consensus       125 ~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~  202 (331)
T 3dss_A          125 NWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQG  202 (331)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHSCCC------
T ss_pred             cHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhhhcccccccc
Confidence            478999999999887655 77777777777777777 588888888888876 66777777766665554          


Q ss_pred             ----CcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhc-----------CCHHHHHHHHHhhhhCCCCCchhhHHHHHH
Q 044047          139 ----GYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKI-----------GKLETAWELFQSLPRVGLMPNVVTYNIMIH  203 (260)
Q Consensus       139 ----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  203 (260)
                          +.++++++.+....... |-|...|+-+-..+.+.           +.++++++.++++.+..  |+. .|..+..
T Consensus       203 ~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~--pd~-~w~l~~~  278 (331)
T 3dss_A          203 RLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE--PEN-KWCLLTI  278 (331)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC--TTC-HHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC--ccc-chHHHHH
Confidence                45777888888777665 66777776554444444           34667777777777653  442 3332222


Q ss_pred             -----HHHhcCChHHHHHHHHHHHhC
Q 044047          204 -----GFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       204 -----~~~~~g~~~~a~~~~~~~~~~  224 (260)
                           .....|..+++...+.++.+.
T Consensus       279 ~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          279 ILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             HHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcccccHHHHHHHHHHHHHh
Confidence                 222356667777777777763

>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=99.01  E-value=9.8e-07  Score=65.54  Aligned_cols=231  Identities=10%  Similarity=0.015  Sum_probs=164.5

Q ss_pred             HHHHHHHHHH---HhccCCH-HHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCC----------hHHHHHHHHHHHhcC
Q 044047           20 AFVYSTLIDG---FCLTGEI-DRARELFVSMDINGCMHNVVTYNTLINGYCKTKD----------VEESLNLYSEMLSKG   85 (260)
Q Consensus        20 ~~~~~~l~~~---~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~   85 (260)
                      ...|..+...   ..+.|.+ ++|+.+++.+...+ |-+..+|+.--..+...+.          +++++.+++.+....
T Consensus        26 i~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~  104 (331)
T 3dss_A           26 LKLYQSATQAVFQKRQAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN  104 (331)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC
Confidence            3444444433   2345554 47999999999876 5566677755555444433          678999999998876


Q ss_pred             CCCCccchHHHHHHHhccc--cHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCc-HHHHHHHHHHhhhcCCCcCHHH
Q 044047           86 IRPTVVTYNTLFHGLFEIH--QVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGY-IVEAAELFRTLRVLKCELGIEA  162 (260)
Q Consensus        86 ~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~  162 (260)
                      ++ +..+|+.-...+...+  .+++++.+++.+.+.. +-+...|+.-.-.+...|. ++++++.+..+.... +-|...
T Consensus       105 PK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SA  181 (331)
T 3dss_A          105 PK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSS  181 (331)
T ss_dssp             TT-CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHH
T ss_pred             CC-CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHH
Confidence            55 7788888777777777  4899999999999887 6688888887777788888 589999999998876 667778


Q ss_pred             HHHHHHHHHhc--------------CCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhc-----------CChHHHHHH
Q 044047          163 YSCLIDGLCKI--------------GKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCND-----------GQMDKAHDL  217 (260)
Q Consensus       163 ~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------g~~~~a~~~  217 (260)
                      |+.....+.+.              +.++++++.+.......+ -|..+|+.+-..+.+.           +.++++++.
T Consensus       182 W~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P-~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~  260 (331)
T 3dss_A          182 WHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELES  260 (331)
T ss_dssp             HHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHH
Confidence            87776666554              457889999988887643 3677777655555544           457899999


Q ss_pred             HHHHHhCCCCCChhhHHHHHHH-----HHhcCchhHHHHHHHHHhh
Q 044047          218 FLDMEAKGVAPNCVTFNTLMLG-----CIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       218 ~~~~~~~~~~p~~~~~~~l~~~-----~~~~~~~~~a~~~~~~m~~  258 (260)
                      ++++.+.  .|+. .|..+..+     ....|..+++...+.++++
T Consensus       261 ~~elle~--~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          261 CKELQEL--EPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             HHHHHHH--CTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             HHHHHhh--Cccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence            9999885  4553 33322221     1245777788888888765

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=99.00  E-value=2.1e-08  Score=63.96  Aligned_cols=99  Identities=12%  Similarity=0.087  Sum_probs=68.1

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      ++..+..+...+.+.|++++|...|++..+.. |.+...|..+..++.+.|++++|+..+++..+.... +...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~   80 (126)
T 3upv_A            3 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHH
Confidence            34556667777777777777777777776664 556677777777777777777777777777765432 4556666777


Q ss_pred             HHhccccHHHHHHHHHHHhhc
Q 044047           99 GLFEIHQVEHALKLFDEMQHS  119 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~  119 (260)
                      ++...|++++|...|++..+.
T Consensus        81 ~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           81 AQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHHh
Confidence            777777777777777766553

>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=1.3e-09  Score=75.52  Aligned_cols=130  Identities=14%  Similarity=-0.018  Sum_probs=93.8

Q ss_pred             hhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcC----------------HHHHHHHHHHHHhcCCHHHHHHHHHhhhh
Q 044047          125 TSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELG----------------IEAYSCLIDGLCKIGKLETAWELFQSLPR  188 (260)
Q Consensus       125 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (260)
                      ...+..+...+...|++++|...|++..... +.+                ...+..+..++...|++++|...++...+
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~  116 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFF-IHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLK  116 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-TTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-hcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3445566666677777777777777666542 112                36788899999999999999999999988


Q ss_pred             CCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHH-HHHHHHh
Q 044047          189 VGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVV-ELLHRMD  257 (260)
Q Consensus       189 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~-~~~~~m~  257 (260)
                      .. +.+...+..+..++...|++++|...|++..+.. +-+...+..+..++...++.+++. ..+..|.
T Consensus       117 ~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f  184 (198)
T 2fbn_A          117 ID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGMF  184 (198)
T ss_dssp             HS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC----------
T ss_pred             hC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            64 2367889999999999999999999999998762 335677778888888888777766 4444443

>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=98.98  E-value=5.7e-08  Score=60.73  Aligned_cols=97  Identities=12%  Similarity=-0.004  Sum_probs=49.4

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHH
Q 044047           56 VTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGL  135 (260)
Q Consensus        56 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  135 (260)
                      ..+..+...+...|++++|...+++....... +...+..+...+...|++++|...+++..+.. +.+...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            34455555555555666666655555544221 34444455555555555555555555554443 33344444555555


Q ss_pred             HhcCcHHHHHHHHHHhhhc
Q 044047          136 CKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus       136 ~~~~~~~~a~~~~~~~~~~  154 (260)
                      ...|++++|...++.....
T Consensus        83 ~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhHHHHHHHHHHHHHc
Confidence            5555555555555554443

>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=98.97  E-value=4.2e-08  Score=62.51  Aligned_cols=97  Identities=10%  Similarity=-0.060  Sum_probs=62.9

Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHH
Q 044047          126 STYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGF  205 (260)
Q Consensus       126 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  205 (260)
                      ..+......+...|++++|...|++..... +.+...|..+..++...|++++|...++...+... .+...|..+..++
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~   82 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP-NFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHH
Confidence            345556666666777777777776666554 44566666677777777777777777776666532 2455666666777


Q ss_pred             HhcCChHHHHHHHHHHHhC
Q 044047          206 CNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       206 ~~~g~~~~a~~~~~~~~~~  224 (260)
                      ...|++++|...|++..+.
T Consensus        83 ~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           83 IAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHh
Confidence            7777777777777766653

>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=98.96  E-value=2.2e-08  Score=64.71  Aligned_cols=101  Identities=14%  Similarity=0.047  Sum_probs=75.8

Q ss_pred             CccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHH
Q 044047           17 RPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTL   96 (260)
Q Consensus        17 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   96 (260)
                      +.++..+..+...+...|++++|...|+...... +.+...|..+..++...|++++|+..+++..+.... +...+..+
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l   83 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFL   83 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHH
Confidence            3456777778888888888888888888877665 556777788888888888888888888887776433 56677777


Q ss_pred             HHHHhccccHHHHHHHHHHHhhc
Q 044047           97 FHGLFEIHQVEHALKLFDEMQHS  119 (260)
Q Consensus        97 ~~~~~~~~~~~~a~~~~~~~~~~  119 (260)
                      ..++...|++++|...|++..+.
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH
Confidence            77787888888888888776654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.96  E-value=2.6e-08  Score=66.72  Aligned_cols=101  Identities=10%  Similarity=0.058  Sum_probs=76.1

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF   97 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   97 (260)
                      .++..+..+...+.+.|++++|...|++..+.. +.+...|..+..++...|++++|+..+++..+.... +...|..+.
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg   86 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHH
Confidence            356677777888888888888888888877765 556777788888888888888888888887776433 566777777


Q ss_pred             HHHhccccHHHHHHHHHHHhhcC
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSD  120 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~  120 (260)
                      .++...|++++|...|++..+..
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC
Confidence            77888888888888887776653

>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=98.94  E-value=3.2e-08  Score=63.24  Aligned_cols=107  Identities=10%  Similarity=0.024  Sum_probs=67.4

Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC--Cc----hhhHH
Q 044047          126 STYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM--PN----VVTYN  199 (260)
Q Consensus       126 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~  199 (260)
                      ..+..+...+.+.|++++|+..|++..... |.+...|..+..+|...|++++|...+++..+....  ++    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            345566666677777777777777666654 445666777777777777777777777666543210  01    13566


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHH
Q 044047          200 IMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNT  235 (260)
Q Consensus       200 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  235 (260)
                      .+..++...|++++|++.|++.+..  .|++.+...
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~  121 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVKK  121 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHHH
Confidence            6667777777777777777777663  455554433

>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=98.94  E-value=2.8e-08  Score=63.56  Aligned_cols=98  Identities=12%  Similarity=0.124  Sum_probs=63.7

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC--C----ccch
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRP--T----VVTY   93 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~----~~~~   93 (260)
                      ...+..+...+.+.|++++|+..|++..+.. |.+...|..+..+|...|++++|+..+++..+.....  +    ..+|
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            4456677777777888888888887777665 5566777777777778888888877777776542110  0    1234


Q ss_pred             HHHHHHHhccccHHHHHHHHHHHhh
Q 044047           94 NTLFHGLFEIHQVEHALKLFDEMQH  118 (260)
Q Consensus        94 ~~l~~~~~~~~~~~~a~~~~~~~~~  118 (260)
                      ..+..++...|++++|+..|++...
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4455555556666666666665544

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.94  E-value=5.3e-08  Score=60.30  Aligned_cols=95  Identities=16%  Similarity=0.070  Sum_probs=40.9

Q ss_pred             chHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCc--CHHHHHHHHHH
Q 044047           92 TYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCEL--GIEAYSCLIDG  169 (260)
Q Consensus        92 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~  169 (260)
                      .+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..... +.  +...+..+..+
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHH
Confidence            33444444444444444444444444332 2233344444444444444444444444444332 22  33444444444


Q ss_pred             HHhc-CCHHHHHHHHHhhhh
Q 044047          170 LCKI-GKLETAWELFQSLPR  188 (260)
Q Consensus       170 ~~~~-~~~~~a~~~~~~~~~  188 (260)
                      +... |++++|.+.++....
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHhCCHHHHHHHHHHHhh
Confidence            4444 444444444444443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.92  E-value=9.3e-08  Score=62.50  Aligned_cols=100  Identities=10%  Similarity=-0.022  Sum_probs=63.2

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCc---hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHN---VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNT   95 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   95 (260)
                      +...+..+...+...|++++|...|+...+.. +.+   ...|..+..++...|++++|+..+++..+.... +...+..
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~  104 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD-ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKALYR  104 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc-ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHHHHH
Confidence            45566666777777777777777777766553 222   556666666667777777777777666654322 4455556


Q ss_pred             HHHHHhccccHHHHHHHHHHHhhcC
Q 044047           96 LFHGLFEIHQVEHALKLFDEMQHSD  120 (260)
Q Consensus        96 l~~~~~~~~~~~~a~~~~~~~~~~~  120 (260)
                      +..++...|++++|...|++..+..
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            6666666666666666666665543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.90  E-value=3.5e-07  Score=71.10  Aligned_cols=198  Identities=7%  Similarity=-0.052  Sum_probs=129.0

Q ss_pred             HHHHhccCCHHHHHHHHHHHhhcCCCCch----------------hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-CC
Q 044047           27 IDGFCLTGEIDRARELFVSMDINGCMHNV----------------VTYNTLINGYCKTKDVEESLNLYSEMLSKGIR-PT   89 (260)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~   89 (260)
                      ...+.+.|++++|.+.|..+.+.......                .++..+...|...|++++|.+.+.++...-.. ++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            55677889999999999888765422111                13677888888888888888888877653111 11


Q ss_pred             c----cchHHHHHHHhccccHHHHHHHHHHHhhc----CC-CcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC-----
Q 044047           90 V----VTYNTLFHGLFEIHQVEHALKLFDEMQHS----DV-AAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK-----  155 (260)
Q Consensus        90 ~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----  155 (260)
                      .    .+.+.+...+...|+.+.+..+++.....    +. ..-..++..+...+...|++++|..+++.+...-     
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            1    12233344455667888888888776432    21 1224566778888888888888888887765331     


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC----CCCCc--hhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          156 CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRV----GLMPN--VVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       156 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      .+.....+..++..|...|++++|..+++.....    +.++.  ...+..+...+...|++++|...|.+..+.
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~~  245 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFES  245 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            1112456777788888888888888888776542    11111  234556666677788888888888777653

>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=98.89  E-value=4e-08  Score=62.73  Aligned_cols=112  Identities=10%  Similarity=0.057  Sum_probs=66.3

Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC--Cc----hhhHH
Q 044047          126 STYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM--PN----VVTYN  199 (260)
Q Consensus       126 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~  199 (260)
                      ..+..+...+...|++++|...++...... +.+...+..+...+...|++++|...++.+......  ++    ..++.
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            345555666666666666666666665543 445556666666666666666666666665543211  11    45566


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 044047          200 IMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGC  240 (260)
Q Consensus       200 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  240 (260)
                      .+..++...|++++|...|++..+.  .|+......+..+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~  122 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQAE  122 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHHHH
Confidence            6666777777777777777776664  34554444444433

>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=98.89  E-value=5.3e-08  Score=62.89  Aligned_cols=99  Identities=12%  Similarity=0.015  Sum_probs=57.4

Q ss_pred             CchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHH
Q 044047           53 HNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFI  132 (260)
Q Consensus        53 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  132 (260)
                      .+...|..+...+...|++++|+..|++..+.... +...+..+..++...|++++|...+++..+.. +.+...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            34555666666666666666666666666554322 34555555666666666666666666655543 33455555556


Q ss_pred             HHHHhcCcHHHHHHHHHHhhh
Q 044047          133 DGLCKNGYIVEAAELFRTLRV  153 (260)
Q Consensus       133 ~~~~~~~~~~~a~~~~~~~~~  153 (260)
                      .++...|++++|...++....
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            666666666666666655543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.88  E-value=4.7e-08  Score=60.52  Aligned_cols=99  Identities=10%  Similarity=-0.092  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-CCccchHHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIR-PTVVTYNTLFH   98 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~   98 (260)
                      ...+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..+.... .+...+..+..
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            4445555666666666666666666665543 344555556666666666666666666665554211 02445555555


Q ss_pred             HHhcc-ccHHHHHHHHHHHhhc
Q 044047           99 GLFEI-HQVEHALKLFDEMQHS  119 (260)
Q Consensus        99 ~~~~~-~~~~~a~~~~~~~~~~  119 (260)
                      .+... |++++|.+.++.....
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHhCCHHHHHHHHHHHhhc
Confidence            55566 6666666666655544

>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=2.9e-08  Score=63.36  Aligned_cols=99  Identities=12%  Similarity=0.145  Sum_probs=64.9

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC--CC----ccch
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIR--PT----VVTY   93 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~   93 (260)
                      +..+..+...+...|++++|...++...... +.+...+..+..++...|++++|...+++..+....  ++    ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            4556667777777777777777777776654 456666777777777777777777777776654221  11    4455


Q ss_pred             HHHHHHHhccccHHHHHHHHHHHhhc
Q 044047           94 NTLFHGLFEIHQVEHALKLFDEMQHS  119 (260)
Q Consensus        94 ~~l~~~~~~~~~~~~a~~~~~~~~~~  119 (260)
                      ..+...+...|++++|...|++..+.
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            55666666666666666666666554

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.88  E-value=2.5e-07  Score=71.91  Aligned_cols=188  Identities=10%  Similarity=-0.012  Sum_probs=134.7

Q ss_pred             hhHHHHHHHHHHcCCCccH----------------HHHHHHHHHHhccCCHHHHHHHHHHHhhcC-CCCch----hhHHH
Q 044047            2 DEASRLLDLMIQRGVRPNA----------------FVYSTLIDGFCLTGEIDRARELFVSMDING-CMHNV----VTYNT   60 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~----~~~~~   60 (260)
                      ++|++.|..+.+.......                ..+..++..|...|++++|.+.+..+...- ..++.    .+.+.
T Consensus        21 ~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (434)
T 4b4t_Q           21 NEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTL  100 (434)
T ss_dssp             HHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHH
Confidence            6788999888886433211                246788999999999999999999876531 11222    12333


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhc----CCCCC-ccchHHHHHHHhccccHHHHHHHHHHHhhc--C---CCcchhhHHH
Q 044047           61 LINGYCKTKDVEESLNLYSEMLSK----GIRPT-VVTYNTLFHGLFEIHQVEHALKLFDEMQHS--D---VAAETSTYNT  130 (260)
Q Consensus        61 l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~---~~~~~~~~~~  130 (260)
                      +-..+...|+++.|..++++....    +..+. ..++..+...+...|++++|..+++++...  +   -+....++..
T Consensus       101 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~  180 (434)
T 4b4t_Q          101 IEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLL  180 (434)
T ss_dssp             HHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHH
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHH
Confidence            444455678999999999887643    22222 346678899999999999999999987543  1   1122457888


Q ss_pred             HHHHHHhcCcHHHHHHHHHHhhhcC--CC--cC--HHHHHHHHHHHHhcCCHHHHHHHHHhhhhC
Q 044047          131 FIDGLCKNGYIVEAAELFRTLRVLK--CE--LG--IEAYSCLIDGLCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       131 l~~~~~~~~~~~~a~~~~~~~~~~~--~~--~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  189 (260)
                      ++..|...|++++|...++......  ..  +.  ...+..+...+...|++++|...+....+.
T Consensus       181 ~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~~  245 (434)
T 4b4t_Q          181 ESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFES  245 (434)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            8999999999999999998875431  11  11  245667778888899999999999888775

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.87  E-value=1.5e-07  Score=63.01  Aligned_cols=98  Identities=13%  Similarity=0.029  Sum_probs=64.3

Q ss_pred             ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHH
Q 044047           90 VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDG  169 (260)
Q Consensus        90 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  169 (260)
                      ...+..+...+...|++++|+..|++..+.. +.+...+..+..+|...|++++|+..++...... +.+...|..+..+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            4455566666667777777777777766654 4456666666667777777777777776666554 4456666666667


Q ss_pred             HHhcCCHHHHHHHHHhhhhC
Q 044047          170 LCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       170 ~~~~~~~~~a~~~~~~~~~~  189 (260)
                      +...|++++|...|++..+.
T Consensus        89 ~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHh
Confidence            77777777777777666654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.86  E-value=2.1e-07  Score=60.80  Aligned_cols=98  Identities=16%  Similarity=0.090  Sum_probs=57.0

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC----ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHH
Q 044047           54 NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT----VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYN  129 (260)
Q Consensus        54 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  129 (260)
                      +...+..+...+...|++++|+..|++..+..  |+    ...+..+...+...|++++|...+++..+.. +.+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            45556666666667777777777777666542  33    3445555555566666666666666555543 33444555


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHhhhc
Q 044047          130 TFIDGLCKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus       130 ~l~~~~~~~~~~~~a~~~~~~~~~~  154 (260)
                      .+..++...|++++|...+++....
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            5555555566666666655555544

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.85  E-value=4.3e-06  Score=66.18  Aligned_cols=205  Identities=9%  Similarity=-0.029  Sum_probs=138.5

Q ss_pred             HHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHH
Q 044047           36 IDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDE  115 (260)
Q Consensus        36 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  115 (260)
                      .+.+..+|+++.... +.+...|...+..+...|+.+.|..++++....   |.......   .|....+.++.   ++.
T Consensus       195 ~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~~---~y~~~~e~~~~---~~~  264 (493)
T 2uy1_A          195 ESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLSL---YYGLVMDEEAV---YGD  264 (493)
T ss_dssp             HHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHH---HHHHHTTCTHH---HHH
T ss_pred             HHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHHH---HHHhhcchhHH---HHH
Confidence            345678888887754 667888999999999999999999999999987   44332211   22222111221   222


Q ss_pred             HhhcC------------CCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcC-CHHHHHHH
Q 044047          116 MQHSD------------VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIG-KLETAWEL  182 (260)
Q Consensus       116 ~~~~~------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~  182 (260)
                      +.+.-            .......|...+....+.++.+.|..+|+.. ... +.+...|...+..-...+ +.+.|..+
T Consensus       265 l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~i  342 (493)
T 2uy1_A          265 LKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNI  342 (493)
T ss_dssp             HHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHH
T ss_pred             HHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHH
Confidence            22110            0112345777777777788899999999998 322 235555554333333333 69999999


Q ss_pred             HHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          183 FQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      |+...+... -++..+...+......|+.+.|..+|+++.     .....|...+.--...|+.+.+..++++..+
T Consensus       343 fe~al~~~~-~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          343 FSSGLLKHP-DSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999887532 234456667777788999999999999873     2567777777766778999999998888763

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.83  E-value=7e-08  Score=61.09  Aligned_cols=95  Identities=8%  Similarity=-0.072  Sum_probs=58.6

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhc
Q 044047           23 YSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFE  102 (260)
Q Consensus        23 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  102 (260)
                      +..+...+.+.|++++|...|+...+.. |.+...|..+..++...|++++|+..+++..+..+. +...+..+..++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            3445556666666666666666666554 445666666666666666666666666666665332 44555666666666


Q ss_pred             cccHHHHHHHHHHHhhc
Q 044047          103 IHQVEHALKLFDEMQHS  119 (260)
Q Consensus       103 ~~~~~~a~~~~~~~~~~  119 (260)
                      .|++++|+..+++..+.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           98 EHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHC-
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            66666666666666543

>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=5.2e-09  Score=82.49  Aligned_cols=125  Identities=10%  Similarity=0.081  Sum_probs=100.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHh
Q 044047           22 VYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLF  101 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  101 (260)
                      .+..+...+.+.|++++|.+.+++..+.. +.+..+|..+..++.+.|++++|+..+++..+.... +..++..+..+|.
T Consensus         8 ~~~~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~   85 (477)
T 1wao_1            8 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNM   85 (477)
T ss_dssp             TSSSSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            34445566778999999999999998875 667899999999999999999999999999987443 6778889999999


Q ss_pred             ccccHHHHHHHHHHHhhcCCCcchhhHHHHHHH--HHhcCcHHHHHHHHH
Q 044047          102 EIHQVEHALKLFDEMQHSDVAAETSTYNTFIDG--LCKNGYIVEAAELFR  149 (260)
Q Consensus       102 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  149 (260)
                      ..|++++|...|++..+.. +.+...+..+..+  +...|++++|++.++
T Consensus        86 ~~g~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           86 ALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHTCHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999999998765 4455566666666  788899999999988

>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=98.78  E-value=1.7e-07  Score=73.59  Aligned_cols=87  Identities=10%  Similarity=-0.021  Sum_probs=40.1

Q ss_pred             cchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHH
Q 044047           91 VTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGL  170 (260)
Q Consensus        91 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  170 (260)
                      ..|..+..++.+.|++++|+..+++..+.. +.+...+..+..+|...|++++|...|++..... +.+...+..+..++
T Consensus       318 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~  395 (457)
T 1kt0_A          318 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQ  395 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            344444445555555555555555544443 3344444455555555555555555555544432 22333444444444


Q ss_pred             HhcCCHHHH
Q 044047          171 CKIGKLETA  179 (260)
Q Consensus       171 ~~~~~~~~a  179 (260)
                      .+.++.+++
T Consensus       396 ~~~~~~~~a  404 (457)
T 1kt0_A          396 KKAKEHNER  404 (457)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.77  E-value=1.2e-07  Score=60.01  Aligned_cols=89  Identities=13%  Similarity=-0.024  Sum_probs=36.1

Q ss_pred             HHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCCh
Q 044047          132 IDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQM  211 (260)
Q Consensus       132 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  211 (260)
                      ...+.+.|++++|...++...... +.+...|..+..++...|++++|...+++..+... .+...+..+..++...|++
T Consensus        24 g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~~~~g~~  101 (121)
T 1hxi_A           24 GLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTNEHNA  101 (121)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCH
Confidence            333344444444444444443332 22333444444444444444444444444433321 1233334444444444444


Q ss_pred             HHHHHHHHHHH
Q 044047          212 DKAHDLFLDME  222 (260)
Q Consensus       212 ~~a~~~~~~~~  222 (260)
                      ++|...+++..
T Consensus       102 ~~A~~~~~~al  112 (121)
T 1hxi_A          102 NAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            44444444443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.76  E-value=6.4e-07  Score=57.03  Aligned_cols=94  Identities=14%  Similarity=0.077  Sum_probs=55.5

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHhhcCCCCch---hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--ccchHHHHHH
Q 044047           25 TLIDGFCLTGEIDRARELFVSMDINGCMHNV---VTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT--VVTYNTLFHG   99 (260)
Q Consensus        25 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~   99 (260)
                      .+...+...|++++|...|+.+.+.. |.+.   ..+..+..++...|++++|...+++..+......  ...+..+..+
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            34555666677777777776666543 2222   3556666666666777777777666665432210  3445555666


Q ss_pred             HhccccHHHHHHHHHHHhhc
Q 044047          100 LFEIHQVEHALKLFDEMQHS  119 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~  119 (260)
                      +...|++++|...|+++.+.
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            66666666666666666554

>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=98.76  E-value=1.9e-08  Score=79.26  Aligned_cols=124  Identities=12%  Similarity=0.056  Sum_probs=76.7

Q ss_pred             hHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHh
Q 044047           93 YNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCK  172 (260)
Q Consensus        93 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  172 (260)
                      +..+...+.+.|++++|...|++..+.. +.+...+..+..+|.+.|++++|+..+++..+.. +.+...+..+..+|..
T Consensus         9 ~~~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~   86 (477)
T 1wao_1            9 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   86 (477)
T ss_dssp             SSSSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            3344445556677777777777766654 4456667777777777777777777777776654 4456667777777777


Q ss_pred             cCCHHHHHHHHHhhhhCCCCCchhhHHHHHHH--HHhcCChHHHHHHHH
Q 044047          173 IGKLETAWELFQSLPRVGLMPNVVTYNIMIHG--FCNDGQMDKAHDLFL  219 (260)
Q Consensus       173 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~~~~  219 (260)
                      .|++++|.+.++++.+.... +...+..+..+  +.+.|++++|.+.++
T Consensus        87 ~g~~~eA~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           87 LGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HTCHHHHHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             cCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            77777777777776664321 23444444444  666677777777766

>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=98.75  E-value=1.9e-07  Score=71.16  Aligned_cols=123  Identities=9%  Similarity=-0.028  Sum_probs=68.7

