Citrus Sinensis ID: 040367

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400
Protein Sequence
FCIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL
Secondary Structure (PSIPRED)
cccHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHcccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHccc
Coil and Loop (DISEMBL)
fcifdymlnmrpspppvcsfnilfgclaknkhYDTVLSLFKRlnstglfpdlytYNILINCFCKMGRVSHGFVVLGRILrscftpnavTFTSLIKGLCAESRIMEAAALFTKLrvfgcepnvftynTLINGLYRTGHTIVALNLFEEmasgngefgvEGFVDKAKELFLQMkdeninpdvvtYTSVIRGFCYANDWNEAKCLLIEMMdqgvqpnvVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMesmgcthtvFSYSILINGYCKNKEIEGALSLYGEMlskgikpdvvIYNTLFVVLFEIHQVERAFKLFDEMqrdgvaadtWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL
Flexible Loop (DISEMBL)
FCIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQmkdeninpdVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL
Low Complexity Region (SEG)
FCIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL
Disordered region (IsUnstruct)
*****************CSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLID**
Disordered Region (DISOPRED)
FCIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL
Disordered Region (DISEMBL)
FCIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL
Disordered Region (DISPRO)
FCIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
FCIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL
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	400	2.2.26 [Sep-21-2011]
Q9LQ14	629	Pentatricopeptide repeat-	yes	no	0.992	0.631	0.355	9e-76
Q9SXD8	634	Pentatricopeptide repeat-	no	no	0.992	0.626	0.352	2e-75
P0C7Q7	602	Putative pentatricopeptid	no	no	0.992	0.659	0.351	6e-75
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.992	0.616	0.348	2e-74
Q9C8T7	559	Pentatricopeptide repeat-	no	no	0.982	0.703	0.349	3e-74
Q9CAN5	614	Pentatricopeptide repeat-	no	no	0.992	0.646	0.348	1e-73
Q9SH26	577	Pentatricopeptide repeat-	no	no	0.992	0.688	0.341	9e-73
Q0WKV3	637	Pentatricopeptide repeat-	no	no	0.992	0.623	0.339	4e-72
Q3ECK2	548	Pentatricopeptide repeat-	no	no	0.935	0.682	0.344	1e-71
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.995	0.631	0.340	1e-71

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

 Score =  284 bits (726), Expect = 9e-76,   Method: Compositional matrix adjust.
 Identities = 158/445 (35%), Positives = 244/445 (54%), Gaps = 48/445 (10%)

Query: 3   IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCF 62
           +F  M+  RP  P +  FN L   +AK   +D V+SL +R+ +  +  DLY+YNILINCF
Sbjct: 67  LFGEMVQSRP-LPSIVEFNKLLSAIAKMNKFDLVISLGERMQNLRISYDLYSYNILINCF 125

Query: 63  CKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVF------ 116
           C+  ++     VLG++++  + P+ VT +SL+ G C   RI EA AL  ++ V       
Sbjct: 126 CRRSQLPLALAVLGKMMKLGYEPDIVTLSSLLNGYCHGKRISEAVALVDQMFVMEYQPNT 185

Query: 117 -----------------------------GCEPNVFTYNTLINGLYRTGHTIVALNLFEE 147
                                        GC+P++FTY T++NGL + G   +AL+L ++
Sbjct: 186 VTFNTLIHGLFLHNKASEAVALIDRMVARGCQPDLFTYGTVVNGLCKRGDIDLALSLLKK 245

Query: 148 MASGNGEFGVEGF------------VDKAKELFLQMKDENINPDVVTYTSVIRGFCYAND 195
           M  G  E  V  +            V+ A  LF +M ++ I P+VVTY S+IR  C    
Sbjct: 246 MEKGKIEADVVIYTTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLIRCLCNYGR 305

Query: 196 WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNT 255
           W++A  LL +M+++ + PNVVTF+ ++D   K GK+ EA +L D MI+  + P+ F Y++
Sbjct: 306 WSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSS 365

Query: 256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG 315
           L++GFC+  R++ AK +F  M S  C   V +Y+ LI G+CK K +E  + L+ EM  +G
Sbjct: 366 LINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVEEGMELFREMSQRG 425

Query: 316 IKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAV 375
           +  + V YNTL   LF+    + A K+F +M  DGV  D  TY   +DGLCK   + +A+
Sbjct: 426 LVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPDIITYSILLDGLCKYGKLEKAL 485

Query: 376 ELFRTLRILKCELDIRAYNCLIDGL 400
            +F  L+  K E DI  YN +I+G+
Sbjct: 486 VVFEYLQKSKMEPDIYTYNIMIEGM 510

Arabidopsis thaliana (taxid: 3702)

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

 Score =  283 bits (724), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 157/445 (35%), Positives = 241/445 (54%), Gaps = 48/445 (10%)

Query: 3   IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCF 62
           +F  M+  RP  P +  FN L   +AK K +D V+SL +++    +   LYTYNILINCF
Sbjct: 72  LFGGMVKSRP-LPSIVEFNKLLSAIAKMKKFDVVISLGEKMQRLEIVHGLYTYNILINCF 130

Query: 63  CKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIM------------------ 104
           C+  ++S    +LG++++  + P+ VT +SL+ G C   RI                   
Sbjct: 131 CRRSQISLALALLGKMMKLGYEPSIVTLSSLLNGYCHGKRISDAVALVDQMVEMGYRPDT 190

Query: 105 -----------------EAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEE 147
                            EA AL  ++   GC+PN+ TY  ++NGL + G T +ALNL  +
Sbjct: 191 ITFTTLIHGLFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGDTDLALNLLNK 250

Query: 148 MASGNGEFGVEGF------------VDKAKELFLQMKDENINPDVVTYTSVIRGFCYAND 195
           M +   E  V  F            VD A  LF +M+ + I P+VVTY+S+I   C    
Sbjct: 251 MEAAKIEADVVIFNTIIDSLCKYRHVDDALNLFKEMETKGIRPNVVTYSSLISCLCSYGR 310

Query: 196 WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNT 255
           W++A  LL +M+++ + PN+VTFN ++D   K GK  EA +L D MI+  + P+ F YN+
Sbjct: 311 WSDASQLLSDMIEKKINPNLVTFNALIDAFVKEGKFVEAEKLYDDMIKRSIDPDIFTYNS 370

Query: 256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG 315
           L++GFC+  R+++AK++F  M S  C   V +Y+ LI G+CK+K +E    L+ EM  +G
Sbjct: 371 LVNGFCMHDRLDKAKQMFEFMVSKDCFPDVVTYNTLIKGFCKSKRVEDGTELFREMSHRG 430

Query: 316 IKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAV 375
           +  D V Y TL   LF     + A K+F +M  DGV  D  TY   +DGLC N  + +A+
Sbjct: 431 LVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDGVPPDIMTYSILLDGLCNNGKLEKAL 490

Query: 376 ELFRTLRILKCELDIRAYNCLIDGL 400
           E+F  ++  + +LDI  Y  +I+G+
Sbjct: 491 EVFDYMQKSEIKLDIYIYTTMIEGM 515

Arabidopsis thaliana (taxid: 3702)

>sp|P0C7Q7|PPR38_ARATH Putative pentatricopeptide repeat-containing protein At1g12700, mitochondrial OS=Arabidopsis thaliana GN=At1g12700 PE=3 SV=1

 Score =  281 bits (719), Expect = 6e-75,   Method: Compositional matrix adjust.
 Identities = 144/410 (35%), Positives = 234/410 (57%), Gaps = 13/410 (3%)

Query: 3   IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCF 62
           +F  M+  RP P  V  F+  F  +A+ K ++ VL   K+L   G+  ++YT NI+INCF
Sbjct: 75  LFQEMIRSRPLPSLV-DFSRFFSAIARTKQFNLVLDFCKQLELNGIAHNIYTLNIMINCF 133

Query: 63  CKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNV 122
           C+  +    + VLG++++  + P+  TF +LIKGL  E ++ EA  L  ++   GC+P+V
Sbjct: 134 CRCCKTCFAYSVLGKVMKLGYEPDTTTFNTLIKGLFLEGKVSEAVVLVDRMVENGCQPDV 193

Query: 123 FTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV------------EGFVDKAKELFLQ 170
            TYN+++NG+ R+G T +AL+L  +M   N +  V            +G +D A  LF +
Sbjct: 194 VTYNSIVNGICRSGDTSLALDLLRKMEERNVKADVFTYSTIIDSLCRDGCIDAAISLFKE 253

Query: 171 MKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGK 230
           M+ + I   VVTY S++RG C A  WN+   LL +M+ + + PNV+TFNV++D   K GK
Sbjct: 254 METKGIKSSVVTYNSLVRGLCKAGKWNDGALLLKDMVSREIVPNVITFNVLLDVFVKEGK 313

Query: 231 MDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSI 290
           + EA+ L   MI  G+ PN   YNTLMDG+C+  R++ A  +   M    C+  + +++ 
Sbjct: 314 LQEANELYKEMITRGISPNIITYNTLMDGYCMQNRLSEANNMLDLMVRNKCSPDIVTFTS 373

Query: 291 LINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDG 350
           LI GYC  K ++  + ++  +  +G+  + V Y+ L     +  +++ A +LF EM   G
Sbjct: 374 LIKGYCMVKRVDDGMKVFRNISKRGLVANAVTYSILVQGFCQSGKIKLAEELFQEMVSHG 433

Query: 351 VAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
           V  D  TY   +DGLC N  + +A+E+F  L+  K +L I  Y  +I+G+
Sbjct: 434 VLPDVMTYGILLDGLCDNGKLEKALEIFEDLQKSKMDLGIVMYTTIIEGM 483

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LPX2|PPR39_ARATH Pentatricopeptide repeat-containing protein At1g12775, mitochondrial OS=Arabidopsis thaliana GN=At1g12775 PE=2 SV=1

 Score =  280 bits (715), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 155/445 (34%), Positives = 239/445 (53%), Gaps = 48/445 (10%)

Query: 3   IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCF 62
           +F  M+  RP  P V  FN LF  +AK K Y+ VL+L K++ S G+   +YT +I+INCF
Sbjct: 75  LFRDMIQSRP-LPTVIDFNRLFSAIAKTKQYELVLALCKQMESKGIAHSIYTLSIMINCF 133

Query: 63  CKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNV 122
           C+  ++S+ F  +G+I++  + P+ V F +L+ GLC E R+ EA  L  ++   G +P +
Sbjct: 134 CRCRKLSYAFSTMGKIMKLGYEPDTVIFNTLLNGLCLECRVSEALELVDRMVEMGHKPTL 193

Query: 123 FTYNTLINGLY-----------------------------------RTGHTIVALNLFEE 147
            T NTL+NGL                                    ++G T +A+ L  +
Sbjct: 194 ITLNTLVNGLCLNGKVSDAVVLIDRMVETGFQPNEVTYGPVLNVMCKSGQTALAMELLRK 253

Query: 148 MASGNGEFGV------------EGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYAND 195
           M   N +               +G +D A  LF +M+ +    D++TY ++I GFC A  
Sbjct: 254 MEERNIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGR 313

Query: 196 WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNT 255
           W++   LL +M+ + + PNVVTF+V++D   K GK+ EA +LL  M+Q G+ PN   YN+
Sbjct: 314 WDDGAKLLRDMIKRKISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAPNTITYNS 373

Query: 256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG 315
           L+DGFC   R+  A ++   M S GC   + +++ILINGYCK   I+  L L+ EM  +G
Sbjct: 374 LIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILINGYCKANRIDDGLELFREMSLRG 433

Query: 316 IKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAV 375
           +  + V YNTL     +  ++E A KLF EM    V  D  +Y+  +DGLC N  + +A+
Sbjct: 434 VIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRVRPDIVSYKILLDGLCDNGELEKAL 493

Query: 376 ELFRTLRILKCELDIRAYNCLIDGL 400
           E+F  +   K ELDI  Y  +I G+
Sbjct: 494 EIFGKIEKSKMELDIGIYMIIIHGM 518

Arabidopsis thaliana (taxid: 3702)

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

 Score =  279 bits (713), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 154/441 (34%), Positives = 239/441 (54%), Gaps = 48/441 (10%)

Query: 7   MLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMG 66
           M+  RP  P +  FN L   +AK K +D V+SL +++   G+  +LYTYNILINCFC+  
Sbjct: 1   MVKSRP-LPSIFEFNKLLSAIAKMKKFDLVISLGEKMQRLGISHNLYTYNILINCFCRRS 59