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhc---------------CCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDIN---------------GCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK   84 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   84 (260)
                      ...+..+...+.+.|++++|...|++..+.               .-+.+..+|..+..++.+.|++++|+..+++..+.
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  302 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI  302 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh
Confidence            345667777888888888888888877651               00223445555555566666666666666665554


Q ss_pred             CCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHH
Q 044047           85 GIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEA  144 (260)
Q Consensus        85 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  144 (260)
                      ... +...+..+..+|...|++++|+..|++..+.. +.+...+..+..++...++.+++
T Consensus       303 ~p~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          303 DPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             CTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             Cch-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            222 34455555555555555666655555555443 33444444444444444444433

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.75  E-value=1.1e-07  Score=62.95  Aligned_cols=131  Identities=14%  Similarity=0.033  Sum_probs=65.5

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHhhhcCCC-cC----HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC----CCC-chh
Q 044047          127 TYNTFIDGLCKNGYIVEAAELFRTLRVLKCE-LG----IEAYSCLIDGLCKIGKLETAWELFQSLPRVG----LMP-NVV  196 (260)
Q Consensus       127 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~  196 (260)
                      ++..+...+...|++++|...+++....... .+    ...+..+...+...|++++|...++......    ..+ ...
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            3444445555555555555555544322100 01    1244555555556666666666655543321    000 123


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhC----CCC-CChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          197 TYNIMIHGFCNDGQMDKAHDLFLDMEAK----GVA-PNCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       197 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      .+..+...+...|++++|...+++..+.    +.+ .....+..+...+...|++++|.+.+++..
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  156 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHL  156 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            4555556666666666666666655432    111 112345556666666677777766666554

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.75  E-value=8.8e-07  Score=56.37  Aligned_cols=93  Identities=11%  Similarity=0.051  Sum_probs=46.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCc---cchHHHHHHHhccccHHHHHHHHHHHhhcCCCcc---hhhHHHHHH
Q 044047           60 TLINGYCKTKDVEESLNLYSEMLSKGIRPTV---VTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAE---TSTYNTFID  133 (260)
Q Consensus        60 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~  133 (260)
                      .+...+...|++++|...+++..+.... +.   ..+..+..++...|++++|...|++..+.. +.+   ...+..+..
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~   84 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHH
Confidence            3444455555666666665555553221 11   244445555555555555555555554433 222   334444555


Q ss_pred             HHHhcCcHHHHHHHHHHhhhc
Q 044047          134 GLCKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus       134 ~~~~~~~~~~a~~~~~~~~~~  154 (260)
                      ++...|++++|...++.+...
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            555555555555555555443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.72  E-value=3.8e-07  Score=60.80  Aligned_cols=101  Identities=10%  Similarity=0.066  Sum_probs=70.2

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhc--------C---------CCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDIN--------G---------CMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      .+..+......+.+.|++++|...|......        .         -+.+...|..+..++.+.|++++|+..+++.
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            4567788888999999999999999888664        1         0223356666777777777777777777777


Q ss_pred             HhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcC
Q 044047           82 LSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD  120 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  120 (260)
                      .+.... +...|..+..++...|++++|...|++.....
T Consensus        90 l~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           90 LKREET-NEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HhcCCc-chHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            665322 45666666777777777777777777766653

>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=98.71  E-value=2.5e-07  Score=72.63  Aligned_cols=145  Identities=10%  Similarity=-0.018  Sum_probs=96.7

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHH
Q 044047           55 VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDG  134 (260)
Q Consensus        55 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  134 (260)
                      ...|..+...+.+.|++++|+..|++..+..  |+...+.           .+...    ...    +.....|..+..+
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~-----------~~~~~----~~~----~~~~~~~~nla~~  326 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL--EMEYGLS-----------EKESK----ASE----SFLLAAFLNLAMC  326 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TTCCSCC-----------HHHHH----HHH----HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccCC-----------hHHHH----HHH----HHHHHHHHHHHHH
Confidence            4455666666666666666666666665531  1111100           00000    000    1124678888899


Q ss_pred             HHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHH
Q 044047          135 LCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKA  214 (260)
Q Consensus       135 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  214 (260)
                      |.+.|++++|+..+++..... +.+...|..+..+|...|++++|...|+++.+... -+...+..+..++...++.+++
T Consensus       327 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          327 YLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999988876 56788889999999999999999999999887642 2456788888888888888776


Q ss_pred             HH-HHHHHH
Q 044047          215 HD-LFLDME  222 (260)
Q Consensus       215 ~~-~~~~~~  222 (260)
                      .. .+..|.
T Consensus       405 ~~~~~~~~f  413 (457)
T 1kt0_A          405 DRRIYANMF  413 (457)
T ss_dssp             HHHHHHHC-
T ss_pred             HHHHHHHHH
Confidence            53 455554

>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=98.70  E-value=1.1e-06  Score=70.61  Aligned_cols=172  Identities=9%  Similarity=-0.015  Sum_probs=139.2

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCC----------HHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcC--
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGE----------IDRARELFVSMDINGCMHNVVTYNTLINGYCKTK--   69 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--   69 (260)
                      ++|++.++.+...+ +-+...|+.--.++...|+          ++++++.++.+.+.+ |-+..+|+.-.-.+.+.+  
T Consensus        46 eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~~  123 (567)
T 1dce_A           46 ESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEP  123 (567)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSC
T ss_pred             HHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccc
Confidence            57888888888876 3467778877777777777          899999999998877 678889998888888889  


Q ss_pred             ChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccc-cHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhc----------
Q 044047           70 DVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIH-QVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKN----------  138 (260)
Q Consensus        70 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------  138 (260)
                      ++++++..++++.+.... +..+|+.-...+.+.| .++++++.++++.+.. +.+...|+.....+...          
T Consensus       124 ~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~~~  201 (567)
T 1dce_A          124 NWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (567)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             cHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhcccccccccc
Confidence            779999999999998665 7888888877888888 8899999999998876 66788888777776653          


Q ss_pred             ----CcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHH
Q 044047          139 ----GYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLET  178 (260)
Q Consensus       139 ----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  178 (260)
                          +.++++++.+....... +-+...|......+.+.++.++
T Consensus       202 ~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          202 RLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCccc
Confidence                56788999998888765 6677888888777777776443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.68  E-value=3e-07  Score=60.83  Aligned_cols=97  Identities=11%  Similarity=0.049  Sum_probs=53.1

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHhhhcCC----C-cCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC----CCCC-chh
Q 044047          127 TYNTFIDGLCKNGYIVEAAELFRTLRVLKC----E-LGIEAYSCLIDGLCKIGKLETAWELFQSLPRV----GLMP-NVV  196 (260)
Q Consensus       127 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~  196 (260)
                      ++..+...+...|++++|...++.......    + .....+..+...+...|++++|...+++..+.    +..+ ...
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            444455555555555555555554432210    0 01334555666666666776666666655432    1111 134


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          197 TYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       197 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      ++..+...+...|++++|...+++..+
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            566667777777788777777776654

>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=98.67  E-value=3.9e-06  Score=67.49  Aligned_cols=172  Identities=10%  Similarity=-0.035  Sum_probs=117.0

Q ss_pred             CCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCC----------hHHHHHHHHHHHhcCCCCCccchHHHHHHHhcc
Q 044047           34 GEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKD----------VEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEI  103 (260)
Q Consensus        34 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  103 (260)
                      ...++|++.++.+...+ |-+..+|+.--.++...|+          ++++++.++++.+...+ +..+|+.-...+.+.
T Consensus        43 ~~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           43 ELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence            34567788888887776 5566677766666666666          78888888888777555 667777777777777


Q ss_pred             c--cHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcC-cHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhc-------
Q 044047          104 H--QVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNG-YIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKI-------  173 (260)
Q Consensus       104 ~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------  173 (260)
                      +  ++++++..++++.+.. +-+..+|+.-...+...| .++++++.+.++.+.. +-+...|+.....+.+.       
T Consensus       121 ~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          121 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccccc
Confidence            7  5688888888887776 556677777766777777 7777888777777665 55666776666555542       


Q ss_pred             -------CCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCC
Q 044047          174 -------GKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQ  210 (260)
Q Consensus       174 -------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  210 (260)
                             +.++++.+.+..+..... -|..+|..+-..+.+.++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~P-~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHCS-SCSHHHHHHHHHHSCCCC
T ss_pred             ccccccHHHHHHHHHHHHHHHhhCC-CCccHHHHHHHHHhcCCC
Confidence                   345667777766665532 245666666666655555

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.67  E-value=8.5e-07  Score=59.09  Aligned_cols=64  Identities=16%  Similarity=0.066  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          160 IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      ...|..+..+|.+.|++++|...++...... +.+...|..+..++...|++++|...|++..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            3556666777777777777777777766653 224566667777777777777777777776664

>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=98.67  E-value=7.8e-07  Score=67.72  Aligned_cols=123  Identities=7%  Similarity=-0.035  Sum_probs=98.9

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHhhhc---------------CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCC
Q 044047          127 TYNTFIDGLCKNGYIVEAAELFRTLRVL---------------KCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGL  191 (260)
Q Consensus       127 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  191 (260)
                      .+..+...+.+.|++++|+..|++....               ..+.+...|..+..+|.+.|++++|...++++.+...
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            4667788888999999999999887751               1134567888999999999999999999999988642


Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHH
Q 044047          192 MPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVE  251 (260)
Q Consensus       192 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  251 (260)
                       .+...|..+..+|...|++++|...|++..+.. +.+...+..+..++...++.+++.+
T Consensus       305 -~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          305 -SNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             -TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence             357888999999999999999999999998862 3356677777788888887776654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.64  E-value=8e-08  Score=60.38  Aligned_cols=85  Identities=9%  Similarity=0.026  Sum_probs=40.4

Q ss_pred             cCCHHHHHHHHHHHhhcC--CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHH
Q 044047           33 TGEIDRARELFVSMDING--CMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHAL  110 (260)
Q Consensus        33 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  110 (260)
                      .|++++|+..|++..+.+  -+.+..++..+..++...|++++|+..+++..+..+. +..++..+..++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHHH
Confidence            344555555555554432  1223444555555555555555555555555544322 3444445555555555555555


Q ss_pred             HHHHHHhh
Q 044047          111 KLFDEMQH  118 (260)
Q Consensus       111 ~~~~~~~~  118 (260)
                      ..+++...
T Consensus        82 ~~~~~al~   89 (117)
T 3k9i_A           82 ELLLKIIA   89 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.63  E-value=9e-08  Score=60.16  Aligned_cols=84  Identities=11%  Similarity=0.055  Sum_probs=36.3

Q ss_pred             CChHHHHHHHHHHHhcC--CCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHH
Q 044047           69 KDVEESLNLYSEMLSKG--IRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAE  146 (260)
Q Consensus        69 ~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  146 (260)
                      |++++|+..|++..+.+  -+.+...+..+..++...|++++|+..|++..+.. |.+...+..+..++...|++++|..
T Consensus         4 g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            4 GLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ---CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHHH
Confidence            44445555555544432  01123334444444444455555555554444443 3334444444444444455555444


Q ss_pred             HHHHhhh
Q 044047          147 LFRTLRV  153 (260)
Q Consensus       147 ~~~~~~~  153 (260)
                      .+++...
T Consensus        83 ~~~~al~   89 (117)
T 3k9i_A           83 LLLKIIA   89 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.61  E-value=2e-05  Score=62.37  Aligned_cols=202  Identities=14%  Similarity=0.053  Sum_probs=138.4

Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047            4 ASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLS   83 (260)
Q Consensus         4 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   83 (260)
                      +..+|++..... +.++..|...+..+.+.|+++.|..+++.....  |.+...|..    |....+.++.   ++.+.+
T Consensus       198 v~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~---~~~l~~  267 (493)
T 2uy1_A          198 MHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAV---YGDLKR  267 (493)
T ss_dssp             HHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHH---HHHHHH
T ss_pred             HHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHH---HHHHHH
Confidence            556888887763 556888998899999999999999999999887  444444332    2222111221   222222


Q ss_pred             cC---------C---CCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHh-cCcHHHHHHHHHH
Q 044047           84 KG---------I---RPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCK-NGYIVEAAELFRT  150 (260)
Q Consensus        84 ~~---------~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~  150 (260)
                      .-         .   ......|...+....+.+..+.|..+|+.. +.. +.+...|...+..-.. .++++.|..+|+.
T Consensus       268 ~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~  345 (493)
T 2uy1_A          268 KYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSS  345 (493)
T ss_dssp             HTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHH
T ss_pred             HHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHH
Confidence            10         0   111245667777777788999999999998 321 2233444433333222 3369999999999


Q ss_pred             hhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          151 LRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       151 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      ..+.- +.++..+...+....+.|+.+.|..+|+.+.+     ....|...+..-...|+.+.+..+++++.+
T Consensus       346 al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~k-----~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          346 GLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLEK-----TSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSCC-----BHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            88753 44566667778888889999999999999842     467788888777788999999999988764

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.61  E-value=2.9e-07  Score=69.27  Aligned_cols=149  Identities=7%  Similarity=-0.061  Sum_probs=78.2

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHG   99 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   99 (260)
                      ...+..+...+.+.|++++|...|++.....  |+...       +...++.+++...+          ....|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l----------~~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAV----------KNPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHH----------HTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHH----------HHHHHHHHHHH
Confidence            4556777788888888888888888876653  33221       12223333332221          11366777788


Q ss_pred             HhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHH-HHhcCCHHH
Q 044047          100 LFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDG-LCKIGKLET  178 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~  178 (260)
                      +.+.|++++|+..+++..+.. +.+...+..+..+|...|++++|...|+...... +.+...+..+... ....+..+.
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~~~~~~~~  317 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQEKALYQK  317 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888887765 5567778888888888888888888888877654 3344555555544 234456677


Q ss_pred             HHHHHHhhhhC
Q 044047          179 AWELFQSLPRV  189 (260)
Q Consensus       179 a~~~~~~~~~~  189 (260)
                      +...|..+...
T Consensus       318 a~~~~~~~l~~  328 (338)
T 2if4_A          318 QKEMYKGIFKG  328 (338)
T ss_dssp             -----------
T ss_pred             HHHHHHHhhCC
Confidence            77788777654

>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=98.57  E-value=5.7e-06  Score=53.49  Aligned_cols=113  Identities=9%  Similarity=-0.079  Sum_probs=90.6

Q ss_pred             cccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHh----cCCHHH
Q 044047          103 IHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCK----IGKLET  178 (260)
Q Consensus       103 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~  178 (260)
                      .+++++|+.+|++..+.| .+...    +...|...+.+++|.++|++..+.+   ++..+..+...|..    .+++++
T Consensus         8 ~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            457888999999988877 33332    7777777788888999998888764   66777888888887    789999


Q ss_pred             HHHHHHhhhhCCCCCchhhHHHHHHHHHh----cCChHHHHHHHHHHHhCCC
Q 044047          179 AWELFQSLPRVGLMPNVVTYNIMIHGFCN----DGQMDKAHDLFLDMEAKGV  226 (260)
Q Consensus       179 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  226 (260)
                      |...|++..+.|   +...+..|...|..    .+++++|...|++..+.|.
T Consensus        80 A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            999999988875   56778888888887    8899999999999888763

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.56  E-value=3.7e-07  Score=68.68  Aligned_cols=148  Identities=10%  Similarity=-0.004  Sum_probs=84.2

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHH
Q 044047           56 VTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGL  135 (260)
Q Consensus        56 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  135 (260)
                      ..+..+...+.+.|++++|+..|++....  .|+..       .+...++.+++...+.          ...+..+..+|
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~-------~~~~~~~~~~~~~~l~----------~~~~~nla~~~  240 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDF-------MFQLYGKYQDMALAVK----------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHH-------HHTCCHHHHHHHHHHH----------THHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccch-------hhhhcccHHHHHHHHH----------HHHHHHHHHHH
Confidence            34566667777778888888888877664  22222       1223344444432221          13788899999


Q ss_pred             HhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHH-HHhcCChHHH
Q 044047          136 CKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHG-FCNDGQMDKA  214 (260)
Q Consensus       136 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a  214 (260)
                      .+.|++++|+..++...... +.+...|..+..+|...|++++|...|+.+.+... -+...+..+... ....+..+++
T Consensus       241 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p-~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAP-DDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999998875 56788999999999999999999999999987542 134555555555 3346778888


Q ss_pred             HHHHHHHHhC
Q 044047          215 HDLFLDMEAK  224 (260)
Q Consensus       215 ~~~~~~~~~~  224 (260)
                      ...|..|...
T Consensus       319 ~~~~~~~l~~  328 (338)
T 2if4_A          319 KEMYKGIFKG  328 (338)
T ss_dssp             ----------
T ss_pred             HHHHHHhhCC
Confidence            9999998764

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.55  E-value=8.7e-07  Score=55.32  Aligned_cols=82  Identities=16%  Similarity=0.101  Sum_probs=67.5

Q ss_pred             ChhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHH
Q 044047            1 MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSE   80 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   80 (260)
                      +++|++.|+...+.. +.++..+..+...+...|++++|...|+...+.+ +.+...|..+..++...|++++|...|++
T Consensus         1 ~~~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~   78 (115)
T 2kat_A            1 MQAITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWES   78 (115)
T ss_dssp             CCCHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            457888888888765 4577888888899999999999999999888775 55677888888899999999999999888


Q ss_pred             HHhc
Q 044047           81 MLSK   84 (260)
Q Consensus        81 ~~~~   84 (260)
                      ..+.
T Consensus        79 al~~   82 (115)
T 2kat_A           79 GLAA   82 (115)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            7764

>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=98.53  E-value=4.6e-06  Score=53.93  Aligned_cols=111  Identities=12%  Similarity=0.034  Sum_probs=85.0

Q ss_pred             CChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHh----cCcHHHH
Q 044047           69 KDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCK----NGYIVEA  144 (260)
Q Consensus        69 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a  144 (260)
                      +++++|++.|++..+.|. |+.  .  +...|...+..++|.++|++..+.|   +...+..+...|..    .+++++|
T Consensus         9 ~d~~~A~~~~~~aa~~g~-~~a--~--lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELNE-MFG--C--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTTC-TTH--H--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCCC-Hhh--h--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            467888888888888762 232  2  6677777777888888888887765   44567777777777    7888888


Q ss_pred             HHHHHHhhhcCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHhhhhCC
Q 044047          145 AELFRTLRVLKCELGIEAYSCLIDGLCK----IGKLETAWELFQSLPRVG  190 (260)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  190 (260)
                      .++|++..+.+   ++..+..+...|..    .++.++|...++...+.|
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            88888887754   56677778888887    788888888888888776

>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=98.51  E-value=2.2e-06  Score=56.22  Aligned_cols=98  Identities=12%  Similarity=0.042  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCC-C-----ch-----hhHHHHHHHHHhcCChHHHHHHHHHHHhc----
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCM-H-----NV-----VTYNTLINGYCKTKDVEESLNLYSEMLSK----   84 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-----~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----   84 (260)
                      ...+......+.+.|++++|+..|++..+.... |     +.     ..|..+..++.+.|++++|+..+++.++.    
T Consensus        11 a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~   90 (159)
T 2hr2_A           11 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            445666777788889999999999888765311 0     11     26666777777777777777777666653    


Q ss_pred             ---CCCCCccch----HHHHHHHhccccHHHHHHHHHHHhh
Q 044047           85 ---GIRPTVVTY----NTLFHGLFEIHQVEHALKLFDEMQH  118 (260)
Q Consensus        85 ---~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~  118 (260)
                         ... +...|    .....++...|++++|+..|++..+
T Consensus        91 ~e~~pd-~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           91 GELNQD-EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CCTTST-HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCCCc-hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence               221 23344    5555555556666666666655543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.47  E-value=1.5e-06  Score=68.45  Aligned_cols=125  Identities=14%  Similarity=-0.003  Sum_probs=95.6

Q ss_pred             HHHhcCcHHHHHHHHHHhhhcC-------CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC-----CC-CCc-hhhHH
Q 044047          134 GLCKNGYIVEAAELFRTLRVLK-------CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRV-----GL-MPN-VVTYN  199 (260)
Q Consensus       134 ~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~  199 (260)
                      .+...|++++|+.++++.....       .+....+++.+...|...|++++|..++++....     |. .|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            3567899999999998775321       1123457899999999999999999999886532     31 233 46789


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhC-----CC-CCC-hhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          200 IMIHGFCNDGQMDKAHDLFLDMEAK-----GV-APN-CVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       200 ~l~~~~~~~g~~~~a~~~~~~~~~~-----~~-~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      .|...|...|++++|..++++..+.     |. .|+ ..+...+-.++...+.+++|..+++++++
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999987642     32 222 34456677888899999999999999876

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.45  E-value=2.3e-07  Score=57.39  Aligned_cols=67  Identities=10%  Similarity=0.030  Sum_probs=55.2

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKG   85 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   85 (260)
                      ++...+..+...+...|++++|...|++..+.. |.+...|..+..++...|++++|+..+++..+..
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   68 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT   68 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            356677888888888999999999998888775 5677888888888889999999999998888753

>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=98.43  E-value=5.2e-06  Score=54.45  Aligned_cols=108  Identities=9%  Similarity=-0.055  Sum_probs=60.9

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHH
Q 044047           56 VTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGL  135 (260)
Q Consensus        56 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  135 (260)
                      ..+......+.+.|++++|+..|++..+..... +..              + +..       . .+.+...|..+..++
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~-~~~--------------~-a~~-------~-~~~~a~a~~n~g~al   67 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEISHTM-PPE--------------E-AFD-------H-AGFDAFCHAGLAEAL   67 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTS-CTT--------------S-CCC-------H-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCC-cch--------------h-hhh-------h-ccchHHHHHHHHHHH
Confidence            345566667778888888888888887753221 000              0 000       0 001122555555666


Q ss_pred             HhcCcHHHHHHHHHHhhhc-------CCCcCHHHH----HHHHHHHHhcCCHHHHHHHHHhhhh
Q 044047          136 CKNGYIVEAAELFRTLRVL-------KCELGIEAY----SCLIDGLCKIGKLETAWELFQSLPR  188 (260)
Q Consensus       136 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~  188 (260)
                      ...|++++|+..++..+..       . +.+...|    .....++...|++++|+..|++..+
T Consensus        68 ~~Lgr~~eAl~~~~kAL~l~n~~~e~~-pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           68 AGLRSFDEALHSADKALHYFNRRGELN-QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHCCTT-STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhhccccCC-CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            6666666666666555544       3 3344555    6666666677777777777666654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.42  E-value=3.2e-06  Score=66.57  Aligned_cols=125  Identities=10%  Similarity=-0.094  Sum_probs=94.5

Q ss_pred             HhccccHHHHHHHHHHHhhc-------CCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhc-----C--CCcCHHHHHH
Q 044047          100 LFEIHQVEHALKLFDEMQHS-------DVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVL-----K--CELGIEAYSC  165 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~  165 (260)
                      +...|++++|+.++++..+.       ..+....+++.+...|...|++++|..++++....     |  .+....+++.
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            55789999999999887542       12234567899999999999999999998876532     1  1223457899


Q ss_pred             HHHHHHhcCCHHHHHHHHHhhhhC-----CCC-Cc-hhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          166 LIDGLCKIGKLETAWELFQSLPRV-----GLM-PN-VVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       166 l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      +...|...|++++|..++++..+.     |.. |+ ..+.+.+..++...+.+++|+.++..+.+.
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            999999999999999999887532     322 22 345667777888899999999999998763

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.41  E-value=5.8e-07  Score=55.55  Aligned_cols=88  Identities=16%  Similarity=0.020  Sum_probs=44.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-------hhhH
Q 044047          161 EAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPN-------CVTF  233 (260)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-------~~~~  233 (260)
                      ..+..+...+...|++++|...++...+... .+...+..+..++...|++++|...+++..+.  .|+       ...+
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~   81 (111)
T 2l6j_A            5 EKQKEQGNSLFKQGLYREAVHCYDQLITAQP-QNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEHVAIRSKLQ   81 (111)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTSHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccHHHHHHHHH
Confidence            3444455555555555555555555554421 23445555555555555555555555555543  222       3334


Q ss_pred             HHHHHHHHhcCchhHHHH
Q 044047          234 NTLMLGCIRNNETSKVVE  251 (260)
Q Consensus       234 ~~l~~~~~~~~~~~~a~~  251 (260)
                      ..+..++...|+++.|.+
T Consensus        82 ~~~~~~~~~~~~~~~a~~   99 (111)
T 2l6j_A           82 YRLELAQGAVGSVQIPVV   99 (111)
T ss_dssp             HHHHHHHHHHHCCCCCSS
T ss_pred             HHHHHHHHHHHhHhhhHh
Confidence            444445555555544443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.40  E-value=5e-06  Score=49.12  Aligned_cols=80  Identities=20%  Similarity=0.232  Sum_probs=50.1

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      +...+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..+.... +...+..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~l~~   85 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CHHHHHHHHH
Confidence            45566666777777777777777777766654 445666667777777777777777777776665322 3344444444


Q ss_pred             HH
Q 044047           99 GL  100 (260)
Q Consensus        99 ~~  100 (260)
                      .+
T Consensus        86 ~~   87 (91)
T 1na3_A           86 AK   87 (91)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.30  E-value=5.1e-06  Score=51.75  Aligned_cols=76  Identities=13%  Similarity=-0.012  Sum_probs=35.4

Q ss_pred             HHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhh
Q 044047          110 LKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLP  187 (260)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  187 (260)
                      +..|++..+.. +.+...+..+...+...|++++|...++...... +.+...+..+..++...|++++|...|+...
T Consensus         5 ~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            5 TERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34444444332 3334444444455555555555555555444433 3334444445555555555555555554443

>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=98.28  E-value=4.4e-06  Score=54.69  Aligned_cols=72  Identities=14%  Similarity=0.092  Sum_probs=44.6

Q ss_pred             HhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcH----------HHHHHHHHHhhhcCCCcCHHHHHHHHHH
Q 044047          100 LFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYI----------VEAAELFRTLRVLKCELGIEAYSCLIDG  169 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~~  169 (260)
                      ..+.+.+++|.+.++...+.. |.+...|..+..++...+++          ++|+..|++..+.. +.+...|..+..+
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~a   89 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHH
Confidence            345566777777777777665 55667777777777766654          35666666555554 3345555556665


Q ss_pred             HHhc
Q 044047          170 LCKI  173 (260)
Q Consensus       170 ~~~~  173 (260)
                      |...
T Consensus        90 y~~l   93 (158)
T 1zu2_A           90 YTSF   93 (158)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            5554

>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=98.27  E-value=4.8e-06  Score=54.53  Aligned_cols=99  Identities=8%  Similarity=0.043  Sum_probs=50.8

Q ss_pred             cCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCCh----------HHHHHHHHHHHhcCCCCCccchHHHHHHHhc
Q 044047           33 TGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDV----------EESLNLYSEMLSKGIRPTVVTYNTLFHGLFE  102 (260)
Q Consensus        33 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  102 (260)
                      .+.+++|...++...+.+ |.+...|..+..++...+++          ++|+..|++..+..+. +..+|..+..+|..
T Consensus        15 ~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           15 ILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHH
Confidence            344555555555555444 44555555555555554432          3555666555554332 34455555555554