Query: 67  RVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIM---------------------- 104
           ++S    +LG++++  + P+ VT +SL+ G C   RI                       
Sbjct: 60  QISLALALLGKMMKLGYEPSIVTLSSLLNGYCHGKRISDAVALVDQMVEMGYRPDTITFT 119

Query: 105 -------------EAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASG 151
                        EA AL  ++   GC+PN+ TY  ++NGL + G   +A NL  +M + 
Sbjct: 120 TLIHGLFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGDIDLAFNLLNKMEAA 179

Query: 152 NGEFGVEGF------------VDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEA 199
             E  V  F            VD A  LF +M+ + I P+VVTY+S+I   C    W++A
Sbjct: 180 KIEADVVIFNTIIDSLCKYRHVDDALNLFKEMETKGIRPNVVTYSSLISCLCSYGRWSDA 239

Query: 200 KCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDG 259
             LL +M+++ + PN+VTFN ++D   K GK  EA +L D MI+  + P+ F YN+L++G
Sbjct: 240 SQLLSDMIEKKINPNLVTFNALIDAFVKEGKFVEAEKLHDDMIKRSIDPDIFTYNSLING 299

Query: 260 FCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPD 319
           FC+  R+++AK++F  M S  C   + +Y+ LI G+CK+K +E    L+ EM  +G+  D
Sbjct: 300 FCMHDRLDKAKQMFEFMVSKDCFPDLDTYNTLIKGFCKSKRVEDGTELFREMSHRGLVGD 359

Query: 320 VVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFR 379
            V Y TL   LF     + A K+F +M  DGV  D  TY   +DGLC N  + +A+E+F 
Sbjct: 360 TVTYTTLIQGLFHDGDCDNAQKVFKQMVSDGVPPDIMTYSILLDGLCNNGKLEKALEVFD 419

Query: 380 TLRILKCELDIRAYNCLIDGL 400
            ++  + +LDI  Y  +I+G+
Sbjct: 420 YMQKSEIKLDIYIYTTMIEGM 440

Arabidopsis thaliana (taxid: 3702)

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

 Score =  277 bits (708), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 155/445 (34%), Positives = 241/445 (54%), Gaps = 48/445 (10%)

Query: 3   IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCF 62
           +F  M+  RP P  +  F+ L   +AK K +D V+S  +++   G+  +LYTYNI+INC 
Sbjct: 52  LFGEMVKSRPFPS-IVEFSKLLSAIAKMKKFDLVISFGEKMEILGVSHNLYTYNIMINCL 110

Query: 63  CKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAAL------------- 109
           C+  ++S    +LG++++  + P+ VT  SL+ G C  +RI EA AL             
Sbjct: 111 CRRSQLSFALAILGKMMKLGYGPSIVTLNSLLNGFCHGNRISEAVALVDQMVEMGYQPDT 170

Query: 110 --FT--------------------KLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEE 147
             FT                    ++ V GC+P++ TY  +INGL + G   +ALNL  +
Sbjct: 171 VTFTTLVHGLFQHNKASEAVALVERMVVKGCQPDLVTYGAVINGLCKRGEPDLALNLLNK 230

Query: 148 MASGNGEFGVEGF------------VDKAKELFLQMKDENINPDVVTYTSVIRGFCYAND 195
           M  G  E  V  +            VD A  LF +M ++ I PDV TY+S+I   C    
Sbjct: 231 MEKGKIEADVVIYSTVIDSLCKYRHVDDALNLFTEMDNKGIRPDVFTYSSLISCLCNYGR 290

Query: 196 WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNT 255
           W++A  LL +M+++ + PNVVTFN ++D   K GK+ EA +L D MIQ  + PN   YN+
Sbjct: 291 WSDASRLLSDMLERKINPNVVTFNSLIDAFAKEGKLIEAEKLFDEMIQRSIDPNIVTYNS 350

Query: 256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG 315
           L++GFC+  R++ A+++F  M S  C   V +Y+ LING+CK K++   + L+ +M  +G
Sbjct: 351 LINGFCMHDRLDEAQQIFTLMVSKDCLPDVVTYNTLINGFCKAKKVVDGMELFRDMSRRG 410

Query: 316 IKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAV 375
           +  + V Y TL    F+    + A  +F +M  DGV  +  TY T +DGLCKN  + +A+
Sbjct: 411 LVGNTVTYTTLIHGFFQASDCDNAQMVFKQMVSDGVHPNIMTYNTLLDGLCKNGKLEKAM 470

Query: 376 ELFRTLRILKCELDIRAYNCLIDGL 400
            +F  L+  K E DI  YN + +G+
Sbjct: 471 VVFEYLQKSKMEPDIYTYNIMSEGM 495

Arabidopsis thaliana (taxid: 3702)

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

 Score =  274 bits (700), Expect = 9e-73,   Method: Compositional matrix adjust.
 Identities = 152/445 (34%), Positives = 240/445 (53%), Gaps = 48/445 (10%)

Query: 3   IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCF 62
           +F  M+  RP P  +  FN L   +AK K +D V+SL +++   G+  +LYTYNILINCF
Sbjct: 72  LFGGMVKSRPLPS-IFEFNKLLSAIAKMKKFDLVISLGEKMQRLGISHNLYTYNILINCF 130

Query: 63  CKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIM------------------ 104
           C+  ++S    +LG++++  + P+ VT +SL+ G C   RI                   
Sbjct: 131 CRRSQISLALALLGKMMKLGYEPSIVTLSSLLNGYCHGKRISDAVALVDQMVEMGYRPDT 190

Query: 105 -----------------EAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEE 147
                            EA AL  ++   GC+PN+ TY  ++NGL + G   +A NL  +
Sbjct: 191 ITFTTLIHGLFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGDIDLAFNLLNK 250

Query: 148 MASGNGEFGVEGFV------------DKAKELFLQMKDENINPDVVTYTSVIRGFCYAND 195
           M +   E  V  +             D A  LF +M+++ + P+V+TY+S+I   C    
Sbjct: 251 MEAAKIEANVVIYSTVIDSLCKYRHEDDALNLFTEMENKGVRPNVITYSSLISCLCNYER 310

Query: 196 WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNT 255
           W++A  LL +M+++ + PNVVTFN ++D   K GK+ EA +L D MI+  + P+ F Y++
Sbjct: 311 WSDASRLLSDMIERKINPNVVTFNALIDAFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSS 370

Query: 256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG 315
           L++GFC+  R++ AK +F  M S  C   V +Y+ LING+CK K I+  + L+ EM  +G
Sbjct: 371 LINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLINGFCKAKRIDEGVELFREMSQRG 430

Query: 316 IKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAV 375
           +  + V Y TL    F+    + A  +F +M  DGV  +  TY T +DGLCKN  + +A+
Sbjct: 431 LVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSDGVHPNIMTYNTLLDGLCKNGKLEKAM 490

Query: 376 ELFRTLRILKCELDIRAYNCLIDGL 400
            +F  L+  K E  I  YN +I+G+
Sbjct: 491 VVFEYLQRSKMEPTIYTYNIMIEGM 515

Arabidopsis thaliana (taxid: 3702)

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

 Score =  272 bits (695), Expect = 4e-72,   Method: Compositional matrix adjust.
 Identities = 151/445 (33%), Positives = 236/445 (53%), Gaps = 48/445 (10%)

Query: 3   IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCF 62
           +F  M++ RP P  V  F+ LF  +AK K YD VL+L K++   G+  +LYT +I+INCF
Sbjct: 75  LFRDMIHSRPLPT-VIDFSRLFSAIAKTKQYDLVLALCKQMELKGIAHNLYTLSIMINCF 133

Query: 63  CKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRI------------------- 103
           C+  ++   F  +G+I++  + PN +TF++LI GLC E R+                   
Sbjct: 134 CRCRKLCLAFSAMGKIIKLGYEPNTITFSTLINGLCLEGRVSEALELVDRMVEMGHKPDL 193

Query: 104 ----------------MEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEE 147
                            EA  L  K+  +GC+PN  TY  ++N + ++G T +A+ L  +
Sbjct: 194 ITINTLVNGLCLSGKEAEAMLLIDKMVEYGCQPNAVTYGPVLNVMCKSGQTALAMELLRK 253

Query: 148 MASGNGEFGV------------EGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYAND 195
           M   N +                G +D A  LF +M+ + I  +++TY  +I GFC A  
Sbjct: 254 MEERNIKLDAVKYSIIIDGLCKHGSLDNAFNLFNEMEMKGITTNIITYNILIGGFCNAGR 313

Query: 196 WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNT 255
           W++   LL +M+ + + PNVVTF+V++D   K GK+ EA  L   MI  G+ P+   Y +
Sbjct: 314 WDDGAKLLRDMIKRKINPNVVTFSVLIDSFVKEGKLREAEELHKEMIHRGIAPDTITYTS 373

Query: 256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG 315
           L+DGFC    +++A ++   M S GC   + +++ILINGYCK   I+  L L+ +M  +G
Sbjct: 374 LIDGFCKENHLDKANQMVDLMVSKGCDPNIRTFNILINGYCKANRIDDGLELFRKMSLRG 433

Query: 316 IKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAV 375
           +  D V YNTL     E+ ++  A +LF EM    V  +  TY+  +DGLC N    +A+
Sbjct: 434 VVADTVTYNTLIQGFCELGKLNVAKELFQEMVSRKVPPNIVTYKILLDGLCDNGESEKAL 493

Query: 376 ELFRTLRILKCELDIRAYNCLIDGL 400
           E+F  +   K ELDI  YN +I G+
Sbjct: 494 EIFEKIEKSKMELDIGIYNIIIHGM 518

Arabidopsis thaliana (taxid: 3702)

>sp|Q3ECK2|PPR92_ARATH Pentatricopeptide repeat-containing protein At1g62680, mitochondrial OS=Arabidopsis thaliana GN=At1g62680 PE=2 SV=2

 Score =  270 bits (691), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 137/398 (34%), Positives = 229/398 (57%), Gaps = 24/398 (6%)

Query: 3   IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCF 62
           +F  M+  RP P  V  FN L   + K K YD V+SL K++   G+  DLYT+NI+INCF
Sbjct: 72  LFSDMVKSRPFPSIV-DFNRLLSAIVKLKKYDVVISLGKKMEVLGIRNDLYTFNIVINCF 130

Query: 63  CKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNV 122
           C   +VS    +LG++L+  + P+ VT  SL+ G C  +R+ +A +L  K+   G +P++
Sbjct: 131 CCCFQVSLALSILGKMLKLGYEPDRVTIGSLVNGFCRRNRVSDAVSLVDKMVEIGYKPDI 190

Query: 123 FTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVT 182
             YN +I+ L +T                         V+ A + F +++ + I P+VVT
Sbjct: 191 VAYNAIIDSLCKTKR-----------------------VNDAFDFFKEIERKGIRPNVVT 227

Query: 183 YTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMI 242
           YT+++ G C ++ W++A  LL +M+ + + PNV+T++ ++D   KNGK+ EA  L + M+
Sbjct: 228 YTALVNGLCNSSRWSDAARLLSDMIKKKITPNVITYSALLDAFVKNGKVLEAKELFEEMV 287

Query: 243 QIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIE 302
           ++ + P+   Y++L++G CL  R++ A ++F  M S GC   V SY+ LING+CK K +E
Sbjct: 288 RMSIDPDIVTYSSLINGLCLHDRIDEANQMFDLMVSKGCLADVVSYNTLINGFCKAKRVE 347

Query: 303 GALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFI 362
             + L+ EM  +G+  + V YNTL    F+   V++A + F +M   G++ D WTY   +
Sbjct: 348 DGMKLFREMSQRGLVSNTVTYNTLIQGFFQAGDVDKAQEFFSQMDFFGISPDIWTYNILL 407

Query: 363 DGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
            GLC N  + +A+ +F  ++  + +LDI  Y  +I G+
Sbjct: 408 GGLCDNGELEKALVIFEDMQKREMDLDIVTYTTVIRGM 445

Arabidopsis thaliana (taxid: 3702)

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

 Score =  270 bits (691), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 152/446 (34%), Positives = 243/446 (54%), Gaps = 48/446 (10%)

Query: 2   CIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINC 61
            +F  M+  RP P  +  F+ L   +AK   +D V+SL +++ + G+  + YTY+ILINC
Sbjct: 67  ALFGEMVKSRPFPS-IIEFSKLLSAIAKMNKFDVVISLGEQMQNLGIPHNHYTYSILINC 125

Query: 62  FCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPN 121
           FC+  ++     VLG++++  + PN VT +SL+ G C   RI EA AL  ++ V G +PN
Sbjct: 126 FCRRSQLPLALAVLGKMMKLGYEPNIVTLSSLLNGYCHSKRISEAVALVDQMFVTGYQPN 185

Query: 122 VFTYNTLINGLY-----------------------------------RTGHTIVALNLFE 146
             T+NTLI+GL+                                   + G T +A NL  
Sbjct: 186 TVTFNTLIHGLFLHNKASEAMALIDRMVAKGCQPDLVTYGVVVNGLCKRGDTDLAFNLLN 245

Query: 147 EMASGNGEFGV-------EGF-----VDKAKELFLQMKDENINPDVVTYTSVIRGFCYAN 194
           +M  G  E GV       +G      +D A  LF +M+ + I P+VVTY+S+I   C   
Sbjct: 246 KMEQGKLEPGVLIYNTIIDGLCKYKHMDDALNLFKEMETKGIRPNVVTYSSLISCLCNYG 305

Query: 195 DWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYN 254
            W++A  LL +M+++ + P+V TF+ ++D   K GK+ EA +L D M++  + P+   Y+
Sbjct: 306 RWSDASRLLSDMIERKINPDVFTFSALIDAFVKEGKLVEAEKLYDEMVKRSIDPSIVTYS 365

Query: 255 TLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK 314
           +L++GFC+  R++ AK++F  M S  C   V +Y+ LI G+CK K +E  + ++ EM  +
Sbjct: 366 SLINGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEEGMEVFREMSQR 425

Query: 315 GIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEA 374
           G+  + V YN L   LF+    + A ++F EM  DGV  +  TY T +DGLCKN  + +A
Sbjct: 426 GLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDGLCKNGKLEKA 485

Query: 375 VELFRTLRILKCELDIRAYNCLIDGL 400
           + +F  L+  K E  I  YN +I+G+
Sbjct: 486 MVVFEYLQRSKMEPTIYTYNIMIEGM 511

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	400
359479583	627	PREDICTED: pentatricopeptide repeat-cont	0.997	0.636	0.502	1e-113
449529622	618	PREDICTED: pentatricopeptide repeat-cont	0.997	0.645	0.466	1e-103
449520323	605	PREDICTED: pentatricopeptide repeat-cont	0.997	0.659	0.464	1e-102
449520325	605	PREDICTED: pentatricopeptide repeat-cont	0.987	0.652	0.451	2e-98
449462477	597	PREDICTED: pentatricopeptide repeat-cont	0.977	0.654	0.454	3e-97
255559961	628	pentatricopeptide repeat-containing prot	0.965	0.614	0.435	7e-92
449444222	588	PREDICTED: pentatricopeptide repeat-cont	0.912	0.620	0.465	1e-91
449462479	580	PREDICTED: pentatricopeptide repeat-cont	0.945	0.651	0.435	3e-89
449444228	585	PREDICTED: pentatricopeptide repeat-cont	0.917	0.627	0.440	1e-86
225451354	744	PREDICTED: putative pentatricopeptide re	0.99	0.532	0.413	8e-83

>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 =  414 bits (1064), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 210/418 (50%), Positives = 276/418 (66%), Gaps = 19/418 (4%)

Query: 1   FCIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILIN 60
           F +F+++++M+P+PP + SFN L G +AK K Y  V+SL+KR++  GL PD  T NILIN
Sbjct: 77  FSVFNHLIDMQPTPP-ISSFNTLLGAVAKIKRYFDVISLYKRMSLIGLAPDFITLNILIN 135

Query: 61  CFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEP 120
           C+C + +V  G  VLG +LR   +PN VTFTSL+KGLC  SRI EA  L  K+   G  P
Sbjct: 136 CYCNLNKVDFGLAVLGEMLRRGHSPNTVTFTSLVKGLCLGSRISEATGLLRKMVRMGYRP 195

Query: 121 NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV------------------EGFVD 162
           NV TY TL+NGL  TG+T++A+ L EEM +GNG FGV                  +G +D
Sbjct: 196 NVVTYGTLLNGLCMTGNTMLAVKLHEEMLNGNGGFGVTIKPNLVCYCTIIDSLCKDGLID 255

Query: 163 KAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIM 222
           K KELFL+MK   I+PDVV Y+S+I G C+   W  AK L  EM+D+GV PNVVTFNV++
Sbjct: 256 KGKELFLEMKGRGISPDVVAYSSIIHGMCHTGRWEGAKGLFNEMVDEGVHPNVVTFNVLI 315

Query: 223 DELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCT 282
           D LCK GKM+EA+ LL LMIQ G  P+ F YNTL+DGFCL GR++ A++LFVSMES G  
Sbjct: 316 DALCKAGKMEEANHLLKLMIQRGESPDTFTYNTLIDGFCLEGRIDDARDLFVSMESKGIE 375

Query: 283 HTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKL 342
               SY++LINGYCK+  +  A  LY EM+ K I P V+ YNTL   LF   +V  A+ L
Sbjct: 376 TDAVSYNVLINGYCKSGRMVEAKKLYREMMCKEIMPTVITYNTLLTGLFREGKVRDAWNL 435

Query: 343 FDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
           F EM+   +  ++ TY   +DGLCKN+++ EA+ELF  L     +  I+ +NCLIDGL
Sbjct: 436 FGEMKVHDLTPESCTYNILLDGLCKNNHLSEAMELFHYLENHDFQPSIQIFNCLIDGL 493

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 =  382 bits (980), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 195/418 (46%), Positives = 266/418 (63%), Gaps = 19/418 (4%)

Query: 1   FCIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILIN 60
           F  FD M+   P PP + SFN L G LAK  HY  + SL+  +   GL PDL+T +IL N
Sbjct: 76  FHFFDLMMRSHPIPP-ISSFNRLLGGLAKINHYSQLFSLYNEMRLAGLSPDLFTLSILAN 134

Query: 61  CFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEP 120
           C C + RVS     +  ILR  + PN VT+T+LIKGLC E RI EA  LF +++  GC P
Sbjct: 135 CLCNVNRVSEALAAMAGILRRGYIPNVVTYTTLIKGLCMEHRISEATRLFLRMQKLGCTP 194

Query: 121 NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVE------------------GFVD 162
           N  TY TLI GL +TG+  +AL L +EM +   ++GV                   G  D
Sbjct: 195 NAVTYGTLIKGLCQTGNVNIALKLHKEMLNDASQYGVNCKPGVITYSIIIDGLCKVGRED 254

Query: 163 KAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIM 222
           +AKELF +MK + + PDV++Y+++I GFC A  W+++K L  EM+DQGVQP++VTF+V++
Sbjct: 255 EAKELFEEMKAQGMIPDVISYSTLIHGFCCAGKWDQSKHLFDEMVDQGVQPDMVTFSVLI 314

Query: 223 DELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCT 282
           D LCK GK+ EA +LL++MIQ G+ PN   YN+L+DGFC+ G +N A+ELF+SM S G  
Sbjct: 315 DTLCKEGKVTEAKKLLEVMIQRGIVPNLITYNSLIDGFCMVGDLNSARELFLSMPSKGLE 374

Query: 283 HTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKL 342
               SY+ LINGYCK  +++ A++LY EML  G  P+V  Y TL   LF+  +V  A KL
Sbjct: 375 PDEISYTTLINGYCKTWKVKEAMNLYNEMLQVGKSPNVTTYGTLLKGLFQKGKVGDAKKL 434

Query: 343 FDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
           F  M+  GV+A++  Y  F+DGLCKN  + EA+ELF  L+    +L+I  Y+CLIDGL
Sbjct: 435 FGVMKTYGVSANSQIYGIFLDGLCKNDCLFEAMELFNELKSYNFKLNIENYSCLIDGL 492

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 =  377 bits (967), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 194/418 (46%), Positives = 262/418 (62%), Gaps = 19/418 (4%)

Query: 1   FCIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILIN 60
           F  F  M+   P+PP + SF  L   LAK KHY  V  L+ ++  +G+ PD  T NIL+N
Sbjct: 81  FQFFHLMMYSNPTPP-LSSFTHLLSGLAKIKHYSQVFYLYNQMRLSGISPDCCTLNILLN 139

Query: 61  CFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEP 120
           C C + RV  G  V+  ILR  + P+ VT+T+LIKGLC E RI +AA LFT+++  GC P
Sbjct: 140 CLCNVNRVGEGLAVMAGILRRGYIPDIVTYTTLIKGLCMEHRISKAALLFTRMQKLGCTP 199

Query: 121 NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV------------------EGFVD 162
           N  TY TL+ GL RTG+  +AL L +EM + +  +G+                  +   D
Sbjct: 200 NAITYGTLMKGLCRTGNISIALKLHQEMLNDSSLYGINFKPVVISYSIIIDALCKDRRED 259

Query: 163 KAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIM 222
           +A++LF +MK + + P V++YTS+I GFC    W EAK L  EM++QGVQPNVVTFNV++
Sbjct: 260 EARDLFEEMKVQGMTPTVISYTSLIHGFCCGGKWEEAKRLFNEMVNQGVQPNVVTFNVLI 319

Query: 223 DELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCT 282
           D LCK GK+ EA  LL++MIQ G+ PN   YN+L++GFCL G +N A+ELFVSM S GC 
Sbjct: 320 DVLCKEGKVIEAKDLLEVMIQRGIVPNLLTYNSLIEGFCLVGDLNSARELFVSMPSKGCE 379

Query: 283 HTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKL 342
             V  Y++LINGYCK  ++E A+ LY  ML  G +PDV  Y  L   LF+  +V  A KL
Sbjct: 380 PDVICYTVLINGYCKTSKVEEAMKLYNGMLQVGKRPDVKTYGALLTGLFQGGKVGDAKKL 439

Query: 343 FDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
           F  M+  G+  D + Y  F++GLCKN  + EA+ELF  L+    +LDI  +NCLIDGL
Sbjct: 440 FGVMKVYGIPGDLYIYGIFLNGLCKNGCLFEAMELFNKLKSYNIKLDIECFNCLIDGL 497

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 =  365 bits (937), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 187/414 (45%), Positives = 264/414 (63%), Gaps = 19/414 (4%)

Query: 6   YMLNMRPSP-PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCK 64
           + L MR +P P + SFN L   LAK KHY  V SL+ ++  +GL  D  T NIL+NC C 
Sbjct: 57  FHLMMRSTPTPSLSSFNHLLSGLAKIKHYSQVFSLYNQMRLSGLSSDRCTLNILLNCLCN 116

Query: 65  MGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFT 124
           + R+  GF     ILR  ++PN VT+ +LIKGLC E RI EA  LF +++  GC P+V T
Sbjct: 117 VNRLREGFAAFAGILRRGYSPNIVTYNTLIKGLCMEHRISEATRLFLRMQKLGCTPDVVT 176

Query: 125 YNTLINGLYRTGHTIVALNLFEEMASGNGEFGVE------------------GFVDKAKE 166
           Y TLI GL  TG+  +AL L +EM +    + +                   G  D+AK+
Sbjct: 177 YGTLIKGLCGTGNINIALKLHQEMLNDISRYEINCKPNVITYNIIVDGLCKVGREDEAKQ 236

Query: 167 LFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELC 226
           LF +MK + + P +++Y S+I GFC A  W E+K LL EM+DQG+QP++VTFNV++D LC
Sbjct: 237 LFEEMKTQGMIPSIISYNSLIHGFCCAGKWEESKRLLDEMLDQGLQPDMVTFNVLIDTLC 296

Query: 227 KNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVF 286
           K GK+ EA +LL +MI+ G+ P+   YN+L++GFC+ G +N A+ELFVSM S GC   V 
Sbjct: 297 KEGKVIEAKKLLGVMIESGIVPDLVTYNSLIEGFCMVGDLNSARELFVSMPSKGCEPDVI 356

Query: 287 SYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEM 346
           SY++LINGY K  ++E A+ LY EML  G +P+V+ Y++L   +F   +V+ A KLF  M
Sbjct: 357 SYNVLINGYSKTLKVEEAMKLYNEMLLVGKRPNVITYDSLLKGIFLAGKVDDAKKLFSVM 416