Q ss_pred             c-----------ccHHHHHHHHHHHhhcCCCcchhhHHHHHHHH
Q 044047          103 I-----------HQVEHALKLFDEMQHSDVAAETSTYNTFIDGL  135 (260)
Q Consensus       103 ~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  135 (260)
                      .           |++++|+..|++..+.+  |+...|...+...
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~l~--P~~~~y~~al~~~  134 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVDEQ--PDNTHYLKSLEMT  134 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHH
Confidence            4           25666666666665542  4444444444433

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.26  E-value=1.3e-05  Score=47.23  Aligned_cols=79  Identities=14%  Similarity=0.259  Sum_probs=43.1

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHH
Q 044047           55 VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDG  134 (260)
Q Consensus        55 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  134 (260)
                      ...+..+...+...|++++|+..+++..+.... +...+..+...+...|++++|...+++..+.. +.+...+..+..+
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~   86 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            445555666666666666666666666554322 34455555556666666666666666655543 3334444444443


Q ss_pred             H
Q 044047          135 L  135 (260)
Q Consensus       135 ~  135 (260)
                      +
T Consensus        87 ~   87 (91)
T 1na3_A           87 K   87 (91)
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=98.18  E-value=1.7e-05  Score=48.07  Aligned_cols=64  Identities=19%  Similarity=0.243  Sum_probs=42.7

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLS   83 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   83 (260)
                      ++..+..+..++.+.|++++|...|+...+.+ |.+...|..+..+|...|++++|+..+++..+
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            55566666777777777777777777766654 44556666677777777777777777766554

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.09  E-value=2.4e-05  Score=47.31  Aligned_cols=58  Identities=16%  Similarity=0.115  Sum_probs=22.8

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHh
Q 044047          127 TYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQS  185 (260)
Q Consensus       127 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  185 (260)
                      .+..+..+|...|++++|+..|++..... +.+...|..+..+|...|++++|...+++
T Consensus         9 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~   66 (100)
T 3ma5_A            9 TRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQ   66 (100)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            33334444444444444444444433332 22233333344444444444444444433

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=98.03  E-value=0.00043  Score=51.96  Aligned_cols=74  Identities=14%  Similarity=0.091  Sum_probs=58.3

Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHH
Q 044047          157 ELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFN  234 (260)
Q Consensus       157 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  234 (260)
                      +.++.+|..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|.+.+.+....  .|...+|.
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            5677778777777777789999999998888875  67777777788888889999999998888874  56666653

>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=97.90  E-value=0.0006  Score=51.17  Aligned_cols=74  Identities=15%  Similarity=0.009  Sum_probs=58.8

Q ss_pred             CcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHH
Q 044047          122 AAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYN  199 (260)
Q Consensus       122 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  199 (260)
                      +.+..++..+...+...|++++|...+++....+  |+...|..+...+...|++++|.+.+++....+  |...+|.
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--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLR--PGANTLY  347 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CSHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCcChHH
Confidence            5667777777777777799999999999888875  677777788888888999999999998888763  5655654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.85  E-value=5.3e-05  Score=45.51  Aligned_cols=59  Identities=20%  Similarity=0.221  Sum_probs=43.8

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhcCCCCchh-hHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044047           26 LIDGFCLTGEIDRARELFVSMDINGCMHNVV-TYNTLINGYCKTKDVEESLNLYSEMLSKG   85 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   85 (260)
                      ....+.+.|++++|...++.+.+.. +.+.. .+..+..++...|++++|+..|++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            4556667788888888888877665 44566 77777788888888888888888877753

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.70  E-value=0.00056  Score=40.61  Aligned_cols=68  Identities=10%  Similarity=0.025  Sum_probs=48.2

Q ss_pred             CccHHHHHHHHHHHhccCC---HHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044047           17 RPNAFVYSTLIDGFCLTGE---IDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKG   85 (260)
Q Consensus        17 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   85 (260)
                      +.++..+..+..++...++   .++|..++++..+.+ |.+......+...+.+.|++++|+..|+++.+..
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            4466667777776654443   677788887777766 5667777777777778888888888888877753

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.69  E-value=0.00022  Score=42.70  Aligned_cols=25  Identities=16%  Similarity=0.112  Sum_probs=9.7

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhh
Q 044047          128 YNTFIDGLCKNGYIVEAAELFRTLR  152 (260)
Q Consensus       128 ~~~l~~~~~~~~~~~~a~~~~~~~~  152 (260)
                      +..+..++...|++++|...|+...
T Consensus        38 ~~~lg~~~~~~~~~~~A~~~~~~al   62 (99)
T 2kc7_A           38 YYLMGNAYRKLGDWQKALNNYQSAI   62 (99)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3333333333344444443333333

>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=97.63  E-value=0.00028  Score=54.74  Aligned_cols=87  Identities=8%  Similarity=-0.101  Sum_probs=65.1

Q ss_pred             hcCcHHHHHHHHHHhhhcC---C----CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC-----CC-CCc-hhhHHHHH
Q 044047          137 KNGYIVEAAELFRTLRVLK---C----ELGIEAYSCLIDGLCKIGKLETAWELFQSLPRV-----GL-MPN-VVTYNIMI  202 (260)
Q Consensus       137 ~~~~~~~a~~~~~~~~~~~---~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~l~  202 (260)
                      ..|++++|+.++++.....   .    +....+++.+..+|...|++++|..++++....     |. .|+ ..+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            4578899999888765321   1    122457888999999999999999999886532     31 233 46788999


Q ss_pred             HHHHhcCChHHHHHHHHHHHh
Q 044047          203 HGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       203 ~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      ..|...|++++|..++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999988764

>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=97.61  E-value=0.00038  Score=54.02  Aligned_cols=87  Identities=5%  Similarity=-0.181  Sum_probs=67.1

Q ss_pred             ccccHHHHHHHHHHHhhc-------CCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhc-----C--CCcCHHHHHHHH
Q 044047          102 EIHQVEHALKLFDEMQHS-------DVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVL-----K--CELGIEAYSCLI  167 (260)
Q Consensus       102 ~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~  167 (260)
                      ..|++++|+.++++..+.       ..+....+++.+..+|...|++++|+.++++....     |  .+....+++.+.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            356789999999886542       12223567899999999999999999999887532     2  122345789999


Q ss_pred             HHHHhcCCHHHHHHHHHhhhh
Q 044047          168 DGLCKIGKLETAWELFQSLPR  188 (260)
Q Consensus       168 ~~~~~~~~~~~a~~~~~~~~~  188 (260)
                      ..|...|++++|..++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999988754

>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=97.59  E-value=0.00046  Score=53.54  Aligned_cols=93  Identities=13%  Similarity=-0.009  Sum_probs=71.8

Q ss_pred             HHHHHHhcCcHHHHHHHHHHhhhcC---C----CcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC-----CC-CCc-hh
Q 044047          131 FIDGLCKNGYIVEAAELFRTLRVLK---C----ELGIEAYSCLIDGLCKIGKLETAWELFQSLPRV-----GL-MPN-VV  196 (260)
Q Consensus       131 l~~~~~~~~~~~~a~~~~~~~~~~~---~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~  196 (260)
                      .+..+...|++++|+.++++.....   .    +....+++.+...|...|++++|..+++++...     |. .|+ ..
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~  372 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGV  372 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHH
Confidence            3455667899999999998876432   1    123457889999999999999999999887532     21 233 46


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          197 TYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       197 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      +++.|...|...|++++|..++++..+
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            789999999999999999999998764

>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=97.55  E-value=0.0007  Score=52.56  Aligned_cols=92  Identities=13%  Similarity=0.008  Sum_probs=72.1

Q ss_pred             HHHHHhcCCHHHHHHHHHhhhhCC---CCCc----hhhHHHHHHHHHhcCChHHHHHHHHHHHhC-----C-CCCC-hhh
Q 044047          167 IDGLCKIGKLETAWELFQSLPRVG---LMPN----VVTYNIMIHGFCNDGQMDKAHDLFLDMEAK-----G-VAPN-CVT  232 (260)
Q Consensus       167 ~~~~~~~~~~~~a~~~~~~~~~~~---~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~-~~p~-~~~  232 (260)
                      +..+.+.|++++|..++++..+..   +.|+    ..+++.+...|...|++++|+.++++.++.     | ..|+ ..+
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            455667899999999999886531   1122    467899999999999999999999988642     2 1222 456


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          233 FNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       233 ~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ++.|...|...|++++|..++++..+
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            88899999999999999999998754

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.55  E-value=0.0046  Score=52.07  Aligned_cols=157  Identities=17%  Similarity=0.218  Sum_probs=101.4

Q ss_pred             HHHhccCCHHHHHH-HHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccH
Q 044047           28 DGFCLTGEIDRARE-LFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQV  106 (260)
Q Consensus        28 ~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  106 (260)
                      ......+++++|.+ ++..+      ++......++..+.+.|.++.|+++.+.-            ..-.......|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~~------------~~~f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPDQ------------DQKFELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCCH------------HHHHHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCCc------------chheehhhhcCCH
Confidence            34445677887766 44211      11223377777788888888887665321            1113345567888


Q ss_pred             HHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhh
Q 044047          107 EHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSL  186 (260)
Q Consensus       107 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  186 (260)
                      +.|.++.+.+      .+...|..+...+.+.++++.|.+.|..+..         |..+...+...|+.+...++.+..
T Consensus       669 ~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a  733 (814)
T 3mkq_A          669 TLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDA  733 (814)
T ss_dssp             HHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHH
Confidence            8888875443      3556888888888888888888888887653         334555566677777777666666


Q ss_pred             hhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          187 PRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       187 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      ...|      -++....++.+.|++++|.+++.++..
T Consensus       734 ~~~~------~~~~A~~~~~~~g~~~~a~~~~~~~~~  764 (814)
T 3mkq_A          734 ETTG------KFNLAFNAYWIAGDIQGAKDLLIKSQR  764 (814)
T ss_dssp             HHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTC
T ss_pred             HHcC------chHHHHHHHHHcCCHHHHHHHHHHcCC
Confidence            6543      234444556678888888888776543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.54  E-value=0.0059  Score=51.42  Aligned_cols=129  Identities=8%  Similarity=0.054  Sum_probs=72.9

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcc
Q 044047           24 STLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEI  103 (260)
Q Consensus        24 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  103 (260)
                      ..++..+.+.|.+++|.++.+.       |     ..-.......|+++.|.++.+.+      .+...|..+...+.+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~-------~-----~~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~  694 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPD-------Q-----DQKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQR  694 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCC-------H-----HHHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCChHHheecCCC-------c-----chheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHc
Confidence            5566666677777777655421       1     11133345668888887775432      2567788888888888


Q ss_pred             ccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 044047          104 HQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELF  183 (260)
Q Consensus       104 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  183 (260)
                      ++++.|.+.|.++..         |..+...+...|+.+...++.+.....+      -++....+|.+.|++++|.+++
T Consensus       695 ~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~------~~~~A~~~~~~~g~~~~a~~~~  759 (814)
T 3mkq_A          695 FNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG------KFNLAFNAYWIAGDIQGAKDLL  759 (814)
T ss_dssp             TCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC------chHHHHHHHHHcCCHHHHHHHH
Confidence            888888888877632         3345555555666665554444433322      1122233344455555555544


Q ss_pred             Hh
Q 044047          184 QS  185 (260)
Q Consensus       184 ~~  185 (260)
                      .+
T Consensus       760 ~~  761 (814)
T 3mkq_A          760 IK  761 (814)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=97.44  E-value=0.0086  Score=43.32  Aligned_cols=92  Identities=13%  Similarity=0.048  Sum_probs=70.1

Q ss_pred             HHHHHHHHHHhhhcCCC-cCHHHHHHHHHHHHhc-----CCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhc-CChHH
Q 044047          141 IVEAAELFRTLRVLKCE-LGIEAYSCLIDGLCKI-----GKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCND-GQMDK  213 (260)
Q Consensus       141 ~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~  213 (260)
                      ...|...+++..+.... .+...|..+...|.+.     |+.++|.+.|++..+.+..-+..++......++.. |+.+.
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            56677777777766411 1356889999999984     99999999999999865322477788888888884 99999


Q ss_pred             HHHHHHHHHhCCCC--CChhh
Q 044047          214 AHDLFLDMEAKGVA--PNCVT  232 (260)
Q Consensus       214 a~~~~~~~~~~~~~--p~~~~  232 (260)
                      +.+.+++.+.....  |+...
T Consensus       259 a~~~L~kAL~a~p~~~P~~~l  279 (301)
T 3u64_A          259 FDEALDRALAIDPESVPHNKL  279 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSSCHH
T ss_pred             HHHHHHHHHcCCCCCCCChhH
Confidence            99999999987544  55443

>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=97.42  E-value=0.017  Score=41.89  Aligned_cols=95  Identities=14%  Similarity=0.078  Sum_probs=73.4

Q ss_pred             cHHHHHHHHHHHhhcCCC-cchhhHHHHHHHHHhc-----CcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhc-CCHH
Q 044047          105 QVEHALKLFDEMQHSDVA-AETSTYNTFIDGLCKN-----GYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKI-GKLE  177 (260)
Q Consensus       105 ~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~  177 (260)
                      ....|...+++..+.... .+...|..+...|...     |+.++|.+.|++....+..-+..++......++.. |+.+
T Consensus       178 ~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          178 TVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             hHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            356778888888776511 1467889999999984     99999999999999876323477778888888884 9999


Q ss_pred             HHHHHHHhhhhCCCC--CchhhHH
Q 044047          178 TAWELFQSLPRVGLM--PNVVTYN  199 (260)
Q Consensus       178 ~a~~~~~~~~~~~~~--~~~~~~~  199 (260)
                      .+.+.+++.......  |+....+
T Consensus       258 ~a~~~L~kAL~a~p~~~P~~~lan  281 (301)
T 3u64_A          258 GFDEALDRALAIDPESVPHNKLLV  281 (301)
T ss_dssp             HHHHHHHHHHHCCGGGCSSCHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCChhHHH
Confidence            999999999987655  5544333

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.40  E-value=0.0029  Score=37.43  Aligned_cols=68  Identities=9%  Similarity=0.039  Sum_probs=43.9

Q ss_pred             CCchhhHHHHHHHHHhcCC---hHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcC
Q 044047           52 MHNVVTYNTLINGYCKTKD---VEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD  120 (260)
Q Consensus        52 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  120 (260)
                      +.++..+..+..++...++   .++|..++++..+.... +......+...+.+.|++++|+..|+++.+..
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            4556666666666654443   56777777777765433 45566666667777777777777777776654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.40  E-value=0.0029  Score=41.03  Aligned_cols=83  Identities=16%  Similarity=0.092  Sum_probs=43.5

Q ss_pred             cHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcC---cHHHHHHHHHHhhhcCCCc--CHHHHHHHHHHHHhcCCHHHH
Q 044047          105 QVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNG---YIVEAAELFRTLRVLKCEL--GIEAYSCLIDGLCKIGKLETA  179 (260)
Q Consensus       105 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a  179 (260)
                      ....+.+-|......+ +++..+...+.-++++.+   +..+++.+++.+.+.. .|  ....+..+.-+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            3444455555444444 345555555555555555   4445666666655543 12  233444455555666666666


Q ss_pred             HHHHHhhhhC
Q 044047          180 WELFQSLPRV  189 (260)
Q Consensus       180 ~~~~~~~~~~  189 (260)
                      .+.++.+.+.
T Consensus        91 ~~y~~~lL~i  100 (152)
T 1pc2_A           91 LKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            6666665553

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.39  E-value=0.0026  Score=38.51  Aligned_cols=67  Identities=12%  Similarity=-0.014  Sum_probs=50.0

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcC------CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDING------CMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK   84 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   84 (260)
                      .++..+..+...+.+.|+++.|...|+...+..      -.+....+..+..++.+.|+++.|+..+++..+.
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            456666778888888888888888888775531      1345667778888888888888888888888765

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.30  E-value=0.0045  Score=40.15  Aligned_cols=79  Identities=13%  Similarity=0.050  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHhccC---CHHHHHHHHHHHhhcCCCC--chhhHHHHHHHHHhcCChHHHHHHH
Q 044047            4 ASRLLDLMIQRGVRPNAFVYSTLIDGFCLTG---EIDRARELFVSMDINGCMH--NVVTYNTLINGYCKTKDVEESLNLY   78 (260)
Q Consensus         4 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~   78 (260)
                      +.+-|....+.|. ++..+...+..++++.+   ++++++.+++...+.+ .|  ....+-.+.-++.+.|++++|.+.+
T Consensus        17 ~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~   94 (152)
T 1pc2_A           17 FEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKYV   94 (152)
T ss_dssp             HHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHHH
T ss_pred             HHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHHH
Confidence            3444444444442 45555555666666655   4556666666666553 22  3444555555566666666666666


Q ss_pred             HHHHhc
Q 044047           79 SEMLSK   84 (260)
Q Consensus        79 ~~~~~~   84 (260)
                      +.+.+.
T Consensus        95 ~~lL~i  100 (152)
T 1pc2_A           95 RGLLQT  100 (152)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            666664

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=97.28  E-value=0.017  Score=38.46  Aligned_cols=104  Identities=15%  Similarity=0.168  Sum_probs=61.0

Q ss_pred             HHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccH
Q 044047           27 IDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQV  106 (260)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  106 (260)
                      +....+.|+++.|.++.+.+      .+...|..+.......|+++-|.+.|.+...         +..+.-.|.-.|+.
T Consensus        12 F~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~   76 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDV   76 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCH
T ss_pred             HHHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCH
Confidence            34445667777777766554      2456677777777777777777777766432         33444455556666


Q ss_pred             HHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHh
Q 044047          107 EHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTL  151 (260)
Q Consensus       107 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  151 (260)
                      +...++-+.....|      -++....++...|+++++.++|.+.
T Consensus        77 e~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           77 NKLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            65555544444443      2344445555667777776666543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.22  E-value=0.009  Score=36.09  Aligned_cols=63  Identities=10%  Similarity=-0.045  Sum_probs=28.3

Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHhhhcC------CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhh
Q 044047          126 STYNTFIDGLCKNGYIVEAAELFRTLRVLK------CELGIEAYSCLIDGLCKIGKLETAWELFQSLPR  188 (260)
Q Consensus       126 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (260)
                      ..+..+...+...+++..|..+++......      ..+....+..+..++.+.|+++.|...++++.+
T Consensus         6 ~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            6 EDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            344445555555555555555555443321      012233444444444444444444444444443

>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=97.02  E-value=0.013  Score=37.74  Aligned_cols=53  Identities=13%  Similarity=0.049  Sum_probs=28.4

Q ss_pred             CcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC
Q 044047          139 GYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM  192 (260)
Q Consensus       139 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  192 (260)
                      +++++|.++|+.+...+-.. ...|......-.+.|++..|.+++......+..
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            45555555555554332222 445555555555666666666666666555443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.99  E-value=0.035  Score=36.95  Aligned_cols=130  Identities=12%  Similarity=0.158  Sum_probs=89.4

Q ss_pred             HHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCH
Q 044047           97 FHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKL  176 (260)
Q Consensus        97 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  176 (260)
                      .......|+++.|.++.+.+      .+...|..+.......|+++-|.+.|.....         +..+.-.|...|+.
T Consensus        12 F~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~   76 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDV   76 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCH
T ss_pred             HHHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCH
Confidence            34556789999998887664      4677899999999999999999999987653         34566667778888


Q ss_pred             HHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          177 ETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       177 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                      +...++-+.....|      -++.....+...|+++++.++|.+.-.   .|..      .......|..+.|.++..++
T Consensus        77 e~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r---~~eA------~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           77 NKLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGS---LPLA------YAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTC---HHHH------HHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCC---hHHH------HHHHHHcCcHHHHHHHHHHh
Confidence            88777766665543      245555667778999999998855332   1211      11122356666777776554

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.95  E-value=0.03  Score=35.36  Aligned_cols=65  Identities=11%  Similarity=0.069  Sum_probs=41.3

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhcC
Q 044047          195 VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDERN  260 (260)
Q Consensus       195 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  260 (260)
                      ....+..+..+..+|.-++-.+++..+... .+|++.....+..+|.+.|+..++.+++++.-++|
T Consensus        91 se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG  155 (172)
T 1wy6_A           91 NEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKG  155 (172)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhh
Confidence            344555566666677777777777665432 45666666677777777777777777777665554

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.87  E-value=0.029  Score=46.56  Aligned_cols=127  Identities=9%  Similarity=0.032  Sum_probs=78.8

Q ss_pred             HHHHHHhcccc-HHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCc-HHHHHHHHHHhhhc------CCC-cC------
Q 044047           95 TLFHGLFEIHQ-VEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGY-IVEAAELFRTLRVL------KCE-LG------  159 (260)
Q Consensus        95 ~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~------~~~-~~------  159 (260)
                      .+++.+...++ .+.|..+++++.+.....+......++..+...++ --+|.+++.+..+.      ..+ .+      
T Consensus       253 ~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~  332 (754)
T 4gns_B          253 SLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARL  332 (754)
T ss_dssp             HHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHH
T ss_pred             HHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccccc
Confidence            34555555666 58899999999887522222222233333333332 23455555544321      111 11      


Q ss_pred             ----HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047          160 ----IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDME  222 (260)
Q Consensus       160 ----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  222 (260)
                          ......=+..+...|+++.|+.+-++..... +.+-.+|..|..+|...|+++.|+-.++.+.
T Consensus       333 ~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          333 MNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             cCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                1122233455678899999999999988863 2347899999999999999999999988763

>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=96.71  E-value=0.054  Score=34.89  Aligned_cols=52  Identities=12%  Similarity=0.068  Sum_probs=37.2

Q ss_pred             cccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC
Q 044047          103 IHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK  155 (260)
Q Consensus       103 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  155 (260)
                      .++.++|.++|+.+.+.+-.. ...|......-.+.|+...|.+++......+
T Consensus        73 i~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~  124 (161)
T 4h7y_A           73 IQEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERG  124 (161)
T ss_dssp             HHCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             hcCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccC
Confidence            367778888888876553222 5666666666777888888888888887765

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.51  E-value=0.041  Score=45.68  Aligned_cols=128  Identities=13%  Similarity=0.048  Sum_probs=80.0

Q ss_pred             HHHHHHHHHhcCc-HHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCC-HHHHHHHHHhhhhC------CCCC-ch---
Q 044047          128 YNTFIDGLCKNGY-IVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGK-LETAWELFQSLPRV------GLMP-NV---  195 (260)
Q Consensus       128 ~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~------~~~~-~~---  195 (260)
                      ...++..+...++ .+.|..+++++.......+......++..+...++ --+|.+++.+..+.      ...+ +.   
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~  330 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSA  330 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccc
Confidence            3455566666666 57799999998876422222222233333333332 22455555443321      1111 11   


Q ss_pred             -------hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHH
Q 044047          196 -------VTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRM  256 (260)
Q Consensus       196 -------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m  256 (260)
                             .....-++-+...|+++-|+.+.++.... .+-+..+|..|..+|...|+++.|+-.++-+
T Consensus       331 ~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~-aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          331 RLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL-ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             cccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc-CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence                   12222345566799999999999999886 3446889999999999999999999887754

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.48  E-value=0.07  Score=33.32  Aligned_cols=65  Identities=11%  Similarity=-0.049  Sum_probs=31.8

Q ss_pred             cCHHHHHHHHHHHHhcCCHHH---HHHHHHhhhhCCCCC--chhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          158 LGIEAYSCLIDGLCKIGKLET---AWELFQSLPRVGLMP--NVVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       158 ~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      ++..+-..+..++.++.+...   ++.+++.+.+.+ .|  .....-.+.-++.+.|++++|.+.++.+++
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            444444445555555544433   555555554432 11  223333444455556666666666655555

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.46  E-value=0.053  Score=33.83  Aligned_cols=85  Identities=15%  Similarity=0.109  Sum_probs=50.7

Q ss_pred             ccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHH---HHHHHHHhhhcCCC-cCHHHHHHHHHHHHhcCCHHHH
Q 044047          104 HQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVE---AAELFRTLRVLKCE-LGIEAYSCLIDGLCKIGKLETA  179 (260)
Q Consensus       104 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a  179 (260)
                      .....+.+-|......| .++..+-..+.-++.+..+...   ++.+++.+...+.+ -.......+.-++.+.|++++|
T Consensus        15 ~~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHH
Confidence            34444555555544444 3555566666666666665555   66777766654311 1333445566677777777777


Q ss_pred             HHHHHhhhhC
Q 044047          180 WELFQSLPRV  189 (260)
Q Consensus       180 ~~~~~~~~~~  189 (260)
                      .+.++.+.+.
T Consensus        94 ~~~~~~lL~~  103 (126)
T 1nzn_A           94 LKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            7777777764

>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=96.05  E-value=0.039  Score=42.24  Aligned_cols=74  Identities=4%  Similarity=-0.011  Sum_probs=56.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHh-----hcCCCcchhhHHHH
Q 044047           57 TYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQ-----HSDVAAETSTYNTF  131 (260)
Q Consensus        57 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~~~l  131 (260)
                      +...++..+...|++++++..+..+....+ .+...+..+|.++.+.|+..+|+..|+.+.     +.|+.|+..+-...
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~P-~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            455677778888999999888888877633 367788889999999999999998888764     35888877665433

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.98  E-value=0.15  Score=32.29  Aligned_cols=137  Identities=15%  Similarity=0.122  Sum_probs=76.5

Q ss_pred             cCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHH
Q 044047           33 TGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKL  112 (260)
Q Consensus        33 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  112 (260)
                      .|.+++..++..+....   .+..-||-++--....-+-+-..++++..-+   -.|.          ..+|+.......
T Consensus        20 dG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGk---iFDi----------s~C~NlKrVi~C   83 (172)
T 1wy6_A           20 DGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFDL----------DKCQNLKSVVEC   83 (172)
T ss_dssp             TTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSCG----------GGCSCTHHHHHH
T ss_pred             hhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhh---hcCc----------HhhhcHHHHHHH
Confidence            45666666666665543   2344444444444444444444444444322   1121          234455555555


Q ss_pred             HHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCC
Q 044047          113 FDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGL  191 (260)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  191 (260)
                      +-.+-     .+...+...+..+...|..+...+++..+... .+|++...-.+..+|.+.|+..++.+++.++-+.|+
T Consensus        84 ~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           84 GVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            44431     23345566667777777777777777775432 266677777777777777777777777777777664

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.97  E-value=0.56  Score=40.12  Aligned_cols=87  Identities=11%  Similarity=0.048  Sum_probs=38.0

Q ss_pred             HHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchh--hHHHHHHHHHhcCChH
Q 044047          135 LCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVV--TYNIMIHGFCNDGQMD  212 (260)
Q Consensus       135 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~  212 (260)
                      +.-.|+.+....++..+.... ..+..-...+.-++...|+.+.+..+++.+.... .|...  .-..+..+|+..|+..
T Consensus       500 ~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn~~  577 (963)
T 4ady_A          500 MLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGNNS  577 (963)
T ss_dssp             HTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHH
T ss_pred             hcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHH
Confidence            444555555555555544321 1111122222233335566666666665555421 11111  1112333455556655


Q ss_pred             HHHHHHHHHHh
Q 044047          213 KAHDLFLDMEA  223 (260)
Q Consensus       213 ~a~~~~~~~~~  223 (260)
                      ....++..+.+
T Consensus       578 aIq~LL~~~~~  588 (963)
T 4ady_A          578 AVKRLLHVAVS  588 (963)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHhcc
Confidence            55555555554

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=95.67  E-value=0.92  Score=40.14  Aligned_cols=187  Identities=11%  Similarity=0.105  Sum_probs=112.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhc----C---------------
Q 044047           60 TLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHS----D---------------  120 (260)
Q Consensus        60 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~---------------  120 (260)
                      .++..+...+..+.+.++..-.     +.++..--.+..++...|++++|..+|++....    .               
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhccccccccc
Confidence            3444555556655554433221     123333345667778888888888888764210    0               


Q ss_pred             ---CCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCH----HHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCC
Q 044047          121 ---VAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGI----EAYSCLIDGLCKIGKLETAWELFQSLPRVGLMP  193 (260)
Q Consensus       121 ---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  193 (260)
                         ...-..-|..++..+.+.+.++.+.++-+...+...+.+.    ..|..+.+.+...|++++|...+-.+.....+ 
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r-  970 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK-  970 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC-
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH-
Confidence               0011234677888888899999988887766654322222    26788899999999999999999877765433 


Q ss_pred             chhhHHHHHHHHHhcCCh------------HHHHHHHHHHHhC--CCCCChhhHHHHHHHHHhcCchhHHHHHH
Q 044047          194 NVVTYNIMIHGFCNDGQM------------DKAHDLFLDMEAK--GVAPNCVTFNTLMLGCIRNNETSKVVELL  253 (260)
Q Consensus       194 ~~~~~~~l~~~~~~~g~~------------~~a~~~~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  253 (260)
                       ......|+..++..|..            ++..+++......  .+...+.-|..|-.-+...|++.+|-.++
T Consensus       971 -~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vm 1043 (1139)
T 4fhn_B          971 -KSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAII 1043 (1139)
T ss_dssp             -HHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHH
T ss_pred             -HHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHH
Confidence             45667777777765554            3444444332211  11212233555556666778887765543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=95.56  E-value=1.2e-06  Score=67.26  Aligned_cols=182  Identities=12%  Similarity=0.121  Sum_probs=121.2

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHH
Q 044047           54 NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFID  133 (260)
Q Consensus        54 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  133 (260)
                      .+..|..+..+..+.+...+|++.|-+   .   -|+..|..++....+.|.+++.++++...++..-  ++..=+.|+-
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIk---A---~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~  124 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIK---A---DDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIF  124 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCC---C---SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHh---C---CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHH
Confidence            456788888888888888777765522   1   2677888889999999999998888887776533  3344558888


Q ss_pred             HHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC--------------------CCC
Q 044047          134 GLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVG--------------------LMP  193 (260)
Q Consensus       134 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------------------~~~  193 (260)
                      +|++.++..+..+++.       .|+..-...+..-|...|.++.|.-+|..+.+..                    -.-
T Consensus       125 ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAn  197 (624)
T 3lvg_A          125 ALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKAN  197 (624)
T ss_dssp             HHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCC
T ss_pred             HHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            8988888766444332       4555555667777777777777766665543220                    012


Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHH
Q 044047          194 NVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHR  255 (260)
Q Consensus       194 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  255 (260)
                      ++.||..+-.+|...+++.-|.-.--.+.-   .|+  ....++..|-..|.+++.+.+++.
T Consensus       198 s~ktWKeV~~ACvd~~EfrLAqicGLniIv---had--eL~elv~~YE~~G~f~ELIsLlEa  254 (624)
T 3lvg_A          198 STRTWKEVCFACVDGKEFRLAQMCGLHIVV---HAD--ELEELINYYQDRGYFEELITMLEA  254 (624)
T ss_dssp             SSCSHHHHTHHHHHSCTTTTTTHHHHHHHC---CSS--CCSGGGSSSSTTCCCTTSTTTHHH
T ss_pred             ChhHHHHHHHHHhCchHHHHHHHhcchhcc---cHH--HHHHHHHHHHhCCCHHHHHHHHHH
Confidence            566788888888888877776655544442   122  223466667777777777766654

>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=95.33  E-value=0.14  Score=39.27  Aligned_cols=53  Identities=9%  Similarity=0.078  Sum_probs=25.0

Q ss_pred             HHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhh
Q 044047          133 DGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSL  186 (260)
Q Consensus       133 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  186 (260)
                      ..+...|++.++...+..+.... +.+...+..++.++.+.|+..+|.+.|+.+
T Consensus       179 ~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          179 EAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33344455555544444444333 344444555555555555555555554443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.27  E-value=0.8  Score=35.78  Aligned_cols=93  Identities=14%  Similarity=0.134  Sum_probs=44.1

Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHhhhcCCC-cC----HHHHHHHHHHHHhcCCHHHHHHHHHhhhh----CCCCCc--hhh
Q 044047          129 NTFIDGLCKNGYIVEAAELFRTLRVLKCE-LG----IEAYSCLIDGLCKIGKLETAWELFQSLPR----VGLMPN--VVT  197 (260)
Q Consensus       129 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~--~~~  197 (260)
                      ..|...+...|++.+|..++..+...-.. .+    ...+...++.|...+++..|..++..+..    ....|+  ...
T Consensus       141 ~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~  220 (445)
T 4b4t_P          141 KDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEY  220 (445)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHH
Confidence            34555556666666666666555321111 11    22444455556666666666666555421    111111  123


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHH
Q 044047          198 YNIMIHGFCNDGQMDKAHDLFLDM  221 (260)
Q Consensus       198 ~~~l~~~~~~~g~~~~a~~~~~~~  221 (260)
                      +...+..+...+++.+|...|.++
T Consensus       221 ~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          221 YNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHH
Confidence            344444555555555555555444

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=95.23  E-value=1.1e-05  Score=62.07  Aligned_cols=117  Identities=13%  Similarity=0.166  Sum_probs=73.2

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      .+.+|..|..+..+.+++.+|++.|-   +   ..|+..|..++....+.|.+++-++.+...++. .+ ++..=+.|+-
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyI---k---A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~-~k-e~~IDteLi~  124 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYI---K---ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK-AR-ESYVETELIF  124 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSC---C---CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT-CC-STTTTHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHH---h---CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-hc-ccccHHHHHH
Confidence            34567777788777777777765542   2   236667888888888888888888888666554 22 4555567888


Q ss_pred             HHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHH
Q 044047           99 GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRT  150 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  150 (260)
                      +|++.++..+..+++.       .|+..-...+..-|...|.++.|.-+|..
T Consensus       125 ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~  169 (624)
T 3lvg_A          125 ALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNN  169 (624)
T ss_dssp             HHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGG
T ss_pred             HHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHh
Confidence            8888877655433321       23444444555555555555555554443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=95.22  E-value=1.5  Score=38.80  Aligned_cols=148  Identities=14%  Similarity=0.124  Sum_probs=95.3

Q ss_pred             HHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhc----C----------------
Q 044047           96 LFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVL----K----------------  155 (260)
Q Consensus        96 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~----------------  155 (260)
                      ++..+...+..+.+..+..-     .+.++..-..+..++...|++++|...|++.-..    .                
T Consensus       818 l~~~l~~~~~~~~~~~l~~~-----~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~  892 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGW-----LNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKY  892 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHH-----SCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTT
T ss_pred             HHHHHHHhhhHHHHHHHhhh-----ccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccc
Confidence            33444455555555443332     2334444456778889999999999999875210    0                


Q ss_pred             --CCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc----hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 044047          156 --CELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPN----VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPN  229 (260)
Q Consensus       156 --~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  229 (260)
                        ...-..-|..++..+.+.+.++.+.++-....+....-+    ...|..+.+.+...|++++|...+..+.....  -
T Consensus       893 ~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r  970 (1139)
T 4fhn_B          893 HHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--K  970 (1139)
T ss_dssp             TSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--C
T ss_pred             cccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--H
Confidence              011123466777888888888888888776655422111    12578888999999999999999888876533  3


Q ss_pred             hhhHHHHHHHHHhcCchhHHH
Q 044047          230 CVTFNTLMLGCIRNNETSKVV  250 (260)
Q Consensus       230 ~~~~~~l~~~~~~~~~~~~a~  250 (260)
                      ...+..|+...+..|..+.-.
T Consensus       971 ~~cLr~LV~~lce~~~~~~L~  991 (1139)
T 4fhn_B          971 KSCLLDFVNQLTKQGKINQLL  991 (1139)
T ss_dssp             HHHHHHHHHHHHHHCCHHHHH
T ss_pred             HHHHHHHHHHHHhCCChhhhh
Confidence            566777877777777665543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.70  E-value=1.2  Score=34.83  Aligned_cols=245  Identities=11%  Similarity=0.067  Sum_probs=135.3

Q ss_pred             hHHHHHHHHHHc-----CCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhc-CCCCchhhHHHHHH----HHHhcCChH
Q 044047            3 EASRLLDLMIQR-----GVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDIN-GCMHNVVTYNTLIN----GYCKTKDVE   72 (260)
Q Consensus         3 ~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~----~~~~~~~~~   72 (260)
                      +|++.+-.+.+.     +...+......++..|...|+++...+.+..+... |..+  .....+++    ........+
T Consensus        34 ~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk--~ai~~~V~~~~~~l~~~~~~d  111 (445)
T 4b4t_P           34 SALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLK--LSIQYMIQKVMEYLKSSKSLD  111 (445)
T ss_dssp             HHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSH--HHHHHHHHHHHHHHHHHCTTH
T ss_pred             HHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhH--HHHHHHHHHHHHHHhcCCchh
Confidence            455555444432     23445677888899999999999988877766443 3222  22233333    222233322


Q ss_pred             HH--HHHHHHHHhcCCCCCccc---------hHHHHHHHhccccHHHHHHHHHHHhhc--CCCc---chhhHHHHHHHHH
Q 044047           73 ES--LNLYSEMLSKGIRPTVVT---------YNTLFHGLFEIHQVEHALKLFDEMQHS--DVAA---ETSTYNTFIDGLC  136 (260)
Q Consensus        73 ~a--~~~~~~~~~~~~~~~~~~---------~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~---~~~~~~~l~~~~~  136 (260)
                      ..  ..+.+.+.  .+. +..+         ...|...+...|++.+|..++..+...  +...   -...+...++.|.
T Consensus       112 ~~~~~~~i~~l~--~vt-e~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l  188 (445)
T 4b4t_P          112 LNTRISVIETIR--VVT-ENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSI  188 (445)
T ss_dssp             HHHHHHHHHCCS--SSS-SCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH--HHh-ccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            21  12221111  111 1122         245778899999999999999998532  2111   1356777888999


Q ss_pred             hcCcHHHHHHHHHHhhh----cCCCcC--HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC-CCCchhhHH----HHHHHH
Q 044047          137 KNGYIVEAAELFRTLRV----LKCELG--IEAYSCLIDGLCKIGKLETAWELFQSLPRVG-LMPNVVTYN----IMIHGF  205 (260)
Q Consensus       137 ~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~----~l~~~~  205 (260)
                      ..+++..|..+++++..    ...+|+  ...+...+..+...+++.+|.+.|.++.... ...+...+.    .++.+.
T Consensus       189 ~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~  268 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFL  268 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHH
Confidence            99999999999988642    111222  2346677888888999999988887765421 111222222    122222


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc--CchhHHHHH
Q 044047          206 CNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRN--NETSKVVEL  252 (260)
Q Consensus       206 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~--~~~~~a~~~  252 (260)
                      .-.+....-..++........-++...+..++.+|...  .+|+.+.+.
T Consensus       269 iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~  317 (445)
T 4b4t_P          269 VLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTNELMRWPIVQKT  317 (445)
T ss_dssp             HHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHCCSSSHHHHHHH
T ss_pred             HhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhchHhhhHHHHHH
Confidence            22222222223333332222234667788888887653  334444433

>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=93.51  E-value=0.66  Score=27.55  Aligned_cols=49  Identities=8%  Similarity=0.017  Sum_probs=25.8

Q ss_pred             cHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhh
Q 044047          140 YIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPR  188 (260)
Q Consensus       140 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (260)
                      +.-+..+-++.+.....-|++.+..+.+++|.+.+++..|.++++.++.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3344445555555555555555555555555555555555555555443

>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=93.02  E-value=0.81  Score=27.18  Aligned_cols=62  Identities=8%  Similarity=0.077  Sum_probs=40.2

Q ss_pred             CHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH
Q 044047           35 EIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF   97 (260)
Q Consensus        35 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   97 (260)
                      +.=+..+-++.+...+.-|++....+.+++|-+.+|+..|.++++-.+.. ..+...+|..++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~l   86 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI   86 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHH
Confidence            44456666677777777777777777777777777777777777776654 222333455444

>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=93.00  E-value=2.4  Score=32.49  Aligned_cols=27  Identities=11%  Similarity=-0.091  Sum_probs=19.7

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHH
Q 044047           56 VTYNTLINGYCKTKDVEESLNLYSEML   82 (260)
Q Consensus        56 ~~~~~l~~~~~~~~~~~~a~~~~~~~~   82 (260)
                      .+...+...|.+.|+.++..+++....
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~   46 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTR   46 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            456677778888888888777777654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=92.60  E-value=1.4  Score=28.92  Aligned_cols=57  Identities=9%  Similarity=0.034  Sum_probs=25.8

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHhhcC-CCCch-------hhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047           25 TLIDGFCLTGEIDRARELFVSMDING-CMHNV-------VTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus        25 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      .-+..+...|.++.|+-+.+.+.... .+|+.       .++..+..++...+++..|...|++.
T Consensus        25 dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qA   89 (167)
T 3ffl_A           25 DHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMA   89 (167)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            33444555555555555554433210 01221       13344445555555555555555554

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.27  E-value=1.9  Score=33.43  Aligned_cols=97  Identities=13%  Similarity=-0.005  Sum_probs=62.3

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcC--CCCCccchHHHHHHHhccccHHHHHHHHHHHhhc---CCCcchh--hH
Q 044047           56 VTYNTLINGYCKTKDVEESLNLYSEMLSKG--IRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHS---DVAAETS--TY  128 (260)
Q Consensus        56 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~--~~  128 (260)
                      .++..+...|.+.|+++.|.+.+.++....  ...-...+-..++.+...+++..+...+.+....   +..++..  ..
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            356778888888899999988888887642  2223456667777888888888888888876432   2122211  11


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHhh
Q 044047          129 NTFIDGLCKNGYIVEAAELFRTLR  152 (260)
Q Consensus       129 ~~l~~~~~~~~~~~~a~~~~~~~~  152 (260)
                      ..-+..+...+++..|.+.|-+..
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~  235 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSL  235 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHh
Confidence            112223345678888877776654

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.21  E-value=2.4  Score=32.96  Aligned_cols=98  Identities=11%  Similarity=-0.063  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHhhc--CCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc---CCCCCccc--h
Q 044047           21 FVYSTLIDGFCLTGEIDRARELFVSMDIN--GCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK---GIRPTVVT--Y   93 (260)
Q Consensus        21 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~--~   93 (260)
                      .+...+...+.+.|+++.|.+.+.++...  +...-...+-..++.+...+++..+...+.+....   +..|+...  .
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            35677899999999999999999999764  32344667888899999999999999999987643   22222111  0


Q ss_pred             HHHHHHHhccccHHHHHHHHHHHhh
Q 044047           94 NTLFHGLFEIHQVEHALKLFDEMQH  118 (260)
Q Consensus        94 ~~l~~~~~~~~~~~~a~~~~~~~~~  118 (260)
                      ..-+..+...+++..|.+.|-+...
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            1111223456788888888776543

>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=92.12  E-value=1.4  Score=27.77  Aligned_cols=45  Identities=9%  Similarity=0.073  Sum_probs=21.3

Q ss_pred             HHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          179 AWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       179 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      ..+-++.+....+.|++......+++|.+.+++..|.++|+-.+.
T Consensus        72 lrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~  116 (152)
T 2y69_E           72 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD  116 (152)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            333344444444444555555555555555555555555544443

>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=91.76  E-value=3.5  Score=31.57  Aligned_cols=167  Identities=9%  Similarity=-0.028  Sum_probs=105.2

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhc----CCCCchhhHHHHHHHHHhcC-ChHHHHHHHHHHHhcCCCCCccch-
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDIN----GCMHNVVTYNTLINGYCKTK-DVEESLNLYSEMLSKGIRPTVVTY-   93 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~-   93 (260)
                      ......|...|.+.|+.++..+++.....-    +..-.......++..+.... ..+.-.++..+..+..-. +..+| 
T Consensus        19 e~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~r~fl   97 (394)
T 3txn_A           19 EQGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQ-EKRTFL   97 (394)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH-TTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHH-HHHHHH
Confidence            345667889999999999999988876432    11123445667777776653 344444444444432111 22333 


Q ss_pred             -----HHHHHHHhccccHHHHHHHHHHHhhcCCCcc-----hhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC--CCcCHH
Q 044047           94 -----NTLFHGLFEIHQVEHALKLFDEMQHSDVAAE-----TSTYNTFIDGLCKNGYIVEAAELFRTLRVLK--CELGIE  161 (260)
Q Consensus        94 -----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~  161 (260)
                           ..++..|...|++.+|..++..+.+.--..|     ...+..-+..|...+++..+...+.......  +.+++.
T Consensus        98 r~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~  177 (394)
T 3txn_A           98 RQSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPK  177 (394)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHH
Confidence                 2578889999999999999888865311111     3345566777888999999998887765322  224443


Q ss_pred             HHHH----HHHHHH-hcCCHHHHHHHHHhhh
Q 044047          162 AYSC----LIDGLC-KIGKLETAWELFQSLP  187 (260)
Q Consensus       162 ~~~~----l~~~~~-~~~~~~~a~~~~~~~~  187 (260)
                      ....    -...+. ..+++..|...|-+..
T Consensus       178 i~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          178 VQGALDLQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHhccCHHHHHHHHHHHH
Confidence            3222    234455 7889999888776653

>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=91.52  E-value=1.7  Score=27.39  Aligned_cols=66  Identities=6%  Similarity=-0.034  Sum_probs=30.0

Q ss_pred             ccHHHHHHHHHHHhccCC---HHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047           18 PNAFVYSTLIDGFCLTGE---IDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLS   83 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   83 (260)
                      |++.+--.+..++++..+   ..+++.+++.+.+.+.......+-.+.-++.+.|+++.|.+..+.+.+
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            344433334444444332   234455555554443112233444444555555555555555555554

>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=91.21  E-value=2.2  Score=29.06  Aligned_cols=55  Identities=20%  Similarity=0.213  Sum_probs=30.9

Q ss_pred             CChHHHHHHHHHHHhcCCCCC-ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCc
Q 044047           69 KDVEESLNLYSEMLSKGIRPT-VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAA  123 (260)
Q Consensus        69 ~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  123 (260)
                      ++..++..+|..|...|+-.. ..-|......+...|++++|..+|+.-++.+-.|
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            335566666666665544322 3344555555666666666666666665555444

>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=90.63  E-value=2.1  Score=27.01  Aligned_cols=64  Identities=9%  Similarity=0.177  Sum_probs=41.6

Q ss_pred             hHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHH
Q 044047           71 VEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGL  135 (260)
Q Consensus        71 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  135 (260)
                      .-+..+-+..+....+.|++.+....+++|.+.+++..|.++|+-++.+- .+...+|..+++-.
T Consensus        69 ~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~lqEl  132 (152)
T 2y69_E           69 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQEL  132 (152)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHHHHH
Confidence            34555666666666677777777777777777777777777777766543 33344566665543

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=90.53  E-value=1.7  Score=25.72  Aligned_cols=79  Identities=10%  Similarity=0.013  Sum_probs=41.9

Q ss_pred             CCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHH
Q 044047           34 GEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLF  113 (260)
Q Consensus        34 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  113 (260)
                      ...++|..+-+-+...+.  ...+--+-+..+...|++++|..+.+.+    ..||...|..|.  -.+.|..+++...+
T Consensus        20 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALc--e~rlGl~s~le~rL   91 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGN----PWPALEPWFALC--EWHLGLGAALDRRL   91 (115)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTC----CCGGGHHHHHHH--HHHTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHH--HHhcccHHHHHHHH
Confidence            345666666655555441  2222222334556667777766555433    245666555543  33566666666666


Q ss_pred             HHHhhcC
Q 044047          114 DEMQHSD  120 (260)
Q Consensus       114 ~~~~~~~  120 (260)
                      ..+..+|
T Consensus        92 ~~la~sg   98 (115)
T 2uwj_G           92 AGLGGSS   98 (115)
T ss_dssp             HHHHTCS
T ss_pred             HHHHhCC
Confidence            6666555

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=90.38  E-value=1.9  Score=30.90  Aligned_cols=116  Identities=18%  Similarity=0.190  Sum_probs=70.4

Q ss_pred             HHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCC--cCHHHHHHHHHHHHhcCC
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCE--LGIEAYSCLIDGLCKIGK  175 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~  175 (260)
                      ....+.|++++++.....-.+.. |.|...-..++..+|-.|+++.|.+-++...+....  +....|..+|.+-     
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~aE-----   78 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAA-----   78 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHH-----
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHHH-----
Confidence            34567788888888888777775 677777788888888889999988888877765421  2222344444331     


Q ss_pred             HHHHHHHHHhhhhCCCCC-----chhhHHHHHHHHH--hcCChHHHHHHHHHHHhC
Q 044047          176 LETAWELFQSLPRVGLMP-----NVVTYNIMIHGFC--NDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       176 ~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~~  224 (260)
                           ..=.+...-+-.|     ...-...++.+..  ..|+.++|.++-..+.+.
T Consensus        79 -----~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~  129 (273)
T 1zbp_A           79 -----QARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  129 (273)
T ss_dssp             -----HHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Confidence                 1111221111111     1222334444443  468888888888877653

>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=90.24  E-value=1.8  Score=25.64  Aligned_cols=86  Identities=9%  Similarity=0.104  Sum_probs=46.2

Q ss_pred             CCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHH
Q 044047           34 GEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLF  113 (260)
Q Consensus        34 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  113 (260)
                      ...++|..+-+-+...+.  ...+--+-+..+...|++++|..+.+.+    ..||...|..|.  -.+.|..+++...+
T Consensus        21 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALc--e~rlGl~s~le~rL   92 (116)
T 2p58_C           21 HYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKL----AYPDLEPWLALC--EYRLGLGSALESRL   92 (116)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTS----CCGGGHHHHHHH--HHHHTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHH--HHhcccHHHHHHHH
Confidence            455666666666655541  2222222334556667777777665443    256666665553  33566666666666


Q ss_pred             HHHhhcCCCcchhhH
Q 044047          114 DEMQHSDVAAETSTY  128 (260)
Q Consensus       114 ~~~~~~~~~~~~~~~  128 (260)
                      ..+..+| .|....|
T Consensus        93 ~~la~sg-~p~~q~F  106 (116)
T 2p58_C           93 NRLARSQ-DPRIQTF  106 (116)
T ss_dssp             HHHTTCC-CHHHHHH
T ss_pred             HHHHhCC-CHHHHHH
Confidence            6666655 3433333

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=89.68  E-value=3.7  Score=29.43  Aligned_cols=55  Identities=15%  Similarity=0.178  Sum_probs=37.4

Q ss_pred             HHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044047           29 GFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSK   84 (260)
Q Consensus        29 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   84 (260)
                      .+.+.|++++++.....-.+.. |.|...-..+++.+|-.|+++.|.+-++...+.
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            4456677777777776666655 566666667777777777777777777666554

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=89.15  E-value=2.3  Score=25.20  Aligned_cols=84  Identities=10%  Similarity=0.037  Sum_probs=57.2

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|..|-+.+...+.  ...+--+-+..+...|++++|..+.+...    .||...|-.+-.  .+.|-.+++...+.++
T Consensus        23 qEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~~l   94 (115)
T 2uwj_G           23 EEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNP----WPALEPWFALCE--WHLGLGAALDRRLAGL   94 (115)
T ss_dssp             HHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCC----CGGGHHHHHHHH--HHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHHHH
Confidence            467778888877753  23233334456778999999988765443    688888877655  4778888888888788


Q ss_pred             HhcCCCCCccchH
Q 044047           82 LSKGIRPTVVTYN   94 (260)
Q Consensus        82 ~~~~~~~~~~~~~   94 (260)
                      ..+|. |....|.
T Consensus        95 a~sg~-p~~q~Fa  106 (115)
T 2uwj_G           95 GGSSD-PALADFA  106 (115)
T ss_dssp             HTCSS-HHHHHHH
T ss_pred             HhCCC-HHHHHHH
Confidence            77653 3444443

>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=88.87  E-value=2.4  Score=25.13  Aligned_cols=83  Identities=11%  Similarity=0.105  Sum_probs=57.2

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|..|-+.+...+.  ...+--+-+..+...|++++|..+.+...    .||...|-.+..  .+.|-.+++...+.++
T Consensus        24 qEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~~l   95 (116)
T 2p58_C           24 EEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLA----YPDLEPWLALCE--YRLGLGSALESRLNRL   95 (116)
T ss_dssp             HHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSC----CGGGHHHHHHHH--HHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHHHH
Confidence            467778888887763  23333334556778999999998876544    688888877765  4678888888888777


Q ss_pred             HhcCCCCCccch
Q 044047           82 LSKGIRPTVVTY   93 (260)
Q Consensus        82 ~~~~~~~~~~~~   93 (260)
                      ..+|. |....|
T Consensus        96 a~sg~-p~~q~F  106 (116)
T 2p58_C           96 ARSQD-PRIQTF  106 (116)
T ss_dssp             TTCCC-HHHHHH
T ss_pred             HhCCC-HHHHHH
Confidence            76653 344444

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=88.29  E-value=6.4  Score=29.32  Aligned_cols=26  Identities=15%  Similarity=-0.024  Sum_probs=17.3

Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHH
Q 044047          158 LGIEAYSCLIDGLCKIGKLETAWELF  183 (260)
Q Consensus       158 ~~~~~~~~l~~~~~~~~~~~~a~~~~  183 (260)
                      -++.....+...|.+.+++.+|...|
T Consensus       134 Gdp~LH~~ig~~~~~e~~~~~Ae~H~  159 (336)
T 3lpz_A          134 GDPELHHVVGTLYVEEGEFEAAEKHL  159 (336)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            35566666677777777777776665

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=87.89  E-value=3.6  Score=25.91  Aligned_cols=67  Identities=10%  Similarity=0.024  Sum_probs=32.0

Q ss_pred             CcCHHHHHHHHHHHHhcCCH---HHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          157 ELGIEAYSCLIDGLCKIGKL---ETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       157 ~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      .|++.+--.+..++.++.+.   .+++.+++.+.+.+..-....+-.+.-++.+.|++++|.+..+.+++
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            44444444444444444432   24555555554433111233444445555556666666666655555

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=87.86  E-value=6.6  Score=28.96  Aligned_cols=113  Identities=12%  Similarity=0.090  Sum_probs=56.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHH----HHHHHHHHhhcCCCcchhhHHHHH
Q 044047           57 TYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEH----ALKLFDEMQHSDVAAETSTYNTFI  132 (260)
Q Consensus        57 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~  132 (260)
                      .|.++..-|.+++++++|++++..-..               .+.+.|+...    +.-+++.+.+.+++++......++
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~ga~---------------~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~   99 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQGAL---------------SFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLV   99 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH---------------HHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHH---------------HHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            345555556666666666666544221               1112233222    223344445555566655555555


Q ss_pred             HHHHhcCcHH-HHHHHHHHhhh----cC--CCcCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 044047          133 DGLCKNGYIV-EAAELFRTLRV----LK--CELGIEAYSCLIDGLCKIGKLETAWELFQ  184 (260)
Q Consensus       133 ~~~~~~~~~~-~a~~~~~~~~~----~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  184 (260)
                      ..+.....-+ .-.++++.+..    .+  ..-++.....+...|.+.|++.+|...|-
T Consensus       100 ~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i  158 (312)
T 2wpv_A          100 RLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFM  158 (312)
T ss_dssp             HHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHH
Confidence            5554422111 11222222221    11  12366777777788888888877777664