Query: 347 QRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
           +  G+A +++TY  F+DGLCKN  + EA++LF  L+    +L+I   NCLIDGL
Sbjct: 417 KAHGIAENSYTYGIFLDGLCKNDCLFEAMKLFTELKSSNFKLEIENLNCLIDGL 470

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 =  361 bits (927), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 190/418 (45%), Positives = 259/418 (61%), Gaps = 27/418 (6%)

Query: 1   FCIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILIN 60
           F  F  M+   P+PP + SF  L   LAK KHY  V  L+ ++  +G+ PD  T NIL+N
Sbjct: 81  FQFFHLMMYSNPTPP-LSSFTHLLSGLAKIKHYSQVFYLYNQMRLSGISPDCCTLNILLN 139

Query: 61  CFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEP 120
           C C + RV  G  V+  ILR  + P+ VT+T+LIKGLC E RI +AA LFT+++  GC P
Sbjct: 140 CLCNVNRVGEGLAVMAGILRRGYIPDIVTYTTLIKGLCMEHRISKAALLFTRMQKLGCTP 199

Query: 121 NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV------------------EGFVD 162
           N  TY TL+ GL RTG+  +AL L +EM + +  +G+                  +   D
Sbjct: 200 NAITYGTLMKGLCRTGNISIALKLHQEMLNDSSLYGINFKPVVISYSIIIDALCKDRRED 259

Query: 163 KAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIM 222
           +A++LF +MK + + P V++YTS++        W EAK L  EM++QGVQPNVVTFNV++
Sbjct: 260 EARDLFEEMKVQGMTPTVISYTSLM--------WEEAKRLFNEMVNQGVQPNVVTFNVLI 311

Query: 223 DELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCT 282
           D LCK GK+ EA  LL++MIQ G+ PN   YN+L++GFCL G +N A+ELFVSM S GC 
Sbjct: 312 DVLCKEGKVIEAKDLLEVMIQRGIVPNLLTYNSLIEGFCLVGDLNSARELFVSMPSKGCE 371

Query: 283 HTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKL 342
             V  Y++LINGYCK  ++E A+ LY  ML  G +PDV  Y  L   LF+  +V  A KL
Sbjct: 372 PDVICYTVLINGYCKTSKVEEAMKLYNGMLQVGKRPDVKTYGALLTGLFQGGKVGDAKKL 431

Query: 343 FDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
           F  M+  G+  D + Y  F++GLCKN  + EA+ELF  L+    +LDI  +NCLIDGL
Sbjct: 432 FGVMKVYGIPGDLYIYGIFLNGLCKNGCLFEAMELFNKLKSYNIKLDIECFNCLIDGL 489

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255559961|ref|XP_002520999.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223539836|gb|EEF41416.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  343 bits (881), Expect = 7e-92,   Method: Compositional matrix adjust.
 Identities = 182/418 (43%), Positives = 261/418 (62%), Gaps = 32/418 (7%)

Query: 4   FDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFC 63
           F+ M++M+ +P  +  FN LFG LAK K Y  V+S+  R+NS GL  +  + NIL+NC C
Sbjct: 95  FNQMIHMQTTPA-LSRFNNLFGALAKKKQYLHVISMCGRMNSIGLLKNFISLNILLNCLC 153

Query: 64  KMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVF 123
            + RV  GFVV G ILR  + PN  TFT+L+KGLC E +I EA  +F  + VF C P+  
Sbjct: 154 SVKRVFEGFVVFGMILRKGYRPNTRTFTNLVKGLCLEGKIGEAVRVFKIMGVFDCRPSAI 213

Query: 124 TYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV------------------EGFVDKAK 165
           T   LI+GL RTG+T  AL L E M +GN +FG+                  +G V++AK
Sbjct: 214 TCGVLISGLCRTGNTCNALKLHEAMINGNSDFGINCKPTVVSYSCIIDSLCKDGLVERAK 273

Query: 166 ELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDEL 225
           E F++MK++ I P+VVTYTS++ G C A++W EAK L IEM+D G+ P+VVTF+V++  L
Sbjct: 274 EFFVEMKEKGIFPNVVTYTSLLHGLCSASEWEEAKRLFIEMVDHGLLPDVVTFSVLIGAL 333

Query: 226 CKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTV 285
           CK GK+ EAS L DLM+Q  V P+   YN L++G+CL G V+  K++F+SM +  C H  
Sbjct: 334 CKVGKVKEASGLFDLMVQRYVEPSTRTYNILIEGYCLAGMVDEGKKIFLSMVNKRCQHDA 393

Query: 286 FSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDE 345
            SYSIL+  YCK+ E+ GA+ LY EM+ +GI+P V+ Y+          +V  A KLF E
Sbjct: 394 GSYSILMKAYCKDSEVHGAMILYREMMDRGIQPTVITYS----------KVGDARKLFGE 443

Query: 346 MQRDGVAADTWTYR---TFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
           +Q   +  D+ +Y     ++DGLCKN  + EA+++F  L   K   ++  +N LI+G+
Sbjct: 444 IQFQDMVLDSISYSIYNVYLDGLCKNGCVSEALDVFYGLENCKFASNVAIFNSLINGM 501

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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 =  342 bits (878), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 178/382 (46%), Positives = 240/382 (62%), Gaps = 17/382 (4%)

Query: 19  SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRI 78
           SFN L   LAK +HY  V SL+K+++  GL+PDL T NILINC C + R++ G   +  I
Sbjct: 93  SFNRLLAGLAKIEHYSQVFSLYKQMHLAGLWPDLLTLNILINCLCNVNRINEGLAAMAGI 152

Query: 79  LRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHT 138
           +R  + P+ VTFT+LIKGLC E RI+EA  LF +++  GC PNV TY TLI GL   G+ 
Sbjct: 153 MRRGYIPDVVTFTTLIKGLCVEHRIIEATKLFMRMQKLGCTPNVVTYGTLIKGLCALGNI 212

Query: 139 IVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNE 198
            +AL   +EM +           D +  +F      N  P+V++Y+ +I G C   +W E
Sbjct: 213 NIALKWHQEMLN-----------DTSPYVF------NCRPNVISYSIIIDGLCKVGNWEE 255

Query: 199 AKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMD 258
           A CL  EM+DQGVQPNVVTF+V++D LCK G++ +A +LL++MIQIG+ PN F Y +L+ 
Sbjct: 256 AICLFNEMVDQGVQPNVVTFSVLIDMLCKEGQVIKAKKLLEMMIQIGIVPNLFTYTSLIK 315

Query: 259 GFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKP 318
           GFCL G +N AKELFVSM S G    V SY++LINGYCK  ++E A+ L+ EML  G+ P
Sbjct: 316 GFCLVGDLNSAKELFVSMPSKGYEPDVISYNMLINGYCKTLKVEEAMKLFNEMLHVGMWP 375

Query: 319 DVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELF 378
           DV     L   LF   +V+ A +LF  ++   +  D      F+DGLCKN YI EA++LF
Sbjct: 376 DVKTSGVLLKALFLAGKVDDAKELFRVIKPYAMPKDLCICCIFLDGLCKNGYIFEAMKLF 435

Query: 379 RTLRILKCELDIRAYNCLIDGL 400
             L     +LDI  + CLIDGL
Sbjct: 436 NELESYNMKLDIETFGCLIDGL 457

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 =  335 bits (859), Expect = 3e-89,   Method: Compositional matrix adjust.
 Identities = 177/406 (43%), Positives = 249/406 (61%), Gaps = 28/406 (6%)

Query: 6   YMLNMRPSP-PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCK 64
           + L MR +P P + SFN L   LAK KHY  V SL+ ++  +GL  D  T NIL+NC C 
Sbjct: 57  FHLMMRSTPTPSLSSFNHLLSGLAKIKHYSQVFSLYNQMRLSGLSSDRCTLNILLNCLCN 116

Query: 65  MGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFT 124
           + R+  GF     ILR  ++PN VT+ +LIKGLC E RI EA  LF +++  GC P+V T
Sbjct: 117 VNRLREGFAAFAGILRRGYSPNIVTYNTLIKGLCMEHRISEATRLFLRMQKLGCTPDVVT 176

Query: 125 YNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYT 184
           Y TLI GL  TG+  +AL L +EM +    + +                 N  P+V+TY 
Sbjct: 177 YGTLIKGLCGTGNINIALKLHQEMLNDISRYEI-----------------NCKPNVITYN 219

Query: 185 SVIRGFCYANDWNEAKCLLI----------EMMDQGVQPNVVTFNVIMDELCKNGKMDEA 234
            ++ G C     +EAK L            EM+DQG+QP++VTFNV++D LCK GK+ EA
Sbjct: 220 IIVDGLCKVGREDEAKQLFEEMKTQGMIPNEMLDQGLQPDMVTFNVLIDTLCKEGKVIEA 279

Query: 235 SRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILING 294
            +LL +MI+ G+ P+   YN+L++GFC+ G +N A+ELFVSM S GC   V SY++LING
Sbjct: 280 KKLLGVMIESGIVPDLVTYNSLIEGFCMVGDLNSARELFVSMPSKGCEPDVISYNVLING 339

Query: 295 YCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAAD 354
           Y K  ++E A+ LY EML  G +P+V+ Y++L   +F   +V+ A KLF  M+  G+A +
Sbjct: 340 YSKTLKVEEAMKLYNEMLLVGKRPNVITYDSLLKGIFLAGKVDDAKKLFSVMKAHGIAEN 399

Query: 355 TWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
           ++TY  F+DGLCKN  + EA++LF  L+    +L+I   NCLIDGL
Sbjct: 400 SYTYGIFLDGLCKNDCLFEAMKLFTELKSSNFKLEIENLNCLIDGL 445

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 =  326 bits (836), Expect = 1e-86,   Method: Compositional matrix adjust.
 Identities = 169/384 (44%), Positives = 233/384 (60%), Gaps = 17/384 (4%)

Query: 17  VCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLG 76
           + SFN+L G LAK KHY  V SL+K+++  GL P+ +T NILINC C + RV  G   + 
Sbjct: 91  IISFNLLLGALAKIKHYSQVFSLYKKMHLAGLSPNFFTLNILINCLCNVNRVREGLSAMA 150

Query: 77  RILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTG 136
            I+R  + P+ VT+TSLIKGLC E RI EA  LF +++  GC PNV TY TLI GL RTG
Sbjct: 151 GIMRRGYIPDVVTYTSLIKGLCMEHRISEATRLFIRMQKLGCWPNVVTYGTLIKGLCRTG 210

Query: 137 HTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDW 196
           +  +AL L +EM +G   + +                 N  P++ +Y  +I   C    W
Sbjct: 211 NINLALKLHQEMLNGTSPYAI-----------------NCKPNIFSYNIIIDELCKIGKW 253

Query: 197 NEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTL 256
            EAK L  EM+DQGV+P+VVTF+ ++D LCK G + EA + L+ M+  G+ P+ F + +L
Sbjct: 254 KEAKRLFNEMVDQGVRPDVVTFSALIDTLCKEGMVIEAKKFLETMMLRGIVPDLFTFTSL 313

Query: 257 MDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGI 316
           ++GFCL G ++ AKELF+SM S G    V SY++LI GYCK   +E A+ LY EML  G 
Sbjct: 314 IEGFCLVGDLDSAKELFLSMPSKGYEPDVISYTVLIYGYCKTFNVEEAMKLYNEMLRVGK 373

Query: 317 KPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVE 376
            PD+  +  L   LF   +V  A KLF  ++   V  + +    F+DGLCKN  + EA+E
Sbjct: 374 WPDMKTFCVLLKGLFLAGKVGDAKKLFGVVKPHAVPKNLYICSVFLDGLCKNGCLFEAME 433

Query: 377 LFRTLRILKCELDIRAYNCLIDGL 400
           LF  L+    +LDI ++NCLIDGL
Sbjct: 434 LFNELKSYNMKLDIESFNCLIDGL 457

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225451354|ref|XP_002275019.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g12700, mitochondrial-like [Vitis vinifera]

 Score =  313 bits (803), Expect = 8e-83,   Method: Compositional matrix adjust.
 Identities = 169/409 (41%), Positives = 236/409 (57%), Gaps = 13/409 (3%)

Query: 4   FDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFC 63
           F+ +L+M P PP +  F  L   +AK KHY TVLSL  +++S G+ P++YT NILIN FC
Sbjct: 44  FNRLLHMHP-PPSIVDFAKLLTSIAKMKHYSTVLSLSTQMDSFGVPPNVYTLNILINSFC 102