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=87.63  E-value=4.4  Score=26.65  Aligned_cols=22  Identities=9%  Similarity=0.136  Sum_probs=11.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhh
Q 044047          165 CLIDGLCKIGKLETAWELFQSL  186 (260)
Q Consensus       165 ~l~~~~~~~~~~~~a~~~~~~~  186 (260)
                      -+..+|.+.+++++|+.+++.+
T Consensus       127 kia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A          127 KLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTS
T ss_pred             HHHHHHHHHCCHHHHHHHHhcC
Confidence            3445555555555555555544

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=87.36  E-value=6.1  Score=28.01  Aligned_cols=22  Identities=14%  Similarity=-0.079  Sum_probs=10.2

Q ss_pred             cCCHHHHHHHHHhhhhCCCCCc
Q 044047          173 IGKLETAWELFQSLPRVGLMPN  194 (260)
Q Consensus       173 ~~~~~~a~~~~~~~~~~~~~~~  194 (260)
                      .++......+++.+.+.|..++
T Consensus       192 ~~~~~~~~~i~~~Ll~~g~~~~  213 (285)
T 1wdy_A          192 SSDDSDVEAITHLLLDHGADVN  213 (285)
T ss_dssp             CSCTTTHHHHHHHHHHTTCCSS
T ss_pred             ccccchHHHHHHHHHHcCCCCC
Confidence            3443334445555555554443

>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=87.31  E-value=5.3  Score=27.23  Aligned_cols=53  Identities=13%  Similarity=-0.043  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHhhhcCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCC
Q 044047          141 IVEAAELFRTLRVLKCELG-IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMP  193 (260)
Q Consensus       141 ~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  193 (260)
                      ..++..+|..|...++.-. ...|......+...|++.+|.++|+.-.+.+..|
T Consensus        95 ~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           95 FHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             HHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             cCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            4556666666655554333 3345555556666666666666666666555444

>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=86.88  E-value=3.7  Score=26.94  Aligned_cols=72  Identities=8%  Similarity=0.097  Sum_probs=52.5

Q ss_pred             CCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCc
Q 044047           16 VRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMH-NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTV   90 (260)
Q Consensus        16 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   90 (260)
                      .+.|+......+...-..   +.+.++|..|..+|+-. -+..|......+-..|++.+|.++|..-++.+..|..
T Consensus        59 YknD~RyLklWl~ya~~~---~~p~~if~~L~~~~IG~~~AlfY~~wA~~lE~~~~~~~A~~Iy~~Gi~~~A~P~~  131 (164)
T 2wvi_A           59 YYSDPRFLNLWLKLGRLC---NEPLDMYSYLHNQGIGVSLAQFYISWAEEYEARENFRKADAIFQEGIQQKAEPLE  131 (164)
T ss_dssp             GTTCHHHHHHHHHHHHHC---SCHHHHHHHHHHTTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHH
T ss_pred             hccCHHHHHHHHHHHHhc---CCHHHHHHHHHHCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHH
Confidence            355666555555333223   34777899998887654 4566888889999999999999999999998777654

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=86.74  E-value=4.5  Score=25.83  Aligned_cols=46  Identities=7%  Similarity=0.010  Sum_probs=20.3

Q ss_pred             HHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047           38 RARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLS   83 (260)
Q Consensus        38 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   83 (260)
                      +++.+++.+.+.+........-.+.-++.+.|++++|.+..+.+.+
T Consensus        60 ~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           60 LGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             HHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            3444444444432112223333444445555555555555555544

>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=86.34  E-value=5  Score=25.97  Aligned_cols=70  Identities=9%  Similarity=0.037  Sum_probs=45.0

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-ccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcc
Q 044047           52 MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT-VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAE  124 (260)
Q Consensus        52 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  124 (260)
                      ..|+.-....+..--..   +++..+|..|...|+-.. ..-|......+...|++++|..+|+.-++.+-.|-
T Consensus        65 knD~RyLklWl~ya~~~---~dp~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~P~  135 (152)
T 4a1g_A           65 HNDPRFISYCLKFAEYN---SDLHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQAEPR  135 (152)
T ss_dssp             TTCHHHHHHHHHHHTTB---SCHHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSH
T ss_pred             cCCHHHHHHHHHHHHhc---CCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccH
Confidence            44555444444433222   337788888877765433 44566777777788888888888888777765653

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=86.31  E-value=16  Score=31.72  Aligned_cols=153  Identities=14%  Similarity=0.055  Sum_probs=65.6

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCccchHHHHH--HHhccccHHHHHHHHHHHhhcCCCcchhhH--HHHHHHHHhcCc
Q 044047           65 YCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFH--GLFEIHQVEHALKLFDEMQHSDVAAETSTY--NTFIDGLCKNGY  140 (260)
Q Consensus        65 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~  140 (260)
                      +...|+.+....++..+.+..   +..+...+..  ++...|+.+.+..+.+.+.... .|....-  ..+.-+|+..|+
T Consensus       500 ~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn  575 (963)
T 4ady_A          500 MLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGRQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGN  575 (963)
T ss_dssp             HTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCC
T ss_pred             hcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCC
Confidence            334455555555555544421   2222222222  2234555555555555554432 2222111  123334555666


Q ss_pred             HHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCCh-HHHHHHHH
Q 044047          141 IVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQM-DKAHDLFL  219 (260)
Q Consensus       141 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~  219 (260)
                      .....+++..+.... ..+..-...+.-+....|+.+.+.+++..+.+.+ .|....-..+.-+....|.. .++.+++.
T Consensus       576 ~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~  653 (963)
T 4ady_A          576 NSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLD  653 (963)
T ss_dssp             HHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHH
Confidence            655555666555432 2223323333333444555555555555554432 23332222233333333332 34555555


Q ss_pred             HHHh
Q 044047          220 DMEA  223 (260)
Q Consensus       220 ~~~~  223 (260)
                      .+..
T Consensus       654 ~L~~  657 (963)
T 4ady_A          654 PLTK  657 (963)
T ss_dssp             HHHT
T ss_pred             HHcc
Confidence            5543

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus}

Probab=85.39  E-value=7.7  Score=27.90  Aligned_cols=143  Identities=9%  Similarity=0.006  Sum_probs=61.2

Q ss_pred             HHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccc--hHHHHHHHhccc
Q 044047           27 IDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVT--YNTLFHGLFEIH  104 (260)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~  104 (260)
                      +...+..|+.+-+..+++.    |..++...-.+.+...+..|+.+-+.    .+.+.|..++...  -.+.+...+..|
T Consensus        35 L~~A~~~g~~~~v~~Ll~~----g~~~~~~~g~t~L~~A~~~g~~~~v~----~Ll~~ga~~~~~d~~g~t~L~~A~~~g  106 (285)
T 3kea_A           35 SYYAIADNNVRLVCTLLNA----GALKNLLENEFPLHQAATLEDTKIVK----ILLFSGLDDSQFDDKGNTALYYAVDSG  106 (285)
T ss_dssp             HHHHHHTTCHHHHHHHHHT----TGGGSCCTTCCHHHHHTTSSSCHHHH----HHHHTTCCTTCCCTTSCCHHHHHHHTT
T ss_pred             HHHHHHcCCHHHHHHHHhC----CCCCCCCCCCCHHHHHHHcCCHHHHH----HHHHCCCCCCCcCCCCCcHHHHHHHcC
Confidence            4444556777655555443    32222221223444455566654333    3334455444321  122334444556


Q ss_pred             cHHHHHHHHHHHhhcCCCcch---hhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCc-CHHHHHHHHHHHHhcCCHHHHH
Q 044047          105 QVEHALKLFDEMQHSDVAAET---STYNTFIDGLCKNGYIVEAAELFRTLRVLKCEL-GIEAYSCLIDGLCKIGKLETAW  180 (260)
Q Consensus       105 ~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~  180 (260)
                      +.+-+..+++.    |..++.   ..+...+...+..|+.+-+..+++    .+..+ +...-.+.+...+..|+.+-+.
T Consensus       107 ~~~~v~~Ll~~----ga~~~~~~~~g~~t~L~~A~~~~~~~~v~~Ll~----~g~~~~~~~~g~t~L~~A~~~g~~~~v~  178 (285)
T 3kea_A          107 NMQTVKLFVKK----NWRLMFYGKTGWKTSFYHAVMLNDVSIVSYFLS----EIPSTFDLAILLSCIHITIKNGHVDMMI  178 (285)
T ss_dssp             CHHHHHHHHHH----CGGGGGCSSSGGGSHHHHHHHTTCHHHHHHHHT----TSCTTCCCSTHHHHHHHHHHTTCHHHHH
T ss_pred             CHHHHHHHHhc----CCCCCccCCCCCCCHHHHHHHcCCHHHHHHHHh----CCCccccccCCccHHHHHHHcChHHHHH
Confidence            66544444443    322221   111233344445566554443333    22111 1101122333445566766665


Q ss_pred             HHHHh
Q 044047          181 ELFQS  185 (260)
Q Consensus       181 ~~~~~  185 (260)
                      -+++.
T Consensus       179 ~Ll~~  183 (285)
T 3kea_A          179 LLLDY  183 (285)
T ss_dssp             HHHHH
T ss_pred             HHHHc
Confidence            55554

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=84.93  E-value=8.3  Score=27.28  Aligned_cols=19  Identities=16%  Similarity=0.237  Sum_probs=10.2

Q ss_pred             HHHHHhccCCHHHHHHHHH
Q 044047           26 LIDGFCLTGEIDRARELFV   44 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~   44 (260)
                      .+...++.|+.+....+++
T Consensus         8 ~L~~A~~~g~~~~v~~Ll~   26 (285)
T 1wdy_A            8 LLIKAVQNEDVDLVQQLLE   26 (285)
T ss_dssp             HHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHH
Confidence            3444556666665554443

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=83.82  E-value=6.5  Score=25.12  Aligned_cols=66  Identities=17%  Similarity=0.112  Sum_probs=26.9

Q ss_pred             cchhhHHHHHHHHHhcCcHH---HHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhh
Q 044047          123 AETSTYNTFIDGLCKNGYIV---EAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPR  188 (260)
Q Consensus       123 ~~~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (260)
                      |+..+-..+.-++.+..+..   +++.+++.+...+..-.......+.-++.+.|++++|.+..+.+.+
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            33333334444444433322   3444444444332111222333344444455555555555554444

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=83.24  E-value=18  Score=29.74  Aligned_cols=115  Identities=7%  Similarity=-0.052  Sum_probs=63.2

Q ss_pred             cHHHHHHHHHHhhhcCCCcCHHHH----HHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHH
Q 044047          140 YIVEAAELFRTLRVLKCELGIEAY----SCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAH  215 (260)
Q Consensus       140 ~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  215 (260)
                      +.+.|...+....... ..+....    ..+.......+...++...+.......  ++.......+....+.|+++.|.
T Consensus       229 d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a~  305 (618)
T 1qsa_A          229 DAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLN  305 (618)
T ss_dssp             CHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHHH
Confidence            5677777776665432 2233222    222223333342444555555443322  33333444555556678888888


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          216 DLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       216 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      ..|..|.... .....-.--+..++...|+.++|..+|+++.+
T Consensus       306 ~~~~~l~~~~-~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          306 TWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHccccc-cccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            8888776531 11333344566677778888888888877653

>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=82.93  E-value=13  Score=28.02  Aligned_cols=95  Identities=11%  Similarity=0.061  Sum_probs=57.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCC--hHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 044047          162 AYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQ--MDKAHDLFLDMEAKGVAPNCVTFNTLMLG  239 (260)
Q Consensus       162 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  239 (260)
                      ....++.-|...|+.++|.+.++++..-... .......+..++-+.++  .+....++..+...|+-+.......+...
T Consensus       219 ki~~lL~EY~~s~D~~EA~~ci~EL~~p~fh-he~V~~av~~aLE~~~~~~re~~~~LL~~L~~~glls~~q~~~Gf~~v  297 (358)
T 3eiq_C          219 EIDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGYERI  297 (358)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHCCTTCH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCCHHHHHHHHHHccCCcch-HHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Confidence            3577888889999999999999888642211 23344455555555433  45677888888877765554444444443


Q ss_pred             HHhcC----chhHHHHHHHHHh
Q 044047          240 CIRNN----ETSKVVELLHRMD  257 (260)
Q Consensus       240 ~~~~~----~~~~a~~~~~~m~  257 (260)
                      +....    |...|..++.++.
T Consensus       298 l~~ldDl~lDiP~A~~~la~~v  319 (358)
T 3eiq_C          298 YNEIPDINLDVPHSYSVLERFV  319 (358)
T ss_dssp             HHHHHHHHHHCTTHHHHHHHHH
T ss_pred             HHhccHhhcccccHHHHHHHHH
Confidence            33322    3445555555543

>4aez_C MAD3, mitotic spindle checkpoint component MAD3; cell cycle, KEN-BOX, D-BOX, APC/C; 2.30A {Schizosaccharomyces pombe}

Probab=82.15  E-value=5.6  Score=27.59  Aligned_cols=71  Identities=13%  Similarity=0.111  Sum_probs=51.7

Q ss_pred             CCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCC-chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC
Q 044047           16 VRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMH-NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPT   89 (260)
Q Consensus        16 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   89 (260)
                      .+-|+......+... ..  .+.+.++|..|...|+-. -...|......+-..|++.+|..+|+.-++.+-.|-
T Consensus       113 YknD~RyLklWl~Ya-~~--~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~P~  184 (223)
T 4aez_C          113 YKDDVRYLRIWMQYV-NY--IDEPVELFSFLAHHHIGQESSIFYEEYANYFESRGLFQKADEVYQKGKRMKAKPF  184 (223)
T ss_dssp             GTTCHHHHHHHHHHH-TT--CSCHHHHHHHHHHTTCSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCBSH
T ss_pred             ccCCHHHHHHHHHHH-Hc--cCCHHHHHHHHHHCCcchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccH
Confidence            455666555444432 22  246778999998887654 456788888999999999999999999888866663

>3kae_A CDC27, possible protein of nuclear scaffold; tetratricopeptide repeat protein, protein binding; 2.30A {Encephalitozoon cuniculi}

Probab=80.56  E-value=10  Score=25.21  Aligned_cols=23  Identities=9%  Similarity=-0.211  Sum_probs=12.2

Q ss_pred             hHHHHHHHhccccHHHHHHHHHH
Q 044047           93 YNTLFHGLFEIHQVEHALKLFDE  115 (260)
Q Consensus        93 ~~~l~~~~~~~~~~~~a~~~~~~  115 (260)
                      ++.+...+.+.|+.++|+..+..
T Consensus       117 y~l~a~lltq~g~r~EaI~y~~~  139 (242)
T 3kae_A          117 ESLLGDLCTLSGYREEGIGHYVR  139 (242)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHhhhHhhh
Confidence            34444555555666666555543

>3bu8_A Telomeric repeat-binding factor 2; TRF2 TRFH domain TRF2 dimerization domain TIN2 peptide, alternative splicing, cell cycle, chromosomal protein; 2.15A {Homo sapiens} SCOP: a.146.1.1 PDB: 3bua_A* 1h6p_A

Probab=80.30  E-value=12  Score=25.78  Aligned_cols=18  Identities=11%  Similarity=0.145  Sum_probs=8.6

Q ss_pred             HhccCCHHHHHHHHHHHh
Q 044047           30 FCLTGEIDRARELFVSMD   47 (260)
Q Consensus        30 ~~~~~~~~~a~~~~~~~~   47 (260)
                      |.+.|.+++|.++++...
T Consensus       124 Ciek~~f~kA~eiLkr~~  141 (235)
T 3bu8_A          124 CIKNKEFEKASKILKKHM  141 (235)
T ss_dssp             HHHTTCHHHHHHHHHHHS
T ss_pred             HHHhcchHHHHHHHHHHh
Confidence            444445555555544443

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens}

Probab=80.15  E-value=8.2  Score=26.47  Aligned_cols=203  Identities=13%  Similarity=0.063  Sum_probs=85.2

Q ss_pred             HHhccCCHHHHHHHHHHHhhcCCCCchh--hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccc---hHHHHHHHhcc
Q 044047           29 GFCLTGEIDRARELFVSMDINGCMHNVV--TYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVT---YNTLFHGLFEI  103 (260)
Q Consensus        29 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~  103 (260)
                      ..++.|+.+....+++    .|..++..  .-...+...+..|+.+-+.    .+.+.|..++...   -...+...+..
T Consensus        15 ~A~~~g~~~~~~~Ll~----~g~~~~~~~~~g~t~L~~A~~~~~~~~v~----~Ll~~~~~~~~~~~~~~~t~L~~A~~~   86 (240)
T 3eu9_A           15 KATQYGIYERCRELVE----AGYDVRQPDKENVTLLHWAAINNRIDLVK----YYISKGAIVDQLGGDLNSTPLHWATRQ   86 (240)
T ss_dssp             HHHHTTCHHHHHHHHH----TTCCTTCCCTTSCCHHHHHHHTTCHHHHH----HHHHTTCCTTCCBTTTTBCHHHHHHHH
T ss_pred             HHHHcCChHHHHHHHH----cCCCcCCCCCCCCCHHHHHHHhCCHHHHH----HHHHcCCcchhhcCCcCCChhHHHHHc
Confidence            3456777766655554    33232221  1123445556667764443    3444444333221   22344455556


Q ss_pred             ccHHHHHHHHHHHhhcCCCcc---hhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCc---CHHHHHHHHHHHHhcCCHH
Q 044047          104 HQVEHALKLFDEMQHSDVAAE---TSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCEL---GIEAYSCLIDGLCKIGKLE  177 (260)
Q Consensus       104 ~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~  177 (260)
                      |+.+-+..++    +.|..++   .... ..+...+..|+.+-+..+++.    +..+   +....+.+..+....+..+
T Consensus        87 ~~~~~v~~Ll----~~g~~~~~~~~~g~-t~l~~A~~~~~~~~~~~Ll~~----~~~~~~~~~~g~t~l~~a~~~~~~~~  157 (240)
T 3eu9_A           87 GHLSMVVQLM----KYGADPSLIDGEGC-SCIHLAAQFGHTSIVAYLIAK----GQDVDMMDQNGMTPLMWAAYRTHSVD  157 (240)
T ss_dssp             TCHHHHHHHH----HTTCCTTCCCTTSC-CHHHHHHHTTCHHHHHHHHHT----TCCTTCCCTTSCCHHHHHHHHCCSST
T ss_pred             CCHHHHHHHH----HcCCCCcccCCCCC-CHHHHHHHcCHHHHHHHHHhc----CCCccccCCCCCcHHHHHHHhCChHH
Confidence            6665443333    3333332   1122 233344556666654444432    2222   2222233333333333333


Q ss_pred             HHHHHHHhhhhCCCCCchh---hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhH--HHHHHHHHhcCchhHHHHH
Q 044047          178 TAWELFQSLPRVGLMPNVV---TYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTF--NTLMLGCIRNNETSKVVEL  252 (260)
Q Consensus       178 ~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~--~~l~~~~~~~~~~~~a~~~  252 (260)
                       ..+++.   +.|..++..   .-...+...+..|+.+-+..+++    .|..++....  ...+....+.|+.+-+.-+
T Consensus       158 -~~~~L~---~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~----~g~~~~~~~~~g~t~l~~A~~~~~~~~v~~L  229 (240)
T 3eu9_A          158 -PTRLLL---TFNVSVNLGDKYHKNTALHWAVLAGNTTVISLLLE----AGANVDAQNIKGESALDLAKQRKNVWMINHL  229 (240)
T ss_dssp             -THHHHH---HTTCCTTCCCTTTCCCHHHHHHHHTCHHHHHHHHH----HTCCTTCBCTTSCBHHHHHHHTTCHHHHHHH
T ss_pred             -HHHHHH---hcCCCcchhhccCCCcHHHHHHHcCCHHHHHHHHH----cCCCCCCcCCCCCCHHHHHHHcCcHHHHHHH
Confidence             333332   222222211   11123344456677664444443    3444432211  1234444566777666555


Q ss_pred             HHHH
Q 044047          253 LHRM  256 (260)
Q Consensus       253 ~~~m  256 (260)
                      ++..
T Consensus       230 ~~~~  233 (240)
T 3eu9_A          230 QEAR  233 (240)
T ss_dssp             HHHC
T ss_pred             HHhh
Confidence            5443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	260
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.88
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.87
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.81
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.81
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.64
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.6
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.57
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.56
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.53
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.48
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.47
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.43
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.3
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.25
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.18
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.17
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	99.12
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.12
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.11
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.1
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	99.06
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	99.05
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.05
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.99
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.94
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.87
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.86
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.82
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.81
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.71
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.69
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.68
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.62
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.57
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.55
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.53
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.53
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.51
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.47
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.46
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.43
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.39
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.35
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.35
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.35
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.31
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.26
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.25
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.21
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.09
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.88
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.87
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.84
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.65
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.56
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.3
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.99
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.39
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.91
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.88
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.17
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	92.63
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.2
d1bpoa1	157	Clathrin heavy-chain linker domain {Rat (Rattus no	83.9
d2f6ma1	64	Vacuolar protein sorting-associated protein 23, VP	81.42
d1bpoa1	157	Clathrin heavy-chain linker domain {Rat (Rattus no	81.24

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.88  E-value=1.5e-19  Score=136.53  Aligned_cols=252  Identities=14%  Similarity=0.080  Sum_probs=167.4

Q ss_pred             ChhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHH
Q 044047            1 MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSE   80 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   80 (260)
                      +++|++.++++.+.. |-++..+..+..++.+.|++++|...++.+.+.+ |.+..+|..+..++...|++++|+..+..
T Consensus        15 ~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A~~~~~~   92 (388)
T d1w3ba_          15 FEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRH   92 (388)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcccccccccccc
Confidence            367889999988875 4467888889999999999999999999988775 56778888899999999999998888776


Q ss_pred             HHhcCCCC------------------------------------------------------------------------
Q 044047           81 MLSKGIRP------------------------------------------------------------------------   88 (260)
Q Consensus        81 ~~~~~~~~------------------------------------------------------------------------   88 (260)
                      ..+.....                                                                        
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  172 (388)
T d1w3ba_          93 ALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAW  172 (388)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchhHHH
Confidence            65432110                                                                        


Q ss_pred             -----------------------------CccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcC
Q 044047           89 -----------------------------TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNG  139 (260)
Q Consensus        89 -----------------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  139 (260)
                                                   +...+..+...+...|++++|...+++....+ +.+...+..+...+...|
T Consensus       173 ~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  251 (388)
T d1w3ba_         173 SNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQG  251 (388)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCC
Confidence                                         11122222233334444444444444444433 334444555556666666


Q ss_pred             cHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHH
Q 044047          140 YIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFL  219 (260)
Q Consensus       140 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  219 (260)
                      ++++|...+++..+.. +.++.++..+...+...|++++|.+.++...... +.+...+..+...+...|++++|...|+
T Consensus       252 ~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  329 (388)
T d1w3ba_         252 LIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYR  329 (388)
T ss_dssp             CHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHH
Confidence            6666666666655543 4455666666666666777777777666665543 2345666677777777777777777777


Q ss_pred             HHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          220 DMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       220 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      +..+.. +-+..++..+..++...|++++|...|++..+
T Consensus       330 ~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         330 KALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            777642 23456677777778888888888888877665

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.87  E-value=6.9e-19  Score=132.87  Aligned_cols=186  Identities=14%  Similarity=0.129  Sum_probs=157.9

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHH
Q 044047           54 NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFID  133 (260)
Q Consensus        54 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  133 (260)
                      +..+|..+...+...|++++|+..+++....+.. +...+..+...+.+.|++++|+..|++..+.. |.+..++..+..
T Consensus       202 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~  279 (388)
T d1w3ba_         202 FLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLAN  279 (388)
T ss_dssp             CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHH
T ss_pred             cHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhh-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            4455666677777788888888888887776443 56778888899999999999999999998875 567788999999


Q ss_pred             HHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHH
Q 044047          134 GLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDK  213 (260)
Q Consensus       134 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  213 (260)
                      ++...|++++|.+.++...... +.+...+..+...+...|++++|...+++..+... -+..++..+..++...|++++
T Consensus       280 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~  357 (388)
T d1w3ba_         280 ALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFP-EFAAAHSNLASVLQQQGKLQE  357 (388)
T ss_dssp             HHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHHHHTTTCCHH
T ss_pred             HHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999988765 77888999999999999999999999999887642 246788999999999999999


Q ss_pred             HHHHHHHHHhCCCCC-ChhhHHHHHHHHHhcCc
Q 044047          214 AHDLFLDMEAKGVAP-NCVTFNTLMLGCIRNNE  245 (260)
Q Consensus       214 a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~  245 (260)
                      |...|++..+.  .| +...+..+..++.+.||
T Consensus       358 A~~~~~~al~l--~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         358 ALMHYKEAIRI--SPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHTT--CTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            99999999885  44 57788899999988775

>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=99.81  E-value=9.4e-17  Score=118.59  Aligned_cols=246  Identities=12%  Similarity=-0.002  Sum_probs=174.5

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      ++|+..|+...+.. |.++..|..+..++...|++++|...|++..+.. |-+...|..+..++...|++++|.+.+++.
T Consensus        36 ~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~  113 (323)
T d1fcha_          36 PNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDW  113 (323)
T ss_dssp             HHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccccccccchhhH
Confidence            57888888888775 4467788888888888888888888888887765 556778888888888888888888888887


Q ss_pred             HhcCCCCC--------------ccchHHHHHHHhccccHHHHHHHHHHHhhcCC-CcchhhHHHHHHHHHhcCcHHHHHH
Q 044047           82 LSKGIRPT--------------VVTYNTLFHGLFEIHQVEHALKLFDEMQHSDV-AAETSTYNTFIDGLCKNGYIVEAAE  146 (260)
Q Consensus        82 ~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~  146 (260)
                      ........              .......+..+...+...++...+.+..+... ..+..++..+...+...|++++|..
T Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~  193 (323)
T d1fcha_         114 LRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVD  193 (323)
T ss_dssp             HHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhc
Confidence            76422100              00111122334455667778888877665431 2345667778888888889999998


Q ss_pred             HHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhC--
Q 044047          147 LFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAK--  224 (260)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--  224 (260)
                      .++...... +.+...|..+...+...|++++|.+.++++.+... -+..+|..+..+|.+.|++++|+..|++.++.  
T Consensus       194 ~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p  271 (323)
T d1fcha_         194 CFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQP-GYIRSRYNLGISCINLGAHREAVEHFLEALNMQR  271 (323)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             ccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhh-ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            888887664 55677888888888889999999988888877532 24667888888888899999998888887652  


Q ss_pred             --------CCCCChhhHHHHHHHHHhcCchhHHHH
Q 044047          225 --------GVAPNCVTFNTLMLGCIRNNETSKVVE  251 (260)
Q Consensus       225 --------~~~p~~~~~~~l~~~~~~~~~~~~a~~  251 (260)
                              ........|..+-.++...|+.+.+..
T Consensus       272 ~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~  306 (323)
T d1fcha_         272 KSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  306 (323)
T ss_dssp             TC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             cChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence                    011122345556666666676665543

>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=99.81  E-value=2.3e-17  Score=121.89  Aligned_cols=229  Identities=13%  Similarity=0.064  Sum_probs=186.1

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccc
Q 044047           25 TLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIH  104 (260)
Q Consensus        25 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  104 (260)
                      .....+.+.|++++|...|+.+.+.. |.+..+|..+..++...|++++|...+.+..+..+. +...+..+...+...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccccc
Confidence            46777889999999999999999886 667889999999999999999999999999887543 6778888999999999


Q ss_pred             cHHHHHHHHHHHhhcCCCcchh---------------hHHHHHHHHHhcCcHHHHHHHHHHhhhcCC-CcCHHHHHHHHH
Q 044047          105 QVEHALKLFDEMQHSDVAAETS---------------TYNTFIDGLCKNGYIVEAAELFRTLRVLKC-ELGIEAYSCLID  168 (260)
Q Consensus       105 ~~~~a~~~~~~~~~~~~~~~~~---------------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~  168 (260)
                      ++++|.+.+++..... +....               .....+..+...+.+.++...+........ ..+...+..+..
T Consensus       102 ~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~  180 (323)
T d1fcha_         102 LQRQACEILRDWLRYT-PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGV  180 (323)
T ss_dssp             CHHHHHHHHHHHHHTS-TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHH
T ss_pred             cccccccchhhHHHhc-cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            9999999999987643 11111               111122334455677888888887765432 346778888999


Q ss_pred             HHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhH
Q 044047          169 GLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSK  248 (260)
Q Consensus       169 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  248 (260)
                      .+...|++++|...++....... -+..+|..+..++...|++++|.+.|++..+.. +-+..++..+..+|.+.|++++
T Consensus       181 ~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~  258 (323)
T d1fcha_         181 LFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHRE  258 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHhhhhccccccccccc-ccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHH
Confidence            99999999999999999887642 257789999999999999999999999998752 3357788999999999999999


Q ss_pred             HHHHHHHHhh
Q 044047          249 VVELLHRMDE  258 (260)
Q Consensus       249 a~~~~~~m~~  258 (260)
                      |++.|++.++
T Consensus       259 A~~~~~~al~  268 (323)
T d1fcha_         259 AVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998765

>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=99.64  E-value=1.9e-13  Score=100.18  Aligned_cols=217  Identities=9%  Similarity=-0.024  Sum_probs=175.3

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcC-ChHHHHHHHHHHHhcCCCCCccchHHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTK-DVEESLNLYSEMLSKGIRPTVVTYNTLFH   98 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   98 (260)
                      ...|+.+...+.+.+.+++|+.+++++.+.+ |-+..+|+....++...| ++++|+..+++..+.... +..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhH
Confidence            4577778888889999999999999999987 778889999999988876 589999999999887655 7889999999


Q ss_pred             HHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCC---
Q 044047           99 GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGK---  175 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  175 (260)
                      .+.+.|++++|+..++++.+.. |.+...|..+...+...|++++|+..++.+.+.+ +-+...|+.+...+.+.+.   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccch
Confidence            9999999999999999999886 6778999999999999999999999999999876 6677888888777766665   


Q ss_pred             ---HHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CChhhHHHHHHHHHh
Q 044047          176 ---LETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVA-PNCVTFNTLMLGCIR  242 (260)
Q Consensus       176 ---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~  242 (260)
                         +++|...+..+.+... .+...|..+...+.. ...+++...++...+.... .+...+..++..|..
T Consensus       199 ~~~~~~ai~~~~~al~~~P-~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVP-HNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHhCC-CchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence               5788888888877642 356777777666544 4467788888877664222 234556666666654

>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=99.60  E-value=2.1e-12  Score=94.31  Aligned_cols=218  Identities=11%  Similarity=-0.008  Sum_probs=158.0

Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHhc--------------cCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcC
Q 044047            4 ASRLLDLMIQRGVRPNAFVYSTLIDGFCL--------------TGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTK   69 (260)
Q Consensus         4 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   69 (260)
                      +..+|++....- +.++..|...+..+-+              .+..++|..+|+...+...+.+...|...+......|
T Consensus        35 v~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~  113 (308)
T d2onda1          35 VMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRM  113 (308)
T ss_dssp             HHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcc
Confidence            555677766642 4456666555554332              2345778888888876554566677888888888889


Q ss_pred             ChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHH-HHhcCcHHHHHHHH
Q 044047           70 DVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDG-LCKNGYIVEAAELF  148 (260)
Q Consensus        70 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~  148 (260)
                      +++.|..+|+++.+........+|...+....+.|+.+.|..+|+.+.+.+ +.+...|...... +...|+.+.|..+|
T Consensus       114 ~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~  192 (308)
T d2onda1         114 KYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIF  192 (308)
T ss_dssp             CHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHH
Confidence            999999999998876443334467888888888899999999999888765 4444555444443 34467888899999


Q ss_pred             HHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC-CCCc--hhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 044047          149 RTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVG-LMPN--VVTYNIMIHGFCNDGQMDKAHDLFLDMEAK  224 (260)
Q Consensus       149 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  224 (260)
                      +.+.... +.++..|...+......|+.+.|..+|++..... ..|.  ...|...+..-...|+.+.+..+++++.+.
T Consensus       193 e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         193 ELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            8888764 6677888888888889999999999999887653 2332  346777777777889999999988887653

>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=99.57  E-value=2.3e-12  Score=94.26  Aligned_cols=201  Identities=11%  Similarity=0.049  Sum_probs=162.1

Q ss_pred             ChhHHHHHHHHHHcCCCccHHHHHHHHHHHhccC-CHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHH
Q 044047            1 MDEASRLLDLMIQRGVRPNAFVYSTLIDGFCLTG-EIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYS   79 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   79 (260)
                      +++|+++++.+.+.+ |-+...|+....++...| ++++|+..++...+.+ |-+..+|..+...+.+.|++++|+..++
T Consensus        59 ~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~~~l~~~~eAl~~~~  136 (315)
T d2h6fa1          59 SERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLRDPSQELEFIA  136 (315)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHH
T ss_pred             hHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHHHhhccHHHHHHHHh
Confidence            478999999999986 457888999999988876 5999999999998876 6789999999999999999999999999


Q ss_pred             HHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCc------HHHHHHHHHHhhh
Q 044047           80 EMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGY------IVEAAELFRTLRV  153 (260)
Q Consensus        80 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~  153 (260)
                      ++.+.... +...|..+...+...|++++|+..++++.+.+ +.+...|+.+...+.+.+.      +++|+..+.....
T Consensus       137 kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~  214 (315)
T d2h6fa1         137 DILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIK  214 (315)
T ss_dssp             HHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHH
Confidence            99997554 78899999999999999999999999999986 6677788887777666554      6788888888887


Q ss_pred             cCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCC-chhhHHHHHHHHHh
Q 044047          154 LKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMP-NVVTYNIMIHGFCN  207 (260)
Q Consensus       154 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~  207 (260)
                      .. +.+...|..+...+... ..+++...++...+....+ +...+..++..|..
T Consensus       215 ~~-P~~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         215 LV-PHNESAWNYLKGILQDR-GLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             HS-TTCHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             hC-CCchHHHHHHHHHHHhc-ChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence            75 56778888776665544 4677888887776643322 34455666666643

>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=99.56  E-value=5.1e-12  Score=92.26  Aligned_cols=220  Identities=10%  Similarity=0.029  Sum_probs=168.9

Q ss_pred             HHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhc--------------CChHHHHHHHHHHHhcCCCCCccchHHHHHHHh
Q 044047           36 IDRARELFVSMDINGCMHNVVTYNTLINGYCKT--------------KDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLF  101 (260)
Q Consensus        36 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  101 (260)
                      .+.+..+|+++...- +.++..|...+..+...              +..++|..++++..+...+.+...|...+....
T Consensus        32 ~~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            345666777776653 55667777666654332              345788999999887644445667788888899


Q ss_pred             ccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHH-HHhcCCHHHHH
Q 044047          102 EIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDG-LCKIGKLETAW  180 (260)
Q Consensus       102 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~  180 (260)
                      ..|+.+.|..+|+++.+.........|...+..+.+.|+.+.|.++|+.+.... +.+...|...+.. +...|+.+.|.
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHH
Confidence            999999999999999876533334578899999999999999999999998765 4455555555443 34568999999


Q ss_pred             HHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCCC--hhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          181 ELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKG-VAPN--CVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      .+|+.+.... +.+...|...+..+...|+++.|..+|++..... ..|.  ...|...+.--...|+.+.+..+.+++.
T Consensus       190 ~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~  268 (308)
T d2onda1         190 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999998863 3357889999999999999999999999998763 3433  3467777877778899999999999875


Q ss_pred             h
Q 044047          258 E  258 (260)
Q Consensus       258 ~  258 (260)
                      +
T Consensus       269 ~  269 (308)
T d2onda1         269 T  269 (308)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.53  E-value=1.1e-12  Score=93.30  Aligned_cols=218  Identities=10%  Similarity=-0.082  Sum_probs=150.2

Q ss_pred             hHHHHHHHHHHcCC-Cc--cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHH
Q 044047            3 EASRLLDLMIQRGV-RP--NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYS   79 (260)
Q Consensus         3 ~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   79 (260)
                      .|+.-+++...... .+  ...+|..+..+|.+.|++++|...|++..+.. |.++.+|..+..++.+.|++++|+..|+
T Consensus        17 ~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~   95 (259)
T d1xnfa_          17 VILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFD   95 (259)
T ss_dssp             HHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhh
Confidence            34555566655421 11  34578888999999999999999999999876 6788999999999999999999999999


Q ss_pred             HHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcC
Q 044047           80 EMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELG  159 (260)
Q Consensus        80 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  159 (260)
                      +..+..+. +..++..+..++...|++++|...|+...+.. +.+......+...+...+..+....+..........+ 
T Consensus        96 ~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  172 (259)
T d1xnfa_          96 SVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQ-  172 (259)
T ss_dssp             HHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCS-
T ss_pred             HHHHHHhh-hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhh-
Confidence            99987543 56788889999999999999999999998875 4455555555555566666655555555544432111 


Q ss_pred             HHHHHHHHHHHHhcCC----HHHHHHHHHhhhhCCCCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCh
Q 044047          160 IEAYSCLIDGLCKIGK----LETAWELFQSLPRVGLMPN-VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNC  230 (260)
Q Consensus       160 ~~~~~~l~~~~~~~~~----~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  230 (260)
                       ..+. ++..+.....    .+.+...+......  .|+ ..+|..+...+...|++++|...|++.+..  .|+.
T Consensus       173 -~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~  242 (259)
T d1xnfa_         173 -WGWN-IVEFYLGNISEQTLMERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHN  242 (259)
T ss_dssp             -THHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTT
T ss_pred             -hhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCC
Confidence             1122 2222222212    22222222211111  122 356777899999999999999999999875  4543

>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=99.48  E-value=2e-12  Score=91.90  Aligned_cols=218  Identities=11%  Similarity=-0.071  Sum_probs=151.5

Q ss_pred             CCHHHHHHHHHHHhhcCC-C--CchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHH
Q 044047           34 GEIDRARELFVSMDINGC-M--HNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHAL  110 (260)
Q Consensus        34 ~~~~~a~~~~~~~~~~~~-~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  110 (260)
                      .+.+.++.-+++...... .  -...+|..+..+|.+.|++++|+..|++..+..+. +..+|..+..++...|++++|+
T Consensus        13 ~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~   91 (259)
T d1xnfa_          13 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAY   91 (259)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhh
Confidence            345566666677665421 1  13457788889999999999999999999987544 6788999999999999999999


Q ss_pred             HHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCC
Q 044047          111 KLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVG  190 (260)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  190 (260)
                      ..|++..+.. |.+..++..+..++...|++++|...++...+.. +.+......+...+.+.+..+.+..+........
T Consensus        92 ~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (259)
T d1xnfa_          92 EAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD  169 (259)
T ss_dssp             HHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC
T ss_pred             hhhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc
Confidence            9999999876 5567789999999999999999999999998765 4455555555556666666666666655555532


Q ss_pred             CCCchhhHHHHHHHHHhcCC----hHHHHHHHHHHHhCCCCC-ChhhHHHHHHHHHhcCchhHHHHHHHHHhhc
Q 044047          191 LMPNVVTYNIMIHGFCNDGQ----MDKAHDLFLDMEAKGVAP-NCVTFNTLMLGCIRNNETSKVVELLHRMDER  259 (260)
Q Consensus       191 ~~~~~~~~~~l~~~~~~~g~----~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  259 (260)
                        ++...+. ++..+.....    .+.+...+.....  ..| ...++..+...+...|++++|.+.|++.+..
T Consensus       170 --~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         170 --KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTS--LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             --CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHH--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             --hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhh--cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence              2222222 2222222211    2222222211111  112 2346677889999999999999999988754

>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=99.47  E-value=9.7e-11  Score=86.61  Aligned_cols=257  Identities=11%  Similarity=0.006  Sum_probs=181.3

Q ss_pred             hhHHHHHHHHHHcCCCcc----HHHHHHHHHHHhccCCHHHHHHHHHHHhhcC----C-CCchhhHHHHHHHHHhcCChH
Q 044047            2 DEASRLLDLMIQRGVRPN----AFVYSTLIDGFCLTGEIDRARELFVSMDING----C-MHNVVTYNTLINGYCKTKDVE   72 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~l~~~~~~~~~~~   72 (260)
                      ++|++++++..+.....+    ...+..+..++...|++++|...++...+..    . +....++..+...+...|++.
T Consensus        29 ~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (366)
T d1hz4a_          29 DEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQ  108 (366)
T ss_dssp             HHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHH
Confidence            678899988877542211    3467778888999999999999998876431    0 112345667777888899999


Q ss_pred             HHHHHHHHHHhc----CCCCC---ccchHHHHHHHhccccHHHHHHHHHHHhhcC----CCcchhhHHHHHHHHHhcCcH
Q 044047           73 ESLNLYSEMLSK----GIRPT---VVTYNTLFHGLFEIHQVEHALKLFDEMQHSD----VAAETSTYNTFIDGLCKNGYI  141 (260)
Q Consensus        73 ~a~~~~~~~~~~----~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~  141 (260)
                      .+...+.+....    +....   ...+..+...+...|+++.+...+.......    .......+......+...+++
T Consensus       109 ~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  188 (366)
T d1hz4a_         109 TAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDL  188 (366)
T ss_dssp             HHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhH
Confidence            999988876542    11111   1244556677888999999999988875532    222344555666777888888


Q ss_pred             HHHHHHHHHhhhcC--CCc----CHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc---hhhHHHHHHHHHhcCChH
Q 044047          142 VEAAELFRTLRVLK--CEL----GIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPN---VVTYNIMIHGFCNDGQMD  212 (260)
Q Consensus       142 ~~a~~~~~~~~~~~--~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~  212 (260)
                      ..+...+.......  ...    ....+......+...|+++.|...+..........+   ...+..+...+...|+++
T Consensus       189 ~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  268 (366)
T d1hz4a_         189 DNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFE  268 (366)
T ss_dssp             HHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHH
Confidence            88888877654321  111    223456677788899999999999998776533222   345667888999999999


Q ss_pred             HHHHHHHHHHh----CCCCCC-hhhHHHHHHHHHhcCchhHHHHHHHHHhh
Q 044047          213 KAHDLFLDMEA----KGVAPN-CVTFNTLMLGCIRNNETSKVVELLHRMDE  258 (260)
Q Consensus       213 ~a~~~~~~~~~----~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  258 (260)
                      +|...+++...    .+..|+ ..++..+..++...|++++|.+.+++..+
T Consensus       269 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         269 PAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999998763    233343 45677888999999999999999988653

>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=99.43  E-value=6.8e-13  Score=98.12  Aligned_cols=245  Identities=8%  Similarity=-0.039  Sum_probs=143.3

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHH----------hccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcC--
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGF----------CLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTK--   69 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--   69 (260)
                      ++|+++++...+.+ |-+...|+..-..+          ...|++++|+.+++...+.+ |.+...|..+..++...+  
T Consensus        46 ~~al~~~~~~l~~~-P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~  123 (334)
T d1dcea1          46 ESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEP  123 (334)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSC
T ss_pred             HHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccc
Confidence            57889999998875 33455554433332          23455789999999988776 667778888877777765  


Q ss_pred             ChHHHHHHHHHHHhcCCCCCccch-HHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHH
Q 044047           70 DVEESLNLYSEMLSKGIRPTVVTY-NTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELF  148 (260)
Q Consensus        70 ~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  148 (260)
                      ++++|+..+.+..+.... +...+ ......+...+.++.|+..++.....+ +.+...|..+..++...|++++|...+
T Consensus       124 ~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~  201 (334)
T d1dcea1         124 NWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (334)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             cHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            588999999999886433 44444 345567778899999999999998886 667888999999998888877664444


Q ss_pred             HHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 044047          149 RTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAP  228 (260)
Q Consensus       149 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  228 (260)
                      +......  |.   .......+...+..+.+...+....... +++...+..+...+...|+.++|...+.+..... +.
T Consensus       202 ~~~~~~~--~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~  274 (334)
T d1dcea1         202 RLPENVL--LK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCKELQELEPEN-KW  274 (334)
T ss_dssp             SSCHHHH--HH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HH
T ss_pred             HHhHHhH--HH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-ch
Confidence            3322210  00   0111122233333344444444333322 1122333333444444444444444444444321 11


Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          229 NCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       229 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      +...+..+..++...|++++|.+.+++.+
T Consensus       275 ~~~~~~~l~~~~~~~~~~~eA~~~~~~ai  303 (334)
T d1dcea1         275 CLLTIILLMRALDPLLYEKETLQYFSTLK  303 (334)
T ss_dssp             HHHHHHHHHHHHCTGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            23334444444444455555555444443

>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=99.30  E-value=1.3e-09  Score=80.30  Aligned_cols=237  Identities=12%  Similarity=-0.005  Sum_probs=169.4

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCc-----hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-CC----
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHN-----VVTYNTLINGYCKTKDVEESLNLYSEMLSKGIR-PT----   89 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----   89 (260)
                      +.........+...|++++|.+++++..+.. +.+     ..++..+..++...|++++|+..+++..+.... ++    
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            3445555677889999999999999987753 222     246777888999999999999999988763211 11    


Q ss_pred             ccchHHHHHHHhccccHHHHHHHHHHHhhc----CCCc---chhhHHHHHHHHHhcCcHHHHHHHHHHhhhcC----CCc
Q 044047           90 VVTYNTLFHGLFEIHQVEHALKLFDEMQHS----DVAA---ETSTYNTFIDGLCKNGYIVEAAELFRTLRVLK----CEL  158 (260)
Q Consensus        90 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~  158 (260)
                      ...+..+...+...|++..+...+......    ..+.   ....+..+...+...|+++.+...+.......    ...
T Consensus        91 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  170 (366)
T d1hz4a_          91 LWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQ  170 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhh
Confidence            234556667788899999999988876431    1111   22355567788899999999999998876432    223


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC----CCCC--chhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC---C
Q 044047          159 GIEAYSCLIDGLCKIGKLETAWELFQSLPRV----GLMP--NVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAP---N  229 (260)
Q Consensus       159 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p---~  229 (260)
                      ....+......+...++...+...+......    +..+  ....+..+...+...|++++|...+.+........   .
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  250 (366)
T d1hz4a_         171 QLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFL  250 (366)
T ss_dssp             GHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGG
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHH
Confidence            4456667778888899999988888765432    1111  12345666778889999999999999877643222   2


Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          230 CVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       230 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                      ...+..+..++...|++++|...+++..
T Consensus       251 ~~~~~~la~~~~~~g~~~~A~~~~~~al  278 (366)
T d1hz4a_         251 QGQWRNIARAQILLGEFEPAEIVLEELN  278 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3445667889999999999999998875

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.25  E-value=2.1e-09  Score=77.37  Aligned_cols=222  Identities=12%  Similarity=0.052  Sum_probs=128.5

Q ss_pred             ChhHHHHHHHHHHcCCC-----------cc------HHHHHHHHHHHhccCCHHHHHHHHHHHhhc----CCC-CchhhH
Q 044047            1 MDEASRLLDLMIQRGVR-----------PN------AFVYSTLIDGFCLTGEIDRARELFVSMDIN----GCM-HNVVTY   58 (260)
Q Consensus         1 ~~~a~~~~~~~~~~~~~-----------~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~   58 (260)
                      +.++.+++....+.+-+           ++      ...|......|...|++++|.+.|.++.+.    +-+ ....+|
T Consensus         1 ~~~~~~~l~~aek~~~~~~~~~~~~~~~~~~~~~~Aa~~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~   80 (290)
T d1qqea_           1 ISDPVELLKRAEKKGVPSSGFMKLFSGSDSYKFEEAADLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTY   80 (290)
T ss_dssp             CCCHHHHHHHHHHHSSCCCTHHHHHSCCSHHHHHHHHHHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHhcCcchhHHHHhcCCccccHHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHH
Confidence            35677777776665421           11      335777777777788888888888776542    111 123567


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCC-----CccchHHHHHHHh-ccccHHHHHHHHHHHhhc----CCCc-chhh
Q 044047           59 NTLINGYCKTKDVEESLNLYSEMLSKGIRP-----TVVTYNTLFHGLF-EIHQVEHALKLFDEMQHS----DVAA-ETST  127 (260)
Q Consensus        59 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~----~~~~-~~~~  127 (260)
                      ..+..+|.+.|++++|++.+++..+.....     ...++..+...|. ..|++++|+..+++..+.    +.++ ...+
T Consensus        81 ~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~  160 (290)
T d1qqea_          81 VEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKC  160 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhH
Confidence            777788888888888888877765421111     1334445555553 357788888877765432    1111 1345


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhhcCCCc-----C-HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC-Cc---hhh
Q 044047          128 YNTFIDGLCKNGYIVEAAELFRTLRVLKCEL-----G-IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM-PN---VVT  197 (260)
Q Consensus       128 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~  197 (260)
                      +..+...+...|++++|...++++.......     . ...+...+..+...|+++.|...++...+.... ++   ...
T Consensus       161 ~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~  240 (290)
T d1qqea_         161 FIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNF  240 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHH
T ss_pred             HHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHH
Confidence            6667777888888888888887765443111     1 122344455666778888888888777665321 11   123


Q ss_pred             HHHHHHHHHh--cCChHHHHHHHHHHH
Q 044047          198 YNIMIHGFCN--DGQMDKAHDLFLDME  222 (260)
Q Consensus       198 ~~~l~~~~~~--~g~~~~a~~~~~~~~  222 (260)
                      ...++.++..  .+.+++|+..|+.+.
T Consensus       241 l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         241 LKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            3445555443  234566666665433

>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=99.18  E-value=5e-10  Score=82.43  Aligned_cols=227  Identities=8%  Similarity=-0.063  Sum_probs=162.6

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHH----------hcCChHHHHHHHHHHHhcCCCCCccc
Q 044047           23 YSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYC----------KTKDVEESLNLYSEMLSKGIRPTVVT   92 (260)
Q Consensus        23 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----------~~~~~~~a~~~~~~~~~~~~~~~~~~   92 (260)
                      ...++......+..++|+++++.+.+.+ |-+...|+..-..+.          ..|++++|+.++++..+..++ +...
T Consensus        32 ~~~~~~~~~~~~~~~~al~~~~~~l~~~-P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk-~~~~  109 (334)
T d1dcea1          32 TQAVFQKRQAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGT  109 (334)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCC-cHHH
Confidence            3444444444445689999999998875 445556654333322          234578999999999887544 6667


Q ss_pred             hHHHHHHHhccc--cHHHHHHHHHHHhhcCCCcchhhHH-HHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHH
Q 044047           93 YNTLFHGLFEIH--QVEHALKLFDEMQHSDVAAETSTYN-TFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDG  169 (260)
Q Consensus        93 ~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  169 (260)
                      |..+..++...+  +++++...++...... +.+...+. .....+...+.++.|+..++.+...+ +-+...|+.+...
T Consensus       110 ~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~  187 (334)
T d1dcea1         110 WHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCL  187 (334)
T ss_dssp             HHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHH
T ss_pred             HHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHH
Confidence            777776766655  4889999999998875 44555544 45577788999999999999998876 6678899999999


Q ss_pred             HHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHH
Q 044047          170 LCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKV  249 (260)
Q Consensus       170 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  249 (260)
                      +...|++++|...++.....  .|+   .......+...+..+++...+....... +++...+..+...+...|++++|
T Consensus       188 ~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a  261 (334)
T d1dcea1         188 LPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELES  261 (334)
T ss_dssp             HHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHH
Confidence            99999999887766655543  121   1223344566777888888888887763 45566666777888888999999


Q ss_pred             HHHHHHHhhc
Q 044047          250 VELLHRMDER  259 (260)
Q Consensus       250 ~~~~~~m~~~  259 (260)
                      ...+.+..+.
T Consensus       262 ~~~~~~~~~~  271 (334)
T d1dcea1         262 CKELQELEPE  271 (334)
T ss_dssp             HHHHHHHCTT
T ss_pred             HHHHHHHHhh
Confidence            9988876553

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.17  E-value=3.4e-09  Score=76.27  Aligned_cols=201  Identities=7%  Similarity=-0.048  Sum_probs=138.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcC----CCC-CccchHHHHHHHhccccHHHHHHHHHHHhhc----C-CCcchh
Q 044047           57 TYNTLINGYCKTKDVEESLNLYSEMLSKG----IRP-TVVTYNTLFHGLFEIHQVEHALKLFDEMQHS----D-VAAETS  126 (260)
Q Consensus        57 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~  126 (260)
                      .|......|...|++++|.+.|.+..+..    -.+ -..+|..+..+|.+.|++++|...+++....    + ......
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  118 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHH
Confidence            35666778899999999999999887631    111 2357888999999999999999999986542    2 111234


Q ss_pred             hHHHHHHHHH-hcCcHHHHHHHHHHhhhc----CCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCc------
Q 044047          127 TYNTFIDGLC-KNGYIVEAAELFRTLRVL----KCEL-GIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPN------  194 (260)
Q Consensus       127 ~~~~l~~~~~-~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------  194 (260)
                      ++..+...|. ..|++++|+..+++....    +.++ ...++..+...+...|++++|...++++........      
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~  198 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhH
Confidence            5666666664 469999999999887532    1111 234678889999999999999999999876532211      


Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CC---hhhHHHHHHHHHh--cCchhHHHHHHHHHh
Q 044047          195 VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVA-PN---CVTFNTLMLGCIR--NNETSKVVELLHRMD  257 (260)
Q Consensus       195 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-p~---~~~~~~l~~~~~~--~~~~~~a~~~~~~m~  257 (260)
                      ...+...+..+...|+++.|...+++..+.... ++   ......++.++..  .+.+++|+..|+++.
T Consensus       199 ~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         199 KDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            122345556677899999999999998775211 12   2344566666654  234677777665543

>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=99.12  E-value=2.4e-07  Score=65.37  Aligned_cols=224  Identities=9%  Similarity=-0.038  Sum_probs=160.1

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCccchH
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCK----TKDVEESLNLYSEMLSKGIRPTVVTYN   94 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   94 (260)
                      |+..+..|...+.+.+++++|.+.|++..+.|   +...+..|...|..    ..+...|...+......+   +.....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            45677778888889999999999999998876   55666667777766    568899999999988765   233334