Query: 64  KMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVF 123
            + RV   F VL +IL+    P+  TFT+LI+GLC E +I EA  LF K+   G +PNV 
Sbjct: 103 HLNRVGFAFSVLAKILKLGHQPDPTTFTTLIRGLCVEGKIGEALHLFDKMIDEGFQPNVV 162

Query: 124 TYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV------------EGFVDKAKELFLQM 171
           TY TLINGL + G+T  A+ L   M  GN +  V            +  V +A  LF QM
Sbjct: 163 TYGTLINGLCKVGNTSAAIRLLRSMEQGNCQPDVVIYTSIIDSLCKDRQVTEAFNLFSQM 222

Query: 172 KDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKM 231
             + I+PD+ TYTS++   C   +W     LL +M++  + P+VV F+ ++D LCK GK+
Sbjct: 223 VGQGISPDIFTYTSLVHALCNLCEWKHVTTLLNQMVNSKILPDVVIFSTVVDALCKEGKV 282

Query: 232 DEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSIL 291
            EA  ++D+MIQ GV P+   Y TLMDG CL   ++ A ++F  M   G    V SY+ L
Sbjct: 283 TEAHEIVDMMIQRGVEPDVVTYTTLMDGHCLQSEMDEAVKVFDMMVRKGFAPDVISYTTL 342

Query: 292 INGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGV 351
           INGYCK  +I+ A+ L+ EM  K   PD   YNTL   L  + +++ A  LF EM   G 
Sbjct: 343 INGYCKIHKIDKAMYLFEEMCRKEWIPDTKTYNTLMHGLCHVGRLQDAIALFHEMVARGQ 402

Query: 352 AADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
             D  TY   +D LCKN ++ EA+ L + +       DI+ YN +IDG+
Sbjct: 403 MPDLVTYSILLDSLCKNCHLEEAMALLKAIEASNLNPDIQVYNIIIDGM 451

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	400
TAIR|locus:2015228	614	AT1G63080 [Arabidopsis thalian	0.955	0.622	0.355	1.9e-67
TAIR|locus:2015494	629	RPF3 "RNA processing factor 3"	0.982	0.624	0.359	4e-67
TAIR|locus:2203916	634	AT1G62590 [Arabidopsis thalian	0.955	0.602	0.355	1.1e-66
TAIR|locus:2015208	630	AT1G63130 [Arabidopsis thalian	0.955	0.606	0.350	1.2e-65
TAIR|locus:2031301	577	AT1G63400 [Arabidopsis thalian	0.955	0.662	0.340	2.9e-64
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.955	0.606	0.337	1.6e-63
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.955	0.617	0.345	3e-62
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.992	0.616	0.326	9e-61
TAIR|locus:2034760	637	AT1G12300 [Arabidopsis thalian	0.992	0.623	0.339	1.5e-60
TAIR|locus:2015213	629	AT1G63150 [Arabidopsis thalian	0.955	0.607	0.324	3.1e-60

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

 Score = 685 (246.2 bits), Expect = 1.9e-67, P = 1.9e-67
 Identities = 140/394 (35%), Positives = 223/394 (56%)

Query:    19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRI 78
             ++NI+  CL +       L++  ++   G  P + T N L+N FC   R+S    ++ ++
Sbjct:   102 TYNIMINCLCRRSQLSFALAILGKMMKLGYGPSIVTLNSLLNGFCHGNRISEAVALVDQM 161

Query:    79 LRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHT 138
             +   + P+ VTFT+L+ GL   ++  EA AL  ++ V GC+P++ TY  +INGL + G  
Sbjct:   162 VEMGYQPDTVTFTTLVHGLFQHNKASEAVALVERMVVKGCQPDLVTYGAVINGLCKRGEP 221

Query:   139 IVALNLFEEMASGNGEFGVEGF------------VDKAKELFLQMKDENINPDVVTYTSV 186
              +ALNL  +M  G  E  V  +            VD A  LF +M ++ I PDV TY+S+
Sbjct:   222 DLALNLLNKMEKGKIEADVVIYSTVIDSLCKYRHVDDALNLFTEMDNKGIRPDVFTYSSL 281

Query:   187 IRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV 246
             I   C    W++A  LL +M+++ + PNVVTFN ++D   K GK+ EA +L D MIQ  +
Sbjct:   282 ISCLCNYGRWSDASRLLSDMLERKINPNVVTFNSLIDAFAKEGKLIEAEKLFDEMIQRSI 341

Query:   247 RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALS 306
              PN   YN+L++GFC+  R++ A+++F  M S  C   V +Y+ LING+CK K++   + 
Sbjct:   342 DPNIVTYNSLINGFCMHDRLDEAQQIFTLMVSKDCLPDVVTYNTLINGFCKAKKVVDGME 401

Query:   307 LYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLC 366
             L+ +M  +G+  + V Y TL    F+    + A  +F +M  DGV  +  TY T +DGLC
Sbjct:   402 LFRDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQMVFKQMVSDGVHPNIMTYNTLLDGLC 461

Query:   367 KNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
             KN  + +A+ +F  L+  K E DI  YN + +G+
Sbjct:   462 KNGKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGM 495

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 682 (245.1 bits), Expect = 4.0e-67, P = 4.0e-67
 Identities = 146/406 (35%), Positives = 231/406 (56%)

Query:     7 MLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMG 66
             M N+R S   + S+NIL  C  +       L++  ++   G  PD+ T + L+N +C   
Sbjct:   106 MQNLRISYD-LYSYNILINCFCRRSQLPLALAVLGKMMKLGYEPDIVTLSSLLNGYCHGK 164

Query:    67 RVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYN 126
             R+S    ++ ++    + PN VTF +LI GL   ++  EA AL  ++   GC+P++FTY 
Sbjct:   165 RISEAVALVDQMFVMEYQPNTVTFNTLIHGLFLHNKASEAVALIDRMVARGCQPDLFTYG 224

Query:   127 TLINGLYRTGHTIVALNLFEEMASGNGEFGVEGF------------VDKAKELFLQMKDE 174
             T++NGL + G   +AL+L ++M  G  E  V  +            V+ A  LF +M ++
Sbjct:   225 TVVNGLCKRGDIDLALSLLKKMEKGKIEADVVIYTTIIDALCNYKNVNDALNLFTEMDNK 284

Query:   175 NINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEA 234
              I P+VVTY S+IR  C    W++A  LL +M+++ + PNVVTF+ ++D   K GK+ EA
Sbjct:   285 GIRPNVVTYNSLIRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEA 344

Query:   235 SRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILING 294
              +L D MI+  + P+ F Y++L++GFC+  R++ AK +F  M S  C   V +Y+ LI G
Sbjct:   345 EKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKG 404

Query:   295 YCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAAD 354
             +CK K +E  + L+ EM  +G+  + V YNTL   LF+    + A K+F +M  DGV  D
Sbjct:   405 FCKAKRVEEGMELFREMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPD 464

Query:   355 TWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
               TY   +DGLCK   + +A+ +F  L+  K E DI  YN +I+G+
Sbjct:   465 IITYSILLDGLCKYGKLEKALVVFEYLQKSKMEPDIYTYNIMIEGM 510

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006397 "mRNA processing" evidence=IMP

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

 Score = 678 (243.7 bits), Expect = 1.1e-66, P = 1.1e-66
 Identities = 140/394 (35%), Positives = 224/394 (56%)

Query:    19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRI 78
             ++NIL  C  +       L+L  ++   G  P + T + L+N +C   R+S    ++ ++
Sbjct:   122 TYNILINCFCRRSQISLALALLGKMMKLGYEPSIVTLSSLLNGYCHGKRISDAVALVDQM 181

Query:    79 LRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHT 138
             +   + P+ +TFT+LI GL   ++  EA AL  ++   GC+PN+ TY  ++NGL + G T
Sbjct:   182 VEMGYRPDTITFTTLIHGLFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGDT 241

Query:   139 IVALNLFEEMASGNGEFGVEGF------------VDKAKELFLQMKDENINPDVVTYTSV 186
              +ALNL  +M +   E  V  F            VD A  LF +M+ + I P+VVTY+S+
Sbjct:   242 DLALNLLNKMEAAKIEADVVIFNTIIDSLCKYRHVDDALNLFKEMETKGIRPNVVTYSSL 301

Query:   187 IRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV 246
             I   C    W++A  LL +M+++ + PN+VTFN ++D   K GK  EA +L D MI+  +
Sbjct:   302 ISCLCSYGRWSDASQLLSDMIEKKINPNLVTFNALIDAFVKEGKFVEAEKLYDDMIKRSI 361

Query:   247 RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALS 306
              P+ F YN+L++GFC+  R+++AK++F  M S  C   V +Y+ LI G+CK+K +E    
Sbjct:   362 DPDIFTYNSLVNGFCMHDRLDKAKQMFEFMVSKDCFPDVVTYNTLIKGFCKSKRVEDGTE 421

Query:   307 LYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLC 366
             L+ EM  +G+  D V Y TL   LF     + A K+F +M  DGV  D  TY   +DGLC
Sbjct:   422 LFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDGVPPDIMTYSILLDGLC 481

Query:   367 KNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
              N  + +A+E+F  ++  + +LDI  Y  +I+G+
Sbjct:   482 NNGKLEKALEVFDYMQKSEIKLDIYIYTTMIEGM 515

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 668 (240.2 bits), Expect = 1.2e-65, P = 1.2e-65
 Identities = 138/394 (35%), Positives = 224/394 (56%)

Query:    19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRI 78
             +++IL  C  +       L++  ++   G  PD+ T N L+N FC   R+S    ++G++
Sbjct:   118 TYSILINCFCRRSQLSLALAVLAKMMKLGYEPDIVTLNSLLNGFCHGNRISDAVSLVGQM 177

Query:    79 LRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHT 138
             +   + P++ TF +LI GL   +R  EA AL  ++ V GC+P++ TY  ++NGL + G  
Sbjct:   178 VEMGYQPDSFTFNTLIHGLFRHNRASEAVALVDRMVVKGCQPDLVTYGIVVNGLCKRGDI 237

Query:   139 IVALNLFEEMASGNGEFGVEGF------------VDKAKELFLQMKDENINPDVVTYTSV 186
              +AL+L ++M  G  E GV  +            V+ A  LF +M ++ I P+VVTY S+
Sbjct:   238 DLALSLLKKMEQGKIEPGVVIYNTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSL 297

Query:   187 IRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV 246
             IR  C    W++A  LL +M+++ + PNVVTF+ ++D   K GK+ EA +L D MI+  +
Sbjct:   298 IRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSI 357

Query:   247 RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALS 306
              P+ F Y++L++GFC+  R++ AK +F  M S  C   V +Y+ LI G+CK K ++  + 
Sbjct:   358 DPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVDEGME 417

Query:   307 LYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLC 366
             L+ EM  +G+  + V Y TL    F+  + + A  +F +M  DGV  D  TY   +DGLC
Sbjct:   418 LFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQMVSDGVLPDIMTYSILLDGLC 477

Query:   367 KNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
              N  +  A+ +F  L+  K E DI  YN +I+G+
Sbjct:   478 NNGKVETALVVFEYLQRSKMEPDIYTYNIMIEGM 511

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 655 (235.6 bits), Expect = 2.9e-64, P = 2.9e-64
 Identities = 134/394 (34%), Positives = 221/394 (56%)

Query:    19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRI 78
             ++NIL  C  +       L+L  ++   G  P + T + L+N +C   R+S    ++ ++
Sbjct:   122 TYNILINCFCRRSQISLALALLGKMMKLGYEPSIVTLSSLLNGYCHGKRISDAVALVDQM 181

Query:    79 LRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHT 138
             +   + P+ +TFT+LI GL   ++  EA AL  ++   GC+PN+ TY  ++NGL + G  
Sbjct:   182 VEMGYRPDTITFTTLIHGLFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGDI 241

Query:   139 IVALNLFEEMASGNGEFGVEGFV------------DKAKELFLQMKDENINPDVVTYTSV 186
              +A NL  +M +   E  V  +             D A  LF +M+++ + P+V+TY+S+
Sbjct:   242 DLAFNLLNKMEAAKIEANVVIYSTVIDSLCKYRHEDDALNLFTEMENKGVRPNVITYSSL 301

Query:   187 IRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV 246
             I   C    W++A  LL +M+++ + PNVVTFN ++D   K GK+ EA +L D MI+  +
Sbjct:   302 ISCLCNYERWSDASRLLSDMIERKINPNVVTFNALIDAFVKEGKLVEAEKLYDEMIKRSI 361