Q ss_pred             HHHHHHh----ccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHH----hcCcHHHHHHHHHHhhhcCCCcCHHHHHHH
Q 044047           95 TLFHGLF----EIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLC----KNGYIVEAAELFRTLRVLKCELGIEAYSCL  166 (260)
Q Consensus        95 ~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  166 (260)
                      .+...+.    ...+.+.|...++...+.|...   ....+...+.    .......+...+.....   ..+...+..+
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~---a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~L  148 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAE---GCASLGGIYHDGKVVTRDFKKAVEYFTKACD---LNDGDGCTIL  148 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHH---HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH---TTCHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhhh---HHHhhcccccCCCcccchhHHHHHHhhhhhc---ccccchhhhh
Confidence            4444433    2457788999999988776322   2233333333    24456667777766554   3466677777


Q ss_pred             HHHHHh----cCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 044047          167 IDGLCK----IGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCN----DGQMDKAHDLFLDMEAKGVAPNCVTFNTLML  238 (260)
Q Consensus       167 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  238 (260)
                      ...+..    ..+...+...++...+.|   +..+...+...+..    ..++++|...|.+..+.|   ++..+..|..
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~  222 (265)
T d1ouva_         149 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  222 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             hhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHH
Confidence            777775    456778888888887764   56666677766665    668999999999998876   4566677777


Q ss_pred             HHHh----cCchhHHHHHHHHHhhcC
Q 044047          239 GCIR----NNETSKVVELLHRMDERN  260 (260)
Q Consensus       239 ~~~~----~~~~~~a~~~~~~m~~~~  260 (260)
                      .|.+    ..+.++|.++|++..+.|
T Consensus       223 ~y~~G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         223 MQYNGEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHHCc
Confidence            7765    448999999999887654

>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=99.12  E-value=6.7e-09  Score=69.87  Aligned_cols=87  Identities=11%  Similarity=0.032  Sum_probs=53.0

Q ss_pred             HHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccH
Q 044047           27 IDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQV  106 (260)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  106 (260)
                      ...+...|+++.|++.|..+.    +|++.+|..+..++...|++++|++.|++.++.... +...|..+..++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccH
Confidence            445556666666666665431    455556666666666666666666666666665433 455666666666666666


Q ss_pred             HHHHHHHHHHhh
Q 044047          107 EHALKLFDEMQH  118 (260)
Q Consensus       107 ~~a~~~~~~~~~  118 (260)
                      ++|+..|++...
T Consensus        87 ~~A~~~~~kAl~   98 (192)
T d1hh8a_          87 DLAIKDLKEALI   98 (192)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            666666666543

>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=99.11  E-value=1.4e-08  Score=68.22  Aligned_cols=87  Identities=13%  Similarity=-0.023  Sum_probs=57.1

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcH
Q 044047           62 INGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYI  141 (260)
Q Consensus        62 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  141 (260)
                      ...+...|+++.|++.|.++    .+|+..+|..+..++...|++++|+..|++..+.+ |.....|..+..++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccH
Confidence            44456667777777766543    23455666667777777777777777777776665 45566666777777777777


Q ss_pred             HHHHHHHHHhhh
Q 044047          142 VEAAELFRTLRV  153 (260)
Q Consensus       142 ~~a~~~~~~~~~  153 (260)
                      ++|...|++...
T Consensus        87 ~~A~~~~~kAl~   98 (192)
T d1hh8a_          87 DLAIKDLKEALI   98 (192)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            777776666553

>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=99.10  E-value=4.4e-09  Score=64.71  Aligned_cols=93  Identities=17%  Similarity=0.115  Sum_probs=60.4

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcccc
Q 044047           26 LIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQ  105 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  105 (260)
                      -...+.+.|++++|+..|++..+.. |.+...|..+..++...|++++|+..+.+..+.++. +...|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhccc-hhhHHHHHHHHHHHccC
Confidence            3555666677777777777666655 556666666666666777777777777666665433 55666666666666666


Q ss_pred             HHHHHHHHHHHhhcC
Q 044047          106 VEHALKLFDEMQHSD  120 (260)
Q Consensus       106 ~~~a~~~~~~~~~~~  120 (260)
                      +++|+..|++..+..
T Consensus        87 ~~~A~~~~~~a~~~~  101 (117)
T d1elwa_          87 FEEAKRTYEEGLKHE  101 (117)
T ss_dssp             HHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhC
Confidence            666666666666543

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.06  E-value=8.3e-10  Score=75.01  Aligned_cols=100  Identities=14%  Similarity=0.048  Sum_probs=83.6

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF   97 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   97 (260)
                      |++..+......+.+.|++++|+..|++..... |.++..|..+..+|.+.|++++|+..|++..+..+. +..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~-~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCC-cHHHHHHHH
Confidence            677777788888999999999999999888776 678888889999999999999999999998875433 567788888


Q ss_pred             HHHhccccHHHHHHHHHHHhhc
Q 044047           98 HGLFEIHQVEHALKLFDEMQHS  119 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~  119 (260)
                      .+|...|++++|+..|++..+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            8999999999999998887653

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=8.2e-09  Score=67.24  Aligned_cols=105  Identities=10%  Similarity=0.103  Sum_probs=72.3

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhc
Q 044047           23 YSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFE  102 (260)
Q Consensus        23 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  102 (260)
                      +......+.+.|++++|...|++..+.+ |.+...|..+..++...|++++|+..|++..+.... +..+|..+..++..
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~   90 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHH
Confidence            3445566677777777777777777765 566777777777777777777777777777765433 45677777777777


Q ss_pred             cccHHHHHHHHHHHhhcCCCcchhhHHH
Q 044047          103 IHQVEHALKLFDEMQHSDVAAETSTYNT  130 (260)
Q Consensus       103 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~  130 (260)
                      .|++++|...+++..... |.+...+..
T Consensus        91 ~g~~~eA~~~~~~a~~~~-p~~~~~~~~  117 (159)
T d1a17a_          91 LGKFRAALRDYETVVKVK-PHDKDAKMK  117 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcC-CCCHHHHHH
Confidence            777777777777776654 333443333

>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=99.05  E-value=9.4e-09  Score=63.19  Aligned_cols=89  Identities=18%  Similarity=0.113  Sum_probs=44.9

Q ss_pred             HHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHH
Q 044047           99 GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLET  178 (260)
Q Consensus        99 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  178 (260)
                      .+...|++++|+..|++..+.. |.+...|..+..++...|++++|+..+......+ +.++..|..+..++...|++++
T Consensus        12 ~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          12 KALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHH
Confidence            3444455555555555554443 3444445555555555555555555555554443 3444455555555555555555


Q ss_pred             HHHHHHhhhhC
Q 044047          179 AWELFQSLPRV  189 (260)
Q Consensus       179 a~~~~~~~~~~  189 (260)
                      |...++...+.
T Consensus        90 A~~~~~~a~~~  100 (117)
T d1elwa_          90 AKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHHHh
Confidence            55555555543

>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=98.99  E-value=1.9e-08  Score=65.51  Aligned_cols=92  Identities=18%  Similarity=0.158  Sum_probs=55.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcH
Q 044047           62 INGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYI  141 (260)
Q Consensus        62 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  141 (260)
                      ...|.+.|++++|+..|++..+.... +...|..+..++...|++++|...|++..+.. +.+..+|..+..++...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            44555666666666666666665332 45555666666666666666666666665554 44555666666666666666


Q ss_pred             HHHHHHHHHhhhcC
Q 044047          142 VEAAELFRTLRVLK  155 (260)
Q Consensus       142 ~~a~~~~~~~~~~~  155 (260)
                      ++|...++......
T Consensus        95 ~eA~~~~~~a~~~~  108 (159)
T d1a17a_          95 RAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcC
Confidence            66666666665543

>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=98.94  E-value=1.9e-08  Score=68.07  Aligned_cols=100  Identities=13%  Similarity=-0.003  Sum_probs=87.9

Q ss_pred             CCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHH
Q 044047           88 PTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLI  167 (260)
Q Consensus        88 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  167 (260)
                      |+...+......+.+.|++++|+..|++..... |.+...|..+..+|.+.|++++|+..++...... +-+...|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            667777788889999999999999999988876 6788899999999999999999999999998765 55688899999


Q ss_pred             HHHHhcCCHHHHHHHHHhhhhC
Q 044047          168 DGLCKIGKLETAWELFQSLPRV  189 (260)
Q Consensus       168 ~~~~~~~~~~~a~~~~~~~~~~  189 (260)
                      .+|...|++++|...|+.+...
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999988764

>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=98.87  E-value=2.4e-08  Score=60.73  Aligned_cols=89  Identities=8%  Similarity=-0.055  Sum_probs=51.1

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcccc
Q 044047           26 LIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQ  105 (260)
Q Consensus        26 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  105 (260)
                      +...+.+.|++++|...|++..+.+ |-+..+|..+..++.+.|++++|+..+++..+..+. +..++..+...|...|+
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHHHHHCCC
Confidence            4445555666666666666655554 345555666666666666666666666665554322 45555555566666666


Q ss_pred             HHHHHHHHHHH
Q 044047          106 VEHALKLFDEM  116 (260)
Q Consensus       106 ~~~a~~~~~~~  116 (260)
                      +++|++.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666655553

>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=98.86  E-value=3.5e-08  Score=60.86  Aligned_cols=93  Identities=10%  Similarity=0.001  Sum_probs=50.1

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCH---HHHHHHHHhhhhCCCCCc-hhhHHHHHHHH
Q 044047          130 TFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKL---ETAWELFQSLPRVGLMPN-VVTYNIMIHGF  205 (260)
Q Consensus       130 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  205 (260)
                      .+++.+...+++++|.+.|+.....+ +.++.++..+..++.+.++.   ++|..+++.+......|+ ..++..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            34455555556666666666655554 44555555555555544333   345555655554432222 22455555666


Q ss_pred             HhcCChHHHHHHHHHHHh
Q 044047          206 CNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       206 ~~~g~~~~a~~~~~~~~~  223 (260)
                      .+.|++++|.+.|+++++
T Consensus        83 ~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHH
Confidence            666666666666666655

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.82  E-value=3e-08  Score=61.16  Aligned_cols=95  Identities=17%  Similarity=0.212  Sum_probs=59.1

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCC---hHHHHHHHHHHHhcCCCCC-ccchHHHHHHH
Q 044047           25 TLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKD---VEESLNLYSEMLSKGIRPT-VVTYNTLFHGL  100 (260)
Q Consensus        25 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  100 (260)
                      .++..+...+++++|.+.|+.....+ |.+..++..+..++.+.++   +++|+.+++++...+..|+ ..++..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            45566666667777777777766665 5566666666666665443   3456666766665433332 23555666667


Q ss_pred             hccccHHHHHHHHHHHhhcC
Q 044047          101 FEIHQVEHALKLFDEMQHSD  120 (260)
Q Consensus       101 ~~~~~~~~a~~~~~~~~~~~  120 (260)
                      .+.|++++|++.|+++.+..
T Consensus        83 ~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhhHHHHHHHHHHHHhC
Confidence            77777777777777766653

>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=98.81  E-value=4.1e-08  Score=59.70  Aligned_cols=85  Identities=14%  Similarity=0.023  Sum_probs=35.4

Q ss_pred             HHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHH
Q 044047          134 GLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDK  213 (260)
Q Consensus       134 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  213 (260)
                      .+.+.|++++|+..+++..... +-++..|..+..++.+.|++++|...+++..+... .+..++..+..+|...|++++
T Consensus        25 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~la~~y~~~g~~~~  102 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTNEHNANA  102 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhccccccccccc-ccccchHHHHHHHHHCCCHHH
Confidence            3344444444444444444332 22344444444444444444444444444443321 123344444444444444444


Q ss_pred             HHHHHHH
Q 044047          214 AHDLFLD  220 (260)
Q Consensus       214 a~~~~~~  220 (260)
                      |.+.+++
T Consensus       103 A~~~l~~  109 (112)
T d1hxia_         103 ALASLRA  109 (112)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>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=98.71  E-value=2.9e-08  Score=76.80  Aligned_cols=226  Identities=7%  Similarity=-0.098  Sum_probs=86.3

Q ss_pred             hHHHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCch-hhHHHHHHHHHhcCChHHHHHHHHHH
Q 044047            3 EASRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNV-VTYNTLINGYCKTKDVEESLNLYSEM   81 (260)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~   81 (260)
                      +|.+.|++..+.. +..+..+..+..++...+++++|   |+++...+  |+. ..++..-.  .-...+..+.+.+++.
T Consensus         4 eA~q~~~qA~~l~-p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~d--p~~a~~~~~e~~--Lw~~~y~~~ie~~r~~   75 (497)
T d1ya0a1           4 QSAQYLRQAEVLK-ADMTDSKLGPAEVWTSRQALQDL---YQKMLVTD--LEYALDKKVEQD--LWNHAFKNQITTLQGQ   75 (497)
T ss_dssp             HHHHHHHHHHHHH-GGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHC--HHHHHHHTHHHH--HHHHHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcC-CCCHHHHhhHHHHHHHHchHHHH---HHHHHHcC--hhhHHHHhHHHH--HHHHHHHHHHHHHHHh
Confidence            5677777776642 11234455566666666666654   45544332  211 11111000  0011123344444444


Q ss_pred             HhcCCCCCccchHHHHH--HHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcC
Q 044047           82 LSKGIRPTVVTYNTLFH--GLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELG  159 (260)
Q Consensus        82 ~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  159 (260)
                      .+....++..-....+.  .....+.++.++..++...+.. +++...+..+...+.+.|+.+.|...+.......   .
T Consensus        76 ~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~  151 (497)
T d1ya0a1          76 AKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---C  151 (497)
T ss_dssp             HSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHH---H
T ss_pred             cccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---H
Confidence            43322222221111111  1112233333333333322222 2334444555555555555555555544433211   1


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 044047          160 IEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLG  239 (260)
Q Consensus       160 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  239 (260)
                      ...+..+...+...|++++|...|.+..+... -+...|+.+...+...|+..+|...|.+.+... +|-..++..|...
T Consensus       152 ~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P-~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~  229 (497)
T d1ya0a1         152 QHCLVHLGDIARYRNQTSQAESYYRHAAQLVP-SNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKA  229 (497)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHH
Confidence            23444555556666666666666666555431 134556666666666666666666666555542 3444445555444


Q ss_pred             HHh
Q 044047          240 CIR  242 (260)
Q Consensus       240 ~~~  242 (260)
                      +.+
T Consensus       230 ~~~  232 (497)
T d1ya0a1         230 LSK  232 (497)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=98.69  E-value=5.3e-07  Score=59.06  Aligned_cols=126  Identities=9%  Similarity=-0.049  Sum_probs=64.2

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHG   99 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   99 (260)
                      ...+......+.+.|++++|+..|.+..... +.....             ...-......+       ...+|+.+..+
T Consensus        13 a~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~-~~~~~~-------------~~~~~~~~~~~-------~~~~~~nla~~   71 (170)
T d1p5qa1          13 STIVKERGTVYFKEGKYKQALLQYKKIVSWL-EYESSF-------------SNEEAQKAQAL-------RLASHLNLAMC   71 (170)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCCCC-------------CSHHHHHHHHH-------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh-hhcccc-------------chHHHhhhchh-------HHHHHHHHHHH
Confidence            3445566777888888888888888776542 100000             00000000000       01234445555


Q ss_pred             HhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHH
Q 044047          100 LFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLID  168 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  168 (260)
                      |.+.|++++|+..++..+..+ |.++..+..+..+|...|++++|...|+...... |-++.....+..
T Consensus        72 y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~-P~n~~~~~~l~~  138 (170)
T d1p5qa1          72 HLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAV  138 (170)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHH
T ss_pred             HHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            555666666666666555554 4455555555666666666666666666555543 234444443333

>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=98.68  E-value=6.3e-07  Score=58.69  Aligned_cols=131  Identities=11%  Similarity=-0.035  Sum_probs=91.6

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHH
Q 044047           56 VTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGL  135 (260)
Q Consensus        56 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  135 (260)
                      ..+......+.+.|++++|+..|.+..+.-..  ...+.            +.-......+       ...+|+.+..+|
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~--~~~~~------------~~~~~~~~~~-------~~~~~~nla~~y   72 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEY--ESSFS------------NEEAQKAQAL-------RLASHLNLAMCH   72 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT--CCCCC------------SHHHHHHHHH-------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhh--ccccc------------hHHHhhhchh-------HHHHHHHHHHHH
Confidence            34555667788899999999999988764211  11100            0000111111       123577789999


Q ss_pred             HhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcC
Q 044047          136 CKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDG  209 (260)
Q Consensus       136 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  209 (260)
                      .+.|++++|+..++..+... |.++..+..+..+|...|++++|...|+...+..+. |......+..+....+
T Consensus        73 ~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~~~~  144 (170)
T d1p5qa1          73 LKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQRIR  144 (170)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHHH
T ss_pred             Hhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHH
Confidence            99999999999999999876 668999999999999999999999999999886422 4555555554444333

>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=98.62  E-value=6.1e-07  Score=55.75  Aligned_cols=94  Identities=12%  Similarity=0.112  Sum_probs=57.3

Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCC-Cc-----hhhHHHHH
Q 044047          129 NTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLM-PN-----VVTYNIMI  202 (260)
Q Consensus       129 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-----~~~~~~l~  202 (260)
                      ..+...+...|++++|+..|.+.+..+ +.+...+..+..+|.+.|++++|...++.+.+.... +.     ..+|..+.
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            345556666666666666666666654 445666666666677777777777666665543110 00     13455556


Q ss_pred             HHHHhcCChHHHHHHHHHHHh
Q 044047          203 HGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       203 ~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      ..+...+++++|...|++...
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHh
Confidence            666667777777777776655

>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=98.57  E-value=7e-07  Score=55.48  Aligned_cols=96  Identities=11%  Similarity=0.131  Sum_probs=67.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCc-------cchH
Q 044047           22 VYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTV-------VTYN   94 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~   94 (260)
                      .+..+...+.+.|++++|+..|++..+.+ |.+..++..+..+|.+.|++++|+..++++++.... +.       .+|.
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~-~~~~~~~~a~~~~   83 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRE-NREDYRQIAKAYA   83 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH-STTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcc-cHHHHHHHHHHHH
Confidence            45567777888888888888888887776 567778888888888888888888888887664221 22       2344


Q ss_pred             HHHHHHhccccHHHHHHHHHHHhhc
Q 044047           95 TLFHGLFEIHQVEHALKLFDEMQHS  119 (260)
Q Consensus        95 ~l~~~~~~~~~~~~a~~~~~~~~~~  119 (260)
                      .+...+...+++++|+..|++....
T Consensus        84 ~lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            4555556666777777777766543

>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=98.55  E-value=1.4e-06  Score=56.99  Aligned_cols=126  Identities=8%  Similarity=-0.041  Sum_probs=64.2

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhc
Q 044047           23 YSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFE  102 (260)
Q Consensus        23 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  102 (260)
                      +......+...|++++|+..|.++.+..  +          ............       .. -+.....+..+..++.+
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~--~----------~~~~~~~~~~~~-------~~-~~~~~~~~~nla~~~~~   89 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYV--E----------GSRAAAEDADGA-------KL-QPVALSCVLNIGACKLK   89 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHH--H----------HHHHHSCHHHHG-------GG-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhh--h----------hhhhhhhhHHHH-------Hh-ChhhHHHHHHHHHHHHh
Confidence            4455666777888888888887764320  0          000000000000       00 00123344455555666


Q ss_pred             cccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHH
Q 044047          103 IHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGL  170 (260)
Q Consensus       103 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  170 (260)
                      .|++++|+..+++..+.. |.+...|..+..++...|++++|+..|+...+.. +.+......+..+.
T Consensus        90 ~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~~  155 (169)
T d1ihga1          90 MSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVK  155 (169)
T ss_dssp             TTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            666666666666665554 4455556666666666666666666666665543 33444444444433

>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=98.53  E-value=2.3e-06  Score=54.86  Aligned_cols=119  Identities=11%  Similarity=0.001  Sum_probs=65.3

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHhhcCC----CCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHH
Q 044047           21 FVYSTLIDGFCLTGEIDRARELFVSMDINGC----MHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTL   96 (260)
Q Consensus        21 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   96 (260)
                      ..+..-...+.+.|++++|+..|.++...-.    .++....                 .....       ....+|..+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~-----------------~~~~~-------~~~~~~~Nl   73 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILL-----------------DKKKN-------IEISCNLNL   73 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHH-----------------HHHHH-------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHH-----------------Hhhhh-------HHHHHHhhH
Confidence            3455566777788888888888888764310    0010000                 00000       012244555


Q ss_pred             HHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHH
Q 044047           97 FHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSC  165 (260)
Q Consensus        97 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  165 (260)
                      ..+|.+.|++++|+..++...+.+ |.+..+|..+..++...|++++|...|+...... |-+..+...
T Consensus        74 a~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~-P~n~~~~~~  140 (153)
T d2fbna1          74 ATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNS  140 (153)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHH
T ss_pred             HHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            666666666666666666665554 4455666666666666666666666666666543 333444333

>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=98.53  E-value=5.1e-06  Score=53.18  Aligned_cols=125  Identities=18%  Similarity=0.059  Sum_probs=88.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHH
Q 044047           57 TYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLC  136 (260)
Q Consensus        57 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  136 (260)
                      .+..-...+.+.|++++|+..|.+....-.  ......           .........       .....++..+..+|.
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~--~~~~~~-----------~~~~~~~~~-------~~~~~~~~Nla~~~~   78 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFI--HTEEWD-----------DQILLDKKK-------NIEISCNLNLATCYN   78 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTT--TCTTCC-----------CHHHHHHHH-------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCc--chhhhh-----------hHHHHHhhh-------hHHHHHHhhHHHHHH
Confidence            344555677889999999999998876411  111000           000000000       112346788999999


Q ss_pred             hcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHH
Q 044047          137 KNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIH  203 (260)
Q Consensus       137 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  203 (260)
                      +.|++++|+..+....... |.+..+|..+..++...|++++|...|+...+..+. |..+...+-.
T Consensus        79 ~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~-n~~~~~~l~~  143 (153)
T d2fbna1          79 KNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYEL  143 (153)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHH
T ss_pred             Hhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            9999999999999998876 778899999999999999999999999999986422 3444444433

>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=98.51  E-value=5e-05  Score=53.14  Aligned_cols=208  Identities=10%  Similarity=-0.019  Sum_probs=145.8

Q ss_pred             hhHHHHHHHHHHcCCCccHHHHHHHHHHHhc----cCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHh----cCChHH
Q 044047            2 DEASRLLDLMIQRGVRPNAFVYSTLIDGFCL----TGEIDRARELFVSMDINGCMHNVVTYNTLINGYCK----TKDVEE   73 (260)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~   73 (260)
                      ++|++.|++..+.|   +...+..|...|..    ..+...|...+......+   ++.....+...+..    .++.+.
T Consensus        19 ~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~~~~~~~~~~~~~~~~   92 (265)
T d1ouva_          19 TQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNK   92 (265)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhccccccccccccchhhHH
Confidence            57999999998877   55566667777775    678999999999888766   33444444444433    457888


Q ss_pred             HHHHHHHHHhcCCCCCccchHHHHHHHh----ccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHh----cCcHHHHH
Q 044047           74 SLNLYSEMLSKGIRPTVVTYNTLFHGLF----EIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCK----NGYIVEAA  145 (260)
Q Consensus        74 a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  145 (260)
                      |...++...+.|..   .....+...+.    .......+...+......+   +...+..+...+..    ..+...+.
T Consensus        93 a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~L~~~~~~~~~~~~~~~~~~  166 (265)
T d1ouva_          93 ALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKAL  166 (265)
T ss_dssp             HHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhccc---ccchhhhhhhhhccCCCcccccccch
Confidence            99999998877543   22223333332    2345667777777665543   45566777777765    55677788


Q ss_pred             HHHHHhhhcCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHh----cCChHHHHHH
Q 044047          146 ELFRTLRVLKCELGIEAYSCLIDGLCK----IGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCN----DGQMDKAHDL  217 (260)
Q Consensus       146 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~  217 (260)
                      .+++...+.+   ++.....+...|..    ..+.++|...|....+.|   ++..+..|...|..    ..+.++|.+.
T Consensus       167 ~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~  240 (265)
T d1ouva_         167 ASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIEN  240 (265)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHH
T ss_pred             hhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHH
Confidence            8888777644   56666667666665    568999999999999876   56677778877765    4478899999


Q ss_pred             HHHHHhCCCC
Q 044047          218 FLDMEAKGVA  227 (260)
Q Consensus       218 ~~~~~~~~~~  227 (260)
                      |++..+.|..
T Consensus       241 ~~kAa~~g~~  250 (265)
T d1ouva_         241 FKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHHTCH
T ss_pred             HHHHHHCcCH
Confidence            9999887743

>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=98.47  E-value=5.7e-06  Score=53.88  Aligned_cols=82  Identities=11%  Similarity=-0.029  Sum_probs=56.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 044047          161 EAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGC  240 (260)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  240 (260)
                      .+|+.+..+|.+.|++++|+..++...... +.+..+|..+..++...|++++|...|.++.+.. |.+......+-.+.
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~  142 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIFMCQ  142 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            356667778888888888888888887764 2367778888888888888888888888888752 23444444444444


Q ss_pred             HhcC
Q 044047          241 IRNN  244 (260)
Q Consensus       241 ~~~~  244 (260)
                      ...+
T Consensus       143 ~~~~  146 (168)
T d1kt1a1         143 KKAK  146 (168)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            3333

>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=98.46  E-value=2.1e-06  Score=56.08  Aligned_cols=129  Identities=9%  Similarity=-0.003  Sum_probs=90.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhc
Q 044047           59 NTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKN  138 (260)
Q Consensus        59 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  138 (260)
                      ......+...|++++|+..|.+..+.            ...........       ..... -+.....+..+..++.+.
T Consensus        31 ~~~~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~~~~-------~~~~~-~~~~~~~~~nla~~~~~~   90 (169)
T d1ihga1          31 KNIGNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAAEDA-------DGAKL-QPVALSCVLNIGACKLKM   90 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHSCHH-------HHGGG-HHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhhhhH-------HHHHh-ChhhHHHHHHHHHHHHhh
Confidence            34555677889999999888876542            00000000000       00111 133456778889999999


Q ss_pred             CcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcC
Q 044047          139 GYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDG  209 (260)
Q Consensus       139 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  209 (260)
                      |++++|+..+..+.+.. +.++..|..+..++...|++++|...|+.+.+... .+......+..+.....
T Consensus        91 ~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p-~n~~~~~~l~~~~~~l~  159 (169)
T d1ihga1          91 SDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLKVKQKIK  159 (169)
T ss_dssp             TCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHH
T ss_pred             cccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHH
Confidence            99999999999999876 67889999999999999999999999999998642 25556666655544433

>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=98.43  E-value=3.1e-06  Score=55.15  Aligned_cols=121  Identities=9%  Similarity=-0.041  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHhhc---CCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHH
Q 044047           20 AFVYSTLIDGFCLTGEIDRARELFVSMDIN---GCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTL   96 (260)
Q Consensus        20 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   96 (260)
                      +..+.-....+.+.|++++|...|+.....   ....+...                 ......+       ....|..+
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~-----------------~~~~~~~-------~~~~~~Nl   70 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKE-----------------SKASESF-------LLAAFLNL   70 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHH-----------------HHHHHHH-------HHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhh-----------------hhhcchh-------HHHHHHhH
Confidence            455667788889999999999999887542   10111000                 0000000       01233344


Q ss_pred             HHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHH
Q 044047           97 FHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCL  166 (260)
Q Consensus        97 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  166 (260)
                      ..+|.+.|++++|+..++...+.. |.+...|..+..++...|++++|...|+.+.... |.+......+
T Consensus        71 a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l  138 (168)
T d1kt1a1          71 AMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQI  138 (168)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHH
T ss_pred             HHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            445555555555555555555443 4444555555555555555555555555555443 3333333333