Query:   247 RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALS 306
              P+ F Y++L++GFC+  R++ AK +F  M S  C   V +Y+ LING+CK K I+  + 
Sbjct:   362 DPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLINGFCKAKRIDEGVE 421

Query:   307 LYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLC 366
             L+ EM  +G+  + V Y TL    F+    + A  +F +M  DGV  +  TY T +DGLC
Sbjct:   422 LFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSDGVHPNIMTYNTLLDGLC 481

Query:   367 KNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
             KN  + +A+ +F  L+  K E  I  YN +I+G+
Sbjct:   482 KNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGM 515

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 648 (233.2 bits), Expect = 1.6e-63, P = 1.6e-63
 Identities = 133/394 (33%), Positives = 224/394 (56%)

Query:    19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRI 78
             +++IL  C  +       L++  ++   G  P++ T + L+N +C   R+S    ++ ++
Sbjct:   118 TYSILINCFCRRSQLPLALAVLGKMMKLGYEPNIVTLSSLLNGYCHSKRISEAVALVDQM 177

Query:    79 LRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHT 138
               + + PN VTF +LI GL   ++  EA AL  ++   GC+P++ TY  ++NGL + G T
Sbjct:   178 FVTGYQPNTVTFNTLIHGLFLHNKASEAMALIDRMVAKGCQPDLVTYGVVVNGLCKRGDT 237

Query:   139 IVALNLFEEMASGNGEFGV-------EGF-----VDKAKELFLQMKDENINPDVVTYTSV 186
              +A NL  +M  G  E GV       +G      +D A  LF +M+ + I P+VVTY+S+
Sbjct:   238 DLAFNLLNKMEQGKLEPGVLIYNTIIDGLCKYKHMDDALNLFKEMETKGIRPNVVTYSSL 297

Query:   187 IRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV 246
             I   C    W++A  LL +M+++ + P+V TF+ ++D   K GK+ EA +L D M++  +
Sbjct:   298 ISCLCNYGRWSDASRLLSDMIERKINPDVFTFSALIDAFVKEGKLVEAEKLYDEMVKRSI 357

Query:   247 RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALS 306
              P+   Y++L++GFC+  R++ AK++F  M S  C   V +Y+ LI G+CK K +E  + 
Sbjct:   358 DPSIVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEEGME 417

Query:   307 LYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLC 366
             ++ EM  +G+  + V YN L   LF+    + A ++F EM  DGV  +  TY T +DGLC
Sbjct:   418 VFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDGLC 477

Query:   367 KNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
             KN  + +A+ +F  L+  K E  I  YN +I+G+
Sbjct:   478 KNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGM 511

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

GO:0003723 "RNA binding" evidence=IDA

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

 Score = 636 (228.9 bits), Expect = 3.0e-62, P = 3.0e-62
 Identities = 136/394 (34%), Positives = 218/394 (55%)

Query:    19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRI 78
             +  I+  C  + K      S+  R    G  PD  T++ L+N FC  GRVS    ++ R+
Sbjct:   107 TMTIMINCYCRKKKLLFAFSVLGRAWKLGYEPDTITFSTLVNGFCLEGRVSEAVALVDRM 166

Query:    79 LRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHT 138
             +     P+ VT ++LI GLC + R+ EA  L  ++  +G +P+  TY  ++N L ++G++
Sbjct:   167 VEMKQRPDLVTVSTLINGLCLKGRVSEALVLIDRMVEYGFQPDEVTYGPVLNRLCKSGNS 226

Query:   139 IVALNLFEEMASGNGEFGV------------EGFVDKAKELFLQMKDENINPDVVTYTSV 186
              +AL+LF +M   N +  V            +G  D A  LF +M+ + I  DVVTY+S+
Sbjct:   227 ALALDLFRKMEERNIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSL 286

Query:   187 IRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV 246
             I G C    W++   +L EM+ + + P+VVTF+ ++D   K GK+ EA  L + MI  G+
Sbjct:   287 IGGLCNDGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGI 346

Query:   247 RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALS 306
              P+   YN+L+DGFC    ++ A ++F  M S GC   + +YSILIN YCK K ++  + 
Sbjct:   347 APDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMR 406

Query:   307 LYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLC 366
             L+ E+ SKG+ P+ + YNTL +   +  ++  A +LF EM   GV     TY   +DGLC
Sbjct:   407 LFREISSKGLIPNTITYNTLVLGFCQSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLC 466

Query:   367 KNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
              N  + +A+E+F  ++  +  L I  YN +I G+
Sbjct:   467 DNGELNKALEIFEKMQKSRMTLGIGIYNIIIHGM 500

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:1009023134 AT1G12775 [Arabidopsis thaliana (taxid:3702)]

 Score = 622 (224.0 bits), Expect = 9.0e-61, P = 9.0e-61
 Identities = 134/410 (32%), Positives = 221/410 (53%)

Query:     3 IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCF 62
             +F  M+  RP P  V  FN LF  +AK K Y+ VL+L K++ S G+   +YT +I+INCF
Sbjct:    75 LFRDMIQSRPLPT-VIDFNRLFSAIAKTKQYELVLALCKQMESKGIAHSIYTLSIMINCF 133

Query:    63 CKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNV 122
             C+  ++S+ F  +G+I++  + P+ V F +L+ GLC E R+ EA  L  ++   G +P +
Sbjct:   134 CRCRKLSYAFSTMGKIMKLGYEPDTVIFNTLLNGLCLECRVSEALELVDRMVEMGHKPTL 193

Query:   123 FTYNTLINGLYRTGHTIVALNLFEEMASGNGE-----FGV-------EGFVDKAKELFLQ 170
              T NTL+NGL   G    A+ L + M     +     +G         G    A EL  +
Sbjct:   194 ITLNTLVNGLCLNGKVSDAVVLIDRMVETGFQPNEVTYGPVLNVMCKSGQTALAMELLRK 253

Query:   171 MKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGK 230
             M++ NI  D V Y+ +I G C     + A  L  EM  +G + +++T+N ++   C  G+
Sbjct:   254 MEERNIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGR 313

Query:   231 MDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSI 290
              D+ ++LL  MI+  + PN   ++ L+D F   G++  A +L   M   G      +Y+ 
Sbjct:   314 WDDGAKLLRDMIKRKISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAPNTITYNS 373

Query:   291 LINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDG 350
             LI+G+CK   +E A+ +   M+SKG  PD++ +N L     + ++++   +LF EM   G
Sbjct:   374 LIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILINGYCKANRIDDGLELFREMSLRG 433

Query:   351 VAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
             V A+T TY T + G C++  +  A +LF+ +   +   DI +Y  L+DGL
Sbjct:   434 VIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRVRPDIVSYKILLDGL 483

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 620 (223.3 bits), Expect = 1.5e-60, P = 1.5e-60
 Identities = 139/410 (33%), Positives = 224/410 (54%)

Query:     3 IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCF 62
             +F  M++ RP P  V  F+ LF  +AK K YD VL+L K++   G+  +LYT +I+INCF
Sbjct:    75 LFRDMIHSRPLPT-VIDFSRLFSAIAKTKQYDLVLALCKQMELKGIAHNLYTLSIMINCF 133

Query:    63 CKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNV 122
             C+  ++   F  +G+I++  + PN +TF++LI GLC E R+ EA  L  ++   G +P++
Sbjct:   134 CRCRKLCLAFSAMGKIIKLGYEPNTITFSTLINGLCLEGRVSEALELVDRMVEMGHKPDL 193

Query:   123 FTYNTLINGLYRTGHTIVALNLFEEMAS-G---NG-EFGV-------EGFVDKAKELFLQ 170
              T NTL+NGL  +G    A+ L ++M   G   N   +G         G    A EL  +
Sbjct:   194 ITINTLVNGLCLSGKEAEAMLLIDKMVEYGCQPNAVTYGPVLNVMCKSGQTALAMELLRK 253

Query:   171 MKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGK 230
             M++ NI  D V Y+ +I G C     + A  L  EM  +G+  N++T+N+++   C  G+
Sbjct:   254 MEERNIKLDAVKYSIIIDGLCKHGSLDNAFNLFNEMEMKGITTNIITYNILIGGFCNAGR 313

Query:   231 MDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSI 290
              D+ ++LL  MI+  + PN   ++ L+D F   G++  A+EL   M   G      +Y+ 
Sbjct:   314 WDDGAKLLRDMIKRKINPNVVTFSVLIDSFVKEGKLREAEELHKEMIHRGIAPDTITYTS 373

Query:   291 LINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDG 350
             LI+G+CK   ++ A  +   M+SKG  P++  +N L     + ++++   +LF +M   G
Sbjct:   374 LIDGFCKENHLDKANQMVDLMVSKGCDPNIRTFNILINGYCKANRIDDGLELFRKMSLRG 433

Query:   351 VAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
             V ADT TY T I G C+   +  A ELF+ +   K   +I  Y  L+DGL
Sbjct:   434 VVADTVTYNTLIQGFCELGKLNVAKELFQEMVSRKVPPNIVTYKILLDGL 483

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2015213 AT1G63150 [Arabidopsis thaliana (taxid:3702)]

 Score = 617 (222.3 bits), Expect = 3.1e-60, P = 3.1e-60
 Identities = 128/394 (32%), Positives = 217/394 (55%)

Query:    19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRI 78
             +++I   C  +       L++  ++   G  PD+ T + L+N +C   R+S    ++ ++
Sbjct:   120 TYSIFINCFCRRSQLSLALAVLAKMMKLGYEPDIVTLSSLLNGYCHSKRISDAVALVDQM 179

Query:    79 LRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHT 138
             +   + P+  TFT+LI GL   ++  EA AL  ++   GC+P++ TY T++NGL + G  
Sbjct:   180 VEMGYKPDTFTFTTLIHGLFLHNKASEAVALVDQMVQRGCQPDLVTYGTVVNGLCKRGDI 239

Query:   139 IVALNLFEEMASGNGEFGVEGF------------VDKAKELFLQMKDENINPDVVTYTSV 186
              +ALNL  +M +   +  V  F            V+ A +LF +M+ + I P+VVTY S+
Sbjct:   240 DLALNLLNKMEAARIKANVVIFNTIIDSLCKYRHVEVAVDLFTEMETKGIRPNVVTYNSL 299

Query:   187 IRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV 246
             I   C    W++A  LL  M+++ + PNVVTFN ++D   K GK+ EA +L + MIQ  +
Sbjct:   300 INCLCNYGRWSDASRLLSNMLEKKINPNVVTFNALIDAFFKEGKLVEAEKLHEEMIQRSI 359

Query:   247 RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALS 306
              P+   YN L++GFC+  R++ AK++F  M S  C   + +Y+ LING+CK K +E  + 
Sbjct:   360 DPDTITYNLLINGFCMHNRLDEAKQMFKFMVSKDCLPNIQTYNTLINGFCKCKRVEDGVE 419

Query:   307 LYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLC 366
             L+ EM  +G+  + V Y T+    F+    + A  +F +M  + V  D  TY   + GLC
Sbjct:   420 LFREMSQRGLVGNTVTYTTIIQGFFQAGDCDSAQMVFKQMVSNRVPTDIMTYSILLHGLC 479

Query:   367 KNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
                 +  A+ +F+ L+  + EL+I  YN +I+G+
Sbjct:   480 SYGKLDTALVIFKYLQKSEMELNIFIYNTMIEGM 513

GO:0005739 "mitochondrion" evidence=ISM

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	400
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-34
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-19
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-16
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-16
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-15
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-15
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-15
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-15
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-13
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-11
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-11
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-10
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-09
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-09
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-09
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-08
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	8e-07
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	9e-07
pfam01535	31	pfam01535, PPR, PPR repeat	1e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	5e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	5e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-05
pfam01535	31	pfam01535, PPR, PPR repeat	7e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-04
pfam01535	31	pfam01535, PPR, PPR repeat	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-04
pfam01535	31	pfam01535, PPR, PPR repeat	6e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	7e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.003
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.004

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

 Score =  134 bits (338), Expect = 4e-34
 Identities = 92/376 (24%), Positives = 164/376 (43%), Gaps = 27/376 (7%)

Query: 15  PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVV 74
           P + +FN+L    A ++  D  L + + +   GL  D   Y  LI+   K G+V   F V
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 75  LGRILRSCFTPNAVTFTSLIKGLCAES-RIMEAAALFTKLRVFGCEPNVFTYNTLINGLY 133
              ++ +    N  TF +LI G CA + ++ +A   +  +R    +P+   +N LI+   
Sbjct: 495 FHEMVNAGVEANVHTFGALIDG-CARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACG 553

Query: 134 RTGHTIVALNLFEEM-------------------ASGNGEFGVEGFVDKAKELFLQMKDE 174
           ++G    A ++  EM                   A  N      G VD+AKE++  + + 
Sbjct: 554 QSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANA-----GQVDRAKEVYQMIHEY 608

Query: 175 NINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEA 234
           NI      YT  +       DW+ A  +  +M  +GV+P+ V F+ ++D     G +D+A
Sbjct: 609 NIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKA 668

Query: 235 SRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILING 294
             +L    + G++     Y++LM          +A EL+  ++S+    TV + + LI  
Sbjct: 669 FEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITA 728

Query: 295 YCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAAD 354
            C+  ++  AL +  EM   G+ P+ + Y+ L V        +    L  + + DG+  +
Sbjct: 729 LCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPN 788

Query: 355 TWTYRTFIDGLCKNSY 370
               R  I GLC   +
Sbjct: 789 LVMCRC-ITGLCLRRF 803

Length = 1060

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

 Score = 91.1 bits (226), Expect = 1e-19
 Identities = 80/329 (24%), Positives = 148/329 (44%), Gaps = 45/329 (13%)

Query: 84  TPNAVTFTSLIKGLCAESRIMEAAALFTKLRVF------GCEPNVFTYNTLINGLYRTGH 137
            P   TF  L+  +CA S+ ++ A     LRV       G + +   Y TLI+   ++G 
Sbjct: 434 NPTLSTFNMLMS-VCASSQDIDGA-----LRVLRLVQEAGLKADCKLYTTLISTCAKSGK 487

Query: 138 TIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWN 197
                                  VD   E+F +M +  +  +V T+ ++I G   A    
Sbjct: 488 -----------------------VDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVA 524

Query: 198 EAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIG-----VRPNAFV 252
           +A      M  + V+P+ V FN ++    ++G +D   R  D++ ++      + P+   
Sbjct: 525 KAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVD---RAFDVLAEMKAETHPIDPDHIT 581

Query: 253 YNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEML 312
              LM      G+V+RAKE++  +       T   Y+I +N   +  + + ALS+Y +M 
Sbjct: 582 VGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMK 641

Query: 313 SKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIV 372
            KG+KPD V ++ L  V      +++AF++  + ++ G+   T +Y + + G C N+   
Sbjct: 642 KKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLM-GACSNAKNW 700

Query: 373 E-AVELFRTLRILKCELDIRAYNCLIDGL 400
           + A+EL+  ++ +K    +   N LI  L
Sbjct: 701 KKALELYEDIKSIKLRPTVSTMNALITAL 729

Length = 1060

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

 Score = 72.1 bits (178), Expect = 2e-16
 Identities = 22/49 (44%), Positives = 36/49 (73%)

Query: 213 PNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFC 261
           P+VVT+N ++D  CK GK++EA +L + M + G++PN + Y+ L+DG C
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 79.1 bits (195), Expect = 7e-16
 Identities = 87/404 (21%), Positives = 155/404 (38%), Gaps = 80/404 (19%)

Query: 37  LSLFKRLNSTGLFPDLYTYNILINCFCKM------GRVSHGFVVLGRILRSCFTPNAVTF 90
           L LF  +    + PDL T   +I+  C++      GR  HG+VV     ++ F  +    
Sbjct: 273 LELFFTMRELSVDPDLMTITSVISA-CELLGDERLGREMHGYVV-----KTGFAVDVSVC 326

Query: 91  TSLIKGLCAESRIMEAAALFTKLR----------VFGCEPNVF------TYNTL-INGLY 133
            SLI+   +     EA  +F+++           + G E N        TY  +  + + 
Sbjct: 327 NSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVS 386

Query: 134 ------------------------------RTGHT---IVALNLFEEMASGNGEFGVEGF 160
                                         R G     +VA  L E  +           
Sbjct: 387 PDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCK-------C 439

Query: 161 VDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNV 220
           +DKA E+F  + ++    DV+++TS+I G    N   EA     +M+   ++PN VT   
Sbjct: 440 IDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIA 494

Query: 221 IMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMG 280
            +    + G +     +   +++ G+  + F+ N L+D +   GR+N A   F S     
Sbjct: 495 ALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNS----- 549

Query: 281 CTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAF 340
               V S++IL+ GY  + +   A+ L+  M+  G+ PD V + +L         V +  
Sbjct: 550 HEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGL 609

Query: 341 KLFDEMQRD-GVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI 383
           + F  M+    +  +   Y   +D L +   + EA      + I
Sbjct: 610 EYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPI 653

Length = 857

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

 Score = 79.2 bits (195), Expect = 1e-15
 Identities = 80/404 (19%), Positives = 150/404 (37%), Gaps = 85/404 (21%)

Query: 28  AKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRS-CFTPN 86
           AK+   D +  +F  + + G+  +++T+  LI+   + G+V+  F   G I+RS    P+
Sbjct: 483 AKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYG-IMRSKNVKPD 541

Query: 87  AVTFTSLIKGLCAESRIMEAAALFTKLRVFGCE-----PNVFTYNTLINGLYRTGHTIVA 141
            V F +LI   C +S  ++ A  F  L     E     P+  T   L+      G    A
Sbjct: 542 RVVFNALISA-CGQSGAVDRA--FDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRA 598

Query: 142 LNLFEEM--------------------ASGNGEF-------------------------- 155
             +++ +                      G+ +F                          
Sbjct: 599 KEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDV 658

Query: 156 -GVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPN 214
            G  G +DKA E+    + + I    V+Y+S++     A +W +A  L  ++    ++P 
Sbjct: 659 AGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPT 718

Query: 215 VVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFV 274
           V T N ++  LC+  ++ +A  +L  M ++G+ PN   Y+ L+         +   +L  
Sbjct: 719 VSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLS 778

Query: 275 SMESMGCTHTVFSYSILINGYCK------------------------NKEIEGALSLYGE 310
             +  G    +     +  G C                         NK    AL +Y E
Sbjct: 779 QAKEDGIKPNLVMCRCIT-GLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRE 837

Query: 311 MLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAAD 354
            +S G  P + + + +   L   H      +L + +   G++AD
Sbjct: 838 TISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENL---GISAD 878

Length = 1060

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

 Score = 77.6 bits (191), Expect = 2e-15
 Identities = 87/413 (21%), Positives = 155/413 (37%), Gaps = 83/413 (20%)

Query: 27  LAKNKHYDTVLSLFKRLNSTGLFP-DLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTP 85
           L     +   L LF+ L +   F     TY+ L+     +  +     V   +  S F P
Sbjct: 97  LVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEP 156

Query: 86  -----NAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEP--NVFTYNTLINGLYRTGHT 138
                N V    +  G+  ++R           R+F   P  N+ ++ T+I GL   G+ 
Sbjct: 157 DQYMMNRVLLMHVKCGMLIDAR-----------RLFDEMPERNLASWGTIIGGLVDAGNY 205

Query: 139 IVALNLFEEM--------------------ASGNGEFGVE-------------------- 158
             A  LF EM                      G+   G +                    
Sbjct: 206 REAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCAL 265

Query: 159 -------GFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGV 211
                  G ++ A+ +F  M ++      V + S++ G+       EA CL  EM D GV
Sbjct: 266 IDMYSKCGDIEDARCVFDGMPEKT----TVAWNSMLAGYALHGYSEEALCLYYEMRDSGV 321

Query: 212 QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNT-LMDGFCLTGRVNRAK 270
             +  TF++++    +   ++ A +    +I+ G  P   V NT L+D +   GR+  A+
Sbjct: 322 SIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF-PLDIVANTALVDLYSKWGRMEDAR 380

Query: 271 ELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVL 330
            +F  M        + S++ LI GY  +     A+ ++  M+++G+ P+ V   T   VL
Sbjct: 381 NVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHV---TFLAVL 433

Query: 331 FEIHQ---VERAFKLFDEMQRD-GVAADTWTYRTFIDGLCKNSYIVEAVELFR 379
                    E+ +++F  M  +  +      Y   I+ L +   + EA  + R
Sbjct: 434 SACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIR 486

Length = 697

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

 Score = 68.6 bits (169), Expect = 4e-15
 Identities = 23/50 (46%), Positives = 34/50 (68%)

Query: 178 PDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCK 227
           PDVVTY ++I G+C      EA  L  EM  +G++PNV T+++++D LCK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 67.8 bits (167), Expect = 7e-15
 Identities = 24/50 (48%), Positives = 33/50 (66%)

Query: 248 PNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCK 297
           P+   YNTL+DG+C  G+V  A +LF  M+  G    V++YSILI+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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 66.7 bits (164), Expect = 2e-14
 Identities = 25/50 (50%), Positives = 33/50 (66%)

Query: 318 PDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCK 367
           PDVV YNTL     +  +VE A KLF+EM++ G+  + +TY   IDGLCK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 63.6 bits (156), Expect = 2e-13
 Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 23/72 (31%)

Query: 120 PNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPD 179
           P+V TYNTLI+G  + G                        V++A +LF +MK   I P+
Sbjct: 1   PDVVTYNTLIDGYCKKGK-----------------------VEEALKLFNEMKKRGIKPN 37

Query: 180 VVTYTSVIRGFC 191
           V TY+ +I G C
Sbjct: 38  VYTYSILIDGLC 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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 71.8 bits (176), Expect = 2e-13
 Identities = 92/403 (22%), Positives = 154/403 (38%), Gaps = 115/403 (28%)

Query: 17  VCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTY-NILINCF----CKMGRVSHG 71
           + S+N+L G  AK  ++D  L L+ R+   G+ PD+YT+  +L  C        GR  H 
Sbjct: 152 LFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHA 211

Query: 72  FVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLING 131
            VV     R  F  +     +LI        ++ A  +F ++    C     ++N +I+G
Sbjct: 212 HVV-----RFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDC----ISWNAMISG 262

Query: 132 LYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFC 191
                        FE     NGE  +EG      ELF  M++ +++PD++T TSVI    
Sbjct: 263 ------------YFE-----NGE-CLEGL-----ELFFTMRELSVDPDLMTITSVI---- 295

Query: 192 YANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAF 251
                  + C L+                        G       +   +++ G   +  
Sbjct: 296 -------SACELL------------------------GDERLGREMHGYVVKTGFAVDVS 324

Query: 252 VYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEM 311
           V N+L+  +   G    A+++F  ME    T    S++ +I+GY KN   + AL  Y  M
Sbjct: 325 VCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALM 380

Query: 312 LSKGIKPD-----------------------------------VVIYNTLFVVLFEIHQV 336
               + PD                                   VV+ N L  +  +   +
Sbjct: 381 EQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCI 440

Query: 337 ERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFR 379
           ++A ++F  +    V   +WT  + I GL  N+   EA+  FR
Sbjct: 441 DKALEVFHNIPEKDVI--SWT--SIIAGLRLNNRCFEALIFFR 479

Length = 857

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

 Score = 61.7 bits (151), Expect = 1e-12
 Identities = 21/43 (48%), Positives = 30/43 (69%)

Query: 285 VFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLF 327
           V +Y+ LI+GYCK  ++E AL L+ EM  +GIKP+V  Y+ L 
Sbjct: 3   VVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILI 45

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

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

 Score = 59.7 bits (146), Expect = 6e-12
 Identities = 21/50 (42%), Positives = 35/50 (70%)

Query: 85  PNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYR 134
           P+ VT+ +LI G C + ++ EA  LF +++  G +PNV+TY+ LI+GL +
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 57.8 bits (141), Expect = 2e-11
 Identities = 19/49 (38%), Positives = 28/49 (57%)

Query: 50 PDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLC 98
          PD+ TYN LI+ +CK G+V     +   + +    PN  T++ LI GLC
Sbjct: 1  PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 65.3 bits (159), Expect = 2e-11
 Identities = 65/335 (19%), Positives = 130/335 (38%), Gaps = 28/335 (8%)

Query: 63  CKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEA-----AALFTKLRVFG 117
           C  G++     +L  +       +   + +L + LC   R +E      +   +     G
Sbjct: 62  CSHGQLEQALKLLESMQELRVPVDEDAYVALFR-LCEWKRAVEEGSRVCSRALSSHPSLG 120