>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=98.39  E-value=6.5e-07  Score=62.87  Aligned_cols=123  Identities=11%  Similarity=0.000  Sum_probs=68.0

Q ss_pred             HhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHH
Q 044047           30 FCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHA  109 (260)
Q Consensus        30 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  109 (260)
                      ..+.|++++|+..+++..+.. |.+...+..+...++..|++++|...++...+.... +...+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~-~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE-YLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHhccccHHH
Confidence            345677777877777777765 667777777777777778888887777777765322 233333333333333333222


Q ss_pred             HHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhc
Q 044047          110 LKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVL  154 (260)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  154 (260)
                      ..-.......+-+++..........+...|+.++|.+.++.+.+.
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            221111111111222333334445566667777777776665543

>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=98.35  E-value=1.3e-06  Score=67.50  Aligned_cols=114  Identities=14%  Similarity=-0.080  Sum_probs=58.2

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHH
Q 044047           54 NVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFID  133 (260)
Q Consensus        54 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  133 (260)
                      +...+..+...+.+.|+.+.|...+.+.....   ...++..+...+...+++++|...|++..+.. |.+...|+.+..
T Consensus       119 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~  194 (497)
T d1ya0a1         119 CRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAI  194 (497)
T ss_dssp             ------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHH
T ss_pred             hHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHH
Confidence            44455555566666666666666555544321   12345566667777777777777777776664 556667777777


Q ss_pred             HHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHh
Q 044047          134 GLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCK  172 (260)
Q Consensus       134 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  172 (260)
                      .+...|+..+|...|.+..... +|-+.++.++...+.+
T Consensus       195 ~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         195 LASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHH
Confidence            7777777777777777776655 5566666666666544

>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=98.35  E-value=1.4e-06  Score=61.20  Aligned_cols=120  Identities=17%  Similarity=0.100  Sum_probs=54.5

Q ss_pred             ccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 044047          102 EIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWE  181 (260)
Q Consensus       102 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  181 (260)
                      +.|++++|+..+++..+.. |.+...+..+...++..|++++|...++...+.. +-+...+..+...+...+..+++..
T Consensus         8 ~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~-P~~~~~~~~l~~ll~a~~~~~~a~~   85 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQLRHLVKAAQARKDFAQ   85 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhccccHHHHH
Confidence            4455666666666555554 4455555566666666666666666665555443 2233333333333322222222211


Q ss_pred             HHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          182 LFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      -.......+-+++...+......+...|+.++|.+.+.++.+
T Consensus        86 ~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1          86 GAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             SCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            111111111111222333334445556666666666666554

>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=98.35  E-value=2.7e-06  Score=53.94  Aligned_cols=126  Identities=15%  Similarity=0.135  Sum_probs=66.8

Q ss_pred             HhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCc----------HHHHHHHHHHhhhcCCCcCHHHHHHHHHH
Q 044047          100 LFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGY----------IVEAAELFRTLRVLKCELGIEAYSCLIDG  169 (260)
Q Consensus       100 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  169 (260)
                      |-+.+.+++|...|+...+.. |.+...+..+..++...++          +++|+..+++..+.. |.+..+|..+..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHH
Confidence            445666777777777777765 5666677777766654333          344555555555443 3444455555544


Q ss_pred             HHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHH
Q 044047          170 LCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKV  249 (260)
Q Consensus       170 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  249 (260)
                      |...|++.               ++...         ..+.+++|.+.|++..+  +.|+...+..-+..+      .+|
T Consensus        85 y~~~g~~~---------------~~~~~---------~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~------~ka  132 (145)
T d1zu2a1          85 YTSFAFLT---------------PDETE---------AKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKA  132 (145)
T ss_dssp             HHHHHHHC---------------CCHHH---------HHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTH
T ss_pred             HHHcccch---------------hhHHH---------HHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH------HHH
Confidence            44332210               00000         01235667777777776  356655555444433      344


Q ss_pred             HHHHHHHhhc
Q 044047          250 VELLHRMDER  259 (260)
Q Consensus       250 ~~~~~~m~~~  259 (260)
                      .+++.+..++
T Consensus       133 ~~~~~e~~k~  142 (145)
T d1zu2a1         133 PQLHAEAYKQ  142 (145)
T ss_dssp             HHHHHHHHHS
T ss_pred             HHHHHHHHHH
Confidence            5555555444

>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=98.31  E-value=6.1e-06  Score=52.26  Aligned_cols=74  Identities=9%  Similarity=0.041  Sum_probs=58.3

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhcc----------ccHHHHHHHHHHHhhcCCCcchhhHHHHHHH
Q 044047           65 YCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEI----------HQVEHALKLFDEMQHSDVAAETSTYNTFIDG  134 (260)
Q Consensus        65 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  134 (260)
                      |-+.+.+++|+..|++..+..+. +..++..+..++...          +.+++|+..|++..+.+ |.+..+|..+..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~P~-~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhCCc-chHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHH
Confidence            45667899999999999987544 677888888777643          45688999999998876 6778889888888


Q ss_pred             HHhcCc
Q 044047          135 LCKNGY  140 (260)
Q Consensus       135 ~~~~~~  140 (260)
                      |...|+
T Consensus        85 y~~~g~   90 (145)
T d1zu2a1          85 YTSFAF   90 (145)
T ss_dssp             HHHHHH
T ss_pred             HHHccc
Confidence            876553

>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=98.26  E-value=2.4e-05  Score=51.33  Aligned_cols=70  Identities=10%  Similarity=0.096  Sum_probs=39.0

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhh-----hCCCCCchhh
Q 044047          127 TYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLP-----RVGLMPNVVT  197 (260)
Q Consensus       127 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~  197 (260)
                      .+..+...+...|++++|+..++.+.... +.+...|..++.++...|+.++|.+.|+++.     +.|+.|...+
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            34455555556666666666666555544 4455556666666666666666666655542     2355555443

>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=98.25  E-value=2.4e-05  Score=51.30  Aligned_cols=71  Identities=10%  Similarity=0.099  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhhhhCCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHh-----CCCCCChhh
Q 044047          161 EAYSCLIDGLCKIGKLETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEA-----KGVAPNCVT  232 (260)
Q Consensus       161 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~p~~~~  232 (260)
                      ..+..+...+...|++++|...++.+..... -+...|..++.++...|+..+|++.|+++.+     .|+.|+..+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~P-~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            3455666777777777777777777766542 3566777777777777777777777776632     467776654

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.21  E-value=0.00036  Score=50.26  Aligned_cols=155  Identities=6%  Similarity=-0.009  Sum_probs=69.5

Q ss_pred             CccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHH
Q 044047           89 TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLID  168 (260)
Q Consensus        89 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  168 (260)
                      ++.....++..|...|.+++...+++...... +.+...++.++..|++.+ .++..+.++....   ..+.   ..++.
T Consensus        98 ~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~---~y~~---~k~~~  169 (336)
T d1b89a_          98 HADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQKMREHLELFWS---RVNI---PKVLR  169 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHHHHHHHHHHST---TSCH---HHHHH
T ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHHHHHHHHhccc---cCCH---HHHHH
Confidence            33334455556666666666666666554332 344555566666666543 2333333322211   1111   11222


Q ss_pred             HHHhcCCHHHHHHHHHhhhhC--------CCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 044047          169 GLCKIGKLETAWELFQSLPRV--------GLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGC  240 (260)
Q Consensus       169 ~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  240 (260)
                      .|.+.+-+.++.-++..+...        ...++.......+..+.+.++++...++.....+.    ++...+.++...
T Consensus       170 ~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~----~p~~i~~lL~~v  245 (336)
T d1b89a_         170 AAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF----KPLLLNDLLMVL  245 (336)
T ss_dssp             HHHTTTCHHHHHHHHHHTTCHHHHHHHHHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH----CGGGHHHHHHHH
T ss_pred             HHHHcCChHHHHHHHHhcCCHHHHHHHHHHcchhhhhHHHHHHHHHccCChHHHHHHHHHHHHc----CHHHHHHHHHHh
Confidence            333333333333222221110        01123333344455556666666555555555442    234445566666


Q ss_pred             HhcCchhHHHHHHHH
Q 044047          241 IRNNETSKVVELLHR  255 (260)
Q Consensus       241 ~~~~~~~~a~~~~~~  255 (260)
                      ...-+..++.+.+++
T Consensus       246 ~~~~d~~r~V~~~~k  260 (336)
T d1b89a_         246 SPRLDHTRAVNYFSK  260 (336)
T ss_dssp             GGGCCHHHHHHHHHH
T ss_pred             ccCCCHHHHHHHHHh
Confidence            656666666555543

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.09  E-value=0.00068  Score=48.81  Aligned_cols=135  Identities=13%  Similarity=0.146  Sum_probs=58.9

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH
Q 044047           18 PNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF   97 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   97 (260)
                      ||..--..++..|.+.|.++.|..+|..+.         -|..++.++.+.++++.|.+++.+..      +..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHH
Confidence            344444445555556666666666665332         14455555556666666655554331      344555555


Q ss_pred             HHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhc
Q 044047           98 HGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKI  173 (260)
Q Consensus        98 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  173 (260)
                      ..+.+......+     ++.......++.....++..|-..|.+++...+++...... +.+...++.++..|++.
T Consensus        77 ~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          77 FACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT
T ss_pred             HHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHh
Confidence            555554443222     11122222333444455566666666666666666554322 44455555555555554

>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=97.88  E-value=0.00021  Score=45.48  Aligned_cols=97  Identities=13%  Similarity=0.033  Sum_probs=55.9

Q ss_pred             hHHHH--HHHHHhcCcHHHHHHHHHHhhhcCCC-cC----------HHHHHHHHHHHHhcCCHHHHHHHHHhhhhC----
Q 044047          127 TYNTF--IDGLCKNGYIVEAAELFRTLRVLKCE-LG----------IEAYSCLIDGLCKIGKLETAWELFQSLPRV----  189 (260)
Q Consensus       127 ~~~~l--~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----  189 (260)
                      +|..+  ...+...|++++|+..|++....... |+          ...|+.+..+|...|++++|...++.....    
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~   88 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   88 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccc
Confidence            44444  44455667777777777776643211 11          245666677777777777777777665532    


Q ss_pred             -CCCCc-----hhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          190 -GLMPN-----VVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       190 -~~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                       ...++     ..++..+..+|...|++++|...|++..+
T Consensus        89 ~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          89 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence             11111     12345566666677777777777666654

>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=97.87  E-value=6.2e-05  Score=48.11  Aligned_cols=96  Identities=14%  Similarity=0.085  Sum_probs=53.1

Q ss_pred             HHHHHH--HHHHhccCCHHHHHHHHHHHhhcC--CCC---------chhhHHHHHHHHHhcCChHHHHHHHHHHHhc---
Q 044047           21 FVYSTL--IDGFCLTGEIDRARELFVSMDING--CMH---------NVVTYNTLINGYCKTKDVEESLNLYSEMLSK---   84 (260)
Q Consensus        21 ~~~~~l--~~~~~~~~~~~~a~~~~~~~~~~~--~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---   84 (260)
                      .+|..+  ...+.+.|++++|+..|++..+..  .+.         ...+|+.+..+|...|++++|+..+++..+.   
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            455555  445556688888888887776431  110         1245666777777777777777666665532   


Q ss_pred             --CCCCC-----ccchHHHHHHHhccccHHHHHHHHHHH
Q 044047           85 --GIRPT-----VVTYNTLFHGLFEIHQVEHALKLFDEM  116 (260)
Q Consensus        85 --~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~  116 (260)
                        ...++     ...+..+..+|...|++++|+..|++.
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~A  126 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKV  126 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHH
Confidence              01111     112344455555555555555555554

>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=97.84  E-value=6.3e-05  Score=43.55  Aligned_cols=67  Identities=12%  Similarity=-0.009  Sum_probs=44.9

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHHhhcC------CCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 044047           19 NAFVYSTLIDGFCLTGEIDRARELFVSMDING------CMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKG   85 (260)
Q Consensus        19 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   85 (260)
                      ++..+-.+...+.+.|++++|...|++..+..      ......++..+..++.+.|++++|+..++++.+..
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            34445567777788888888888887765431      01124567777777777778888877777777753

>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=97.65  E-value=0.00018  Score=41.52  Aligned_cols=63  Identities=14%  Similarity=0.034  Sum_probs=33.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCC-----CC-CccchHHHHHHHhccccHHHHHHHHHHHhhcC
Q 044047           58 YNTLINGYCKTKDVEESLNLYSEMLSKGI-----RP-TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSD  120 (260)
Q Consensus        58 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  120 (260)
                      +-.+...+.+.|+++.|+..|++..+...     .+ ...++..+..++.+.|++++|+..+++..+..
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            33455556666666666666666544210     01 12345555555556666666666666655543

>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=97.56  E-value=0.0025  Score=39.06  Aligned_cols=111  Identities=9%  Similarity=-0.044  Sum_probs=68.9

Q ss_pred             ccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHh----cCCHHHH
Q 044047          104 HQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCK----IGKLETA  179 (260)
Q Consensus       104 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a  179 (260)
                      .++++|+.+|++..+.|.+   .....+.  .....+.++|.+++++..+.+   ++.....+...|..    ..+.++|
T Consensus         7 kd~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHH
Confidence            4677888888888777632   2233332  234456777777777776654   44455555555543    3467777


Q ss_pred             HHHHHhhhhCCCCCchhhHHHHHHHHHh----cCChHHHHHHHHHHHhCC
Q 044047          180 WELFQSLPRVGLMPNVVTYNIMIHGFCN----DGQMDKAHDLFLDMEAKG  225 (260)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  225 (260)
                      .++|+...+.|   ++.....|...|..    ..+.++|.++|++..+.|
T Consensus        79 ~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          79 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            77777777765   34455555555554    346777777777777665

>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=97.30  E-value=0.0058  Score=37.33  Aligned_cols=110  Identities=11%  Similarity=0.071  Sum_probs=66.8

Q ss_pred             ChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHh----cCcHHHHH
Q 044047           70 DVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCK----NGYIVEAA  145 (260)
Q Consensus        70 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  145 (260)
                      |+++|+++|++..+.|.   ......+.  .....+.++|++++++..+.|   ++.....+...|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~---~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE---MFGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC---TTHHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCC---hhhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            66778888877776652   22233332  234456777777777776665   23344455555543    44677788


Q ss_pred             HHHHHhhhcCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHhhhhCC
Q 044047          146 ELFRTLRVLKCELGIEAYSCLIDGLCK----IGKLETAWELFQSLPRVG  190 (260)
Q Consensus       146 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  190 (260)
                      ++|+...+.+   ++.....+...|..    ..+.++|.++++...+.|
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            8887777655   34445555555554    346777777777777665

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.99  E-value=0.012  Score=35.11  Aligned_cols=65  Identities=11%  Similarity=0.069  Sum_probs=43.9

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHhhcC
Q 044047          195 VVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMDERN  260 (260)
Q Consensus       195 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  260 (260)
                      ...++..+..+..+|+-++-.++++.+.+. -.|++...-.+..+|.+.|+..++.+++++.-++|
T Consensus        86 se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          86 NEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            344555566667777777777777776664 35666777777777777777777777777766654

>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=95.39  E-value=0.12  Score=30.71  Aligned_cols=66  Identities=6%  Similarity=-0.015  Sum_probs=34.3

Q ss_pred             ccHHHHHHHHHHHhcc---CCHHHHHHHHHHHhhcCCCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 044047           18 PNAFVYSTLIDGFCLT---GEIDRARELFVSMDINGCMHN-VVTYNTLINGYCKTKDVEESLNLYSEMLSK   84 (260)
Q Consensus        18 ~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   84 (260)
                      +++.+--...-++++.   .+.++++.+++.+.+.+ +.+ ...+-.+.-+|.+.|++++|.+.++.+.+.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            3333333344444433   33455666666665543 222 234455555666666666666666666654

>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=94.91  E-value=0.17  Score=29.97  Aligned_cols=65  Identities=11%  Similarity=0.015  Sum_probs=31.1

Q ss_pred             cCHHHHHHHHHHHHhcC---CHHHHHHHHHhhhhCCCCCc-hhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 044047          158 LGIEAYSCLIDGLCKIG---KLETAWELFQSLPRVGLMPN-VVTYNIMIHGFCNDGQMDKAHDLFLDMEA  223 (260)
Q Consensus       158 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  223 (260)
                      +++.+--....+++++.   +.+++..+++.+.+.+. .+ ...+-.|.-+|.+.|++++|...++.+++
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p-~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAE-SRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCc-hhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            33334333444444332   23455555555554321 12 23444455555566666666666666655

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=93.88  E-value=0.32  Score=28.88  Aligned_cols=138  Identities=15%  Similarity=0.137  Sum_probs=73.9

Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHH
Q 044047           32 LTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALK  111 (260)
Q Consensus        32 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  111 (260)
                      -.|.+++..+++.+....   .+..-||-++--....-+-+...++++..-+.   .|.          ..+++......
T Consensus        14 ldG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDl----------s~C~Nlk~vv~   77 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVVE   77 (161)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHHH
T ss_pred             HhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cCc----------hhhhcHHHHHH
Confidence            345566666666655543   23444444554444444444444444443221   111          12333444443


Q ss_pred             HHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhCCC
Q 044047          112 LFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRVGL  191 (260)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  191 (260)
                      .+-.+-     .+...+...++.+...|.-+...++++.+.+.+ .+++...-.+..+|.+.|...++-+++.++-+.|+
T Consensus        78 C~~~~n-----~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          78 CGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            333321     223345566666667777777777777655544 66666666777777777777777777777766664

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=93.17  E-value=0.35  Score=27.10  Aligned_cols=49  Identities=8%  Similarity=0.017  Sum_probs=26.7

Q ss_pred             cHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhh
Q 044047          140 YIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPR  188 (260)
Q Consensus       140 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  188 (260)
                      +.-++.+-++.+.....-|++....+.+++|.+.+++..|.++++..+.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~   69 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   69 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3344455555555555555555555555555555555555555555543

>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=92.63  E-value=1.4  Score=32.58  Aligned_cols=245  Identities=12%  Similarity=-0.004  Sum_probs=144.3

Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhc-------------C----------CCCchhhHHHH
Q 044047            5 SRLLDLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDIN-------------G----------CMHNVVTYNTL   61 (260)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------------~----------~~~~~~~~~~l   61 (260)
                      ..++..+...|. ++...+-.-+......|++..|..+...+...             +          .+.+......+
T Consensus       140 ~~l~~~~~~~~~-lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~p~~~~~~~~~~~~~~~~~~~~  218 (450)
T d1qsaa1         140 DKLFSVWRASGK-QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNTVLTFARTTGATDFTRQMA  218 (450)
T ss_dssp             HHHHHHHHHTTC-SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGHHHHHHHSCCCHHHHHHH
T ss_pred             HHHHHHHHhcCC-CCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhChHhHHHHHhcCCCChhhhHHH
Confidence            345555555543 34444444555566667776666655433111             0          11122222222


Q ss_pred             HHHHHh--cCChHHHHHHHHHHHhcCCCCCccchHH----HHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHH
Q 044047           62 INGYCK--TKDVEESLNLYSEMLSKGIRPTVVTYNT----LFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGL  135 (260)
Q Consensus        62 ~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  135 (260)
                      ..++.+  ..+.+.+..++......... +...+..    +.......+..+.+...+......+  .+.....-.+...
T Consensus       219 ~~~l~rla~~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~a  295 (450)
T d1qsaa1         219 AVAFASVARQDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMA  295 (450)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHH
T ss_pred             HHHHHHHhccChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHHHHHHHHH
Confidence            222222  24667777777776554322 2222222    2222334566677777777665544  2333444455556


Q ss_pred             HhcCcHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHhhhhC------------CCCCc---------
Q 044047          136 CKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSLPRV------------GLMPN---------  194 (260)
Q Consensus       136 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------------~~~~~---------  194 (260)
                      ...+++..+...++.+.... .........+.+++...|+.+.|...|..+...            |.+++         
T Consensus       296 l~~~~~~~~~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~~~fYG~LAa~~Lg~~~~~~~~~~~~~  374 (450)
T d1qsaa1         296 LGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQQRGFYPMVAAQRIGEEYELKIDKAPQN  374 (450)
T ss_dssp             HHHTCHHHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSHHHHHHHHHTTCCCCCCCCCCCSC
T ss_pred             HHcCChHHHHHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcCCChHHHHHHHHcCCCCCCCcCCCCcc
Confidence            67789999999998876432 334566678889999999999999999886432            21100         


Q ss_pred             -hh-----hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHh
Q 044047          195 -VV-----TYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNETSKVVELLHRMD  257 (260)
Q Consensus       195 -~~-----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  257 (260)
                       ..     .-...+..+...|+...|...|..+... .  +......+.....+.|.++.|+....+..
T Consensus       375 ~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~-~--~~~~~~~la~lA~~~g~~~~aI~a~~~~~  440 (450)
T d1qsaa1         375 VDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS-K--SKTEQAQLARYAFNNQWWDLSVQATIAGK  440 (450)
T ss_dssp             CCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT-C--CHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC-C--CHHHHHHHHHHHHHCCChhHHHHHHHHHH
Confidence             00     0112345667889999999999988764 2  45566677888889999999988776543

>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=92.20  E-value=0.49  Score=26.48  Aligned_cols=62  Identities=8%  Similarity=0.077  Sum_probs=38.8

Q ss_pred             CHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHH
Q 044047           35 EIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLF   97 (260)
Q Consensus        35 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   97 (260)
                      +.=++.+-++.+...+..|++....+.+++|-+.+|+..|.++++-.+.. ..++...|.-++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHH
Confidence            34455666666666666777777777777777777777777777766544 222334444443

>d1bpoa1 a.118.1.4 (A:331-487) Clathrin heavy-chain linker domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy-chain linker domain
domain: Clathrin heavy-chain linker domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=83.90  E-value=3.1  Score=25.36  Aligned_cols=112  Identities=12%  Similarity=0.020  Sum_probs=72.0

Q ss_pred             cCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCccchHHHHHHHhccccHHHHHHH
Q 044047           33 TGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKL  112 (260)
Q Consensus        33 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  112 (260)
                      .++.+-|.++   ..+.|++-....|..-...+...|++.+|-++.....+ |+--+..|.+.+-..-...|+..-.+.+
T Consensus        12 l~n~~la~~l---A~r~~LpGAd~l~~~~F~~lf~~g~y~eAA~~aA~sP~-giLRt~~Ti~rFk~~~~~pGq~spLL~Y   87 (157)
T d1bpoa1          12 LQNPDLALRM---AVRNNLAGAEELFARKFNALFAQGNYSEAAKVAANAPK-GILRTPDTIRRFQSVPAQPGQTSPLLQY   87 (157)
T ss_dssp             TCCHHHHHHH---HHHTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSGG-GSSCSHHHHHHHTTSCCCTTSCCHHHHH
T ss_pred             cCCHHHHHHH---HHhcCCCChHHHHHHHHHHHHHcCCHHHHHHHHHhCCc-ccccCHHHHHHHHcCCCCCCCCCHHHHH
Confidence            3555655443   34556666667788888888888898888887765443 4444677766666555566777777778


Q ss_pred             HHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHH
Q 044047          113 FDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFR  149 (260)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  149 (260)
                      |..+.+.| +.+..--.-+++.-...|+.+-..+++.
T Consensus        88 F~~Ll~~~-~LN~~ESlEl~r~vL~q~r~~lve~Wl~  123 (157)
T d1bpoa1          88 FGILLDQG-QLNKYESLELCRPVLQQGRKQLLEKWLK  123 (157)
T ss_dssp             HHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHhcC-CCchHHhHHHHHHHHhcCcHHHHHHHHH
Confidence            88777776 3444333445566666666666665543

>d2f6ma1 a.2.17.1 (A:322-385) Vacuolar protein sorting-associated protein 23, VPS23 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Endosomal sorting complex assembly domain
family: VPS23 C-terminal domain
domain: Vacuolar protein sorting-associated protein 23, VPS23
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.42  E-value=1.6  Score=22.12  Aligned_cols=46  Identities=11%  Similarity=0.002  Sum_probs=28.3

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhc
Q 044047           22 VYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKT   68 (260)
Q Consensus        22 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   68 (260)
                      .+|.++..+++..-.++++..+.++...| ..+..+|-...+.+++.
T Consensus         3 a~nQl~~l~Aed~AieDaiy~L~~aL~~G-~I~~d~ylK~vR~LaRe   48 (64)
T d2f6ma1           3 GLNQLYNLVAQDYALTDTIEALSRMLHRG-TIPLDTFVKQGRELARQ   48 (64)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHT-SSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcC-CcCHHHHHHHHHHHHHH
Confidence            35566666666666666776776666666 44566665555555443

>d1bpoa1 a.118.1.4 (A:331-487) Clathrin heavy-chain linker domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy-chain linker domain
domain: Clathrin heavy-chain linker domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=81.24  E-value=4.1  Score=24.83  Aligned_cols=133  Identities=8%  Similarity=0.115  Sum_probs=88.0

Q ss_pred             HHHHHcCCCccHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 044047            9 DLMIQRGVRPNAFVYSTLIDGFCLTGEIDRARELFVSMDINGCMHNVVTYNTLINGYCKTKDVEESLNLYSEMLSKGIRP   88 (260)
Q Consensus         9 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   88 (260)
                      ....+.|++-....|..-.+.+...|++.+|-.+..... .|+-.+..|.+.+-..-...|...-.+.+|.-+.+.|.- 
T Consensus        20 ~lA~r~~LpGAd~l~~~~F~~lf~~g~y~eAA~~aA~sP-~giLRt~~Ti~rFk~~~~~pGq~spLL~YF~~Ll~~~~L-   97 (157)
T d1bpoa1          20 RMAVRNNLAGAEELFARKFNALFAQGNYSEAAKVAANAP-KGILRTPDTIRRFQSVPAQPGQTSPLLQYFGILLDQGQL-   97 (157)
T ss_dssp             HHHHHTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSG-GGSSCSHHHHHHHTTSCCCTTSCCHHHHHHHHHHHHSCC-
T ss_pred             HHHHhcCCCChHHHHHHHHHHHHHcCCHHHHHHHHHhCC-cccccCHHHHHHHHcCCCCCCCCCHHHHHHHHHHhcCCC-
Confidence            334556777777889999999999999999998876554 455667777777666555677777888888888887643 


Q ss_pred             CccchHHHHHHHhccccHHHHHHHHHHHhhcCCCcchhhHHHHHHHHHhcCcHHHHHHHHHHh
Q 044047           89 TVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTL  151 (260)
Q Consensus        89 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  151 (260)
                      +..--.-+.+.....|+.+-..+++.+   ..+..+... .-++..    .+..-|..+|.+.
T Consensus        98 N~~ESlEl~r~vL~q~r~~lve~Wl~e---~KL~~SEeL-GDlv~~----~d~~lAl~IY~ka  152 (157)
T d1bpoa1          98 NKYESLELCRPVLQQGRKQLLEKWLKE---DKLECSEEL-GDLVKS----VDPTLALSVYLRA  152 (157)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHH---TCSCCCHHH-HHHHHH----HCSHHHHHHHHHH
T ss_pred             chHHhHHHHHHHHhcCcHHHHHHHHHc---CCccCcHHH-HHHHHH----cCHHHHHHHHHHc
Confidence            444445566777777887776666443   223333322 223322    2445666666554