Query: 118 CEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGN--------GEFGVEGFVDKAKELFL 169
                   N +++   R G  + A  +F +M   +        G +   G+ D+A  L+ 
Sbjct: 121 VRLG----NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYH 176

Query: 170 QMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNG 229
           +M    + PDV T+  V+R      D    + +   ++  G + +V   N ++    K G
Sbjct: 177 RMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCG 236

Query: 230 KMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYS 289
            +  A  + D M     R +   +N ++ G+   G      ELF +M  +     + + +
Sbjct: 237 DVVSARLVFDRM----PRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTIT 292

Query: 290 ILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQ-R 348
            +I+      +      ++G ++  G   DV + N+L  +   +     A K+F  M+ +
Sbjct: 293 SVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK 352

Query: 349 DGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI 383
           D V   +WT    I G  KN    +A+E +  +  
Sbjct: 353 DAV---SWT--AMISGYEKNGLPDKALETYALMEQ 382

Length = 857

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

 Score = 62.2 bits (151), Expect = 2e-10
 Identities = 69/321 (21%), Positives = 125/321 (38%), Gaps = 35/321 (10%)

Query: 79  LRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHT 138
               FT  A T+ +L++   A   I    A++  +   G EP+ +  N ++    + G  
Sbjct: 115 AGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGML 174

Query: 139 IVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNE 198
           I A  LF+EM   N                             ++ ++I G   A ++ E
Sbjct: 175 IDARRLFDEMPERNL---------------------------ASWGTIIGGLVDAGNYRE 207

Query: 199 AKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMD 258
           A  L  EM + G      TF V++      G      +L   +++ GV  + FV   L+D
Sbjct: 208 AFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALID 267

Query: 259 GFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKP 318
            +   G +  A+ +F  M       T  +++ ++ GY  +   E AL LY EM   G+  
Sbjct: 268 MYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSI 323

Query: 319 DVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELF 378
           D   ++ +  +   +  +E A +    + R G   D       +D   K   + +A  +F
Sbjct: 324 DQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVF 383

Query: 379 RTLRILKCELDIRAYNCLIDG 399
             +       ++ ++N LI G
Sbjct: 384 DRMPR----KNLISWNALIAG 400

Length = 697

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

 Score = 53.9 bits (131), Expect = 6e-10
 Identities = 18/50 (36%), Positives = 27/50 (54%)

Query: 15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCK 64
          P V ++N L     K    +  L LF  +   G+ P++YTY+ILI+  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 = 59.5 bits (144), Expect = 1e-09
 Identities = 61/283 (21%), Positives = 106/283 (37%), Gaps = 57/283 (20%)

Query: 34  DTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSL 93
           D  + L +     GL   +   N LI  + K   +     V   I       + +++TS+
Sbjct: 406 DVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSI 461

Query: 94  IKGLCAESRIMEAAALFTKLRVFGCEPNVFTY---------------------------- 125
           I GL   +R  EA   F ++ +   +PN  T                             
Sbjct: 462 IAGLRLNNRCFEALIFFRQM-LLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGI 520

Query: 126 -------NTLINGLYRTGHTIVALNLFEEMASGNGEFGV--EGFVDKAK-----ELFLQM 171
                  N L++   R G    A N F         + +   G+V   K     ELF +M
Sbjct: 521 GFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRM 580

Query: 172 KDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ--GVQPNVVTFNVIMDELCKNG 229
            +  +NPD VT+ S++   C  +            M++   + PN+  +  ++D L + G
Sbjct: 581 VESGVNPDEVTFISLLCA-CSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAG 639

Query: 230 KMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKEL 272
           K+ EA   ++ M    + P+  V+  L++  C   R++R  EL
Sbjct: 640 KLTEAYNFINKM---PITPDPAVWGALLNA-C---RIHRHVEL 675

Length = 857

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

 Score = 52.4 bits (127), Expect = 2e-09
 Identities = 17/33 (51%), Positives = 27/33 (81%)

Query: 209 QGVQPNVVTFNVIMDELCKNGKMDEASRLLDLM 241
           +G++P+VVT+N ++D LC+ G++DEA  LLD 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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 58.7 bits (142), Expect = 3e-09
 Identities = 51/234 (21%), Positives = 103/234 (44%), Gaps = 33/234 (14%)

Query: 2   CIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINC 61
           C+FD M    P    V   ++L G  A + + +  L L+  +  +G+  D +T++I+I  
Sbjct: 280 CVFDGM----PEKTTVAWNSMLAG-YALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRI 334

Query: 62  FCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPN 121
           F ++  + H       ++R+ F  + V  T+L+       R+ +A  +F ++       N
Sbjct: 335 FSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KN 390

Query: 122 VFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVV 181
           + ++N LI G                       +G  G   KA E+F +M  E + P+ V
Sbjct: 391 LISWNALIAG-----------------------YGNHGRGTKAVEMFERMIAEGVAPNHV 427

Query: 182 TYTSVIRGFCYANDWNEAKCLLIEMM-DQGVQPNVVTFNVIMDELCKNGKMDEA 234
           T+ +V+    Y+    +   +   M  +  ++P  + +  +++ L + G +DEA
Sbjct: 428 TFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA 481

Length = 697

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

 Score = 56.4 bits (136), Expect = 1e-08
 Identities = 60/247 (24%), Positives = 94/247 (38%), Gaps = 53/247 (21%)

Query: 184 TSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEA-----SRLL 238
            S +R  C      +A  LL  M +  V  +   + V +  LC+  +  E      SR L
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAY-VALFRLCEWKRAVEEGSRVCSRAL 113

Query: 239 DLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKN 298
                +GVR    + N ++  F   G +  A  +F  M        +FS+++L+ GY K 
Sbjct: 114 SSHPSLGVR----LGNAMLSMFVRFGELVHAWYVFGKMPE----RDLFSWNVLVGGYAKA 165

Query: 299 KEIEGALSLYGEMLSKGIKPDVVIY----------------------------------- 323
              + AL LY  ML  G++PDV  +                                   
Sbjct: 166 GYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVV 225

Query: 324 NTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI 383
           N L  +  +   V  A  +FD M R     D  ++   I G  +N   +E +ELF T+R 
Sbjct: 226 NALITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRE 281

Query: 384 LKCELDI 390
           L  + D+
Sbjct: 282 LSVDPDL 288

Length = 857

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

 Score = 49.8 bits (120), Expect = 1e-08
 Identities = 17/35 (48%), Positives = 24/35 (68%)

Query: 286 FSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDV 320
            +Y+ LI+G CK   +E AL L+ EM  +GI+PDV
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 = 47.7 bits (115), Expect = 7e-08
 Identities = 17/33 (51%), Positives = 22/33 (66%)

Query: 116 FGCEPNVFTYNTLINGLYRTGHTIVALNLFEEM 148
            G +P+V TYNTLI+GL R G    A+ 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 47.7 bits (115), Expect = 7e-08
 Identities = 17/33 (51%), Positives = 22/33 (66%)

Query: 245 GVRPNAFVYNTLMDGFCLTGRVNRAKELFVSME 277
           G++P+   YNTL+DG C  GRV+ A EL   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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 52.6 bits (126), Expect = 2e-07
 Identities = 58/277 (20%), Positives = 97/277 (35%), Gaps = 34/277 (12%)

Query: 88  VTFTSLIKGLCAESRIMEAAALFTKLRV-FGCEPNVFTYNTLINGLYRTGHTIVALNLFE 146
           V+  S I+ L A  R  EA  LF  L           TY+ L+                 
Sbjct: 88  VSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALV----------------- 130

Query: 147 EMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEM 206
           E                 K ++  ++     PD      V+          +A+ L  EM
Sbjct: 131 EACIALKSIRC------VKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM 184

Query: 207 MDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRV 266
            ++    N+ ++  I+  L   G   EA  L   M + G       +  ++      G  
Sbjct: 185 PER----NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA 240

Query: 267 NRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTL 326
              ++L   +   G     F    LI+ Y K  +IE A  ++  M  K      V +N++
Sbjct: 241 RAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSM 296

Query: 327 FVVLFEIH-QVERAFKLFDEMQRDGVAADTWTYRTFI 362
            +  + +H   E A  L+ EM+  GV+ D +T+   I
Sbjct: 297 -LAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMI 332

Length = 697

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

 Score = 51.0 bits (122), Expect = 8e-07
 Identities = 27/128 (21%), Positives = 54/128 (42%), Gaps = 2/128 (1%)

Query: 4   FDYMLNMRPS--PPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINC 61
           F+ + + R         S++ L G  +  K++   L L++ + S  L P + T N LI  
Sbjct: 669 FEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITA 728

Query: 62  FCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPN 121
            C+  ++     VL  + R    PN +T++ L+     +        L ++ +  G +PN
Sbjct: 729 LCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPN 788

Query: 122 VFTYNTLI 129
           +     + 
Sbjct: 789 LVMCRCIT 796

Length = 1060

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

 Score = 50.6 bits (121), Expect = 9e-07
 Identities = 36/123 (29%), Positives = 56/123 (45%), Gaps = 9/123 (7%)

Query: 262 LTGRVNRAKELFVSMESMGCTHTVFS--YSILINGYCKNKEIEGALSLYGEMLSKGIKPD 319
             GR   A ELF  +E  GC  T+ +  Y  L+      K I    ++Y  + S G +PD
Sbjct: 99  ACGRHREALELFEILE-AGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPD 157

Query: 320 VVIYNTLFVVLFEIHQVERAFKLFDEM-QRDGVAADTWTYRTFIDGLCKNSYIVEAVELF 378
             + N + ++  +   +  A +LFDEM +R+       ++ T I GL       EA  LF
Sbjct: 158 QYMMNRVLLMHVKCGMLIDARRLFDEMPERNLA-----SWGTIIGGLVDAGNYREAFALF 212

Query: 379 RTL 381
           R +
Sbjct: 213 REM 215

Length = 697

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

 Score = 44.4 bits (106), Expect = 1e-06
 Identities = 15/31 (48%), Positives = 22/31 (70%)

Query: 286 FSYSILINGYCKNKEIEGALSLYGEMLSKGI 316
            +Y+ LI+GYCK  ++E AL 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 43.1 bits (103), Expect = 3e-06
 Identities = 11/33 (33%), Positives = 18/33 (54%)

Query: 279 MGCTHTVFSYSILINGYCKNKEIEGALSLYGEM 311
            G    V +Y+ LI+G C+   ++ A+ 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 42.7 bits (102), Expect = 4e-06
 Identities = 14/29 (48%), Positives = 18/29 (62%)

Query: 47 GLFPDLYTYNILINCFCKMGRVSHGFVVL 75
          GL PD+ TYN LI+  C+ GRV     +L
Sbjct: 2  GLKPDVVTYNTLIDGLCRAGRVDEAVELL 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 40.9 bits (97), Expect = 2e-05
 Identities = 18/44 (40%), Positives = 27/44 (61%)

Query: 357 TYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDGL 400
           TY T IDG CK   + EA++LF  ++    + ++  Y+ LIDGL
Sbjct: 5   TYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 41.3 bits (98), Expect = 2e-05
 Identities = 15/35 (42%), Positives = 22/35 (62%)

Query: 181 VTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNV 215
           VTY ++I G C A    EA  L  EM ++G++P+V
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 39.6 bits (94), Expect = 5e-05
 Identities = 16/32 (50%), Positives = 20/32 (62%)

Query: 175 NINPDVVTYTSVIRGFCYANDWNEAKCLLIEM 206
            + PDVVTY ++I G C A   +EA  LL EM
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 39.9 bits (94), Expect = 5e-05
 Identities = 10/34 (29%), Positives = 20/34 (58%)

Query: 285 VFSYSILINGYCKNKEIEGALSLYGEMLSKGIKP 318
           + +Y+ L+    K  + + AL++  EM + G+KP
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 = 39.3 bits (93), Expect = 7e-05
 Identities = 15/31 (48%), Positives = 18/31 (58%)

Query: 349 DGVAADTWTYRTFIDGLCKNSYIVEAVELFR 379
            G+  D  TY T IDGLC+   + EAVEL  
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLD 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|144943 pfam01535, PPR, PPR repeat

 Score = 39.4 bits (93), Expect = 7e-05
 Identities = 13/31 (41%), Positives = 19/31 (61%)

Query: 216 VTFNVIMDELCKNGKMDEASRLLDLMIQIGV 246
           VT+N ++   CK GK++EA  L   M + GV
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 39.4 bits (93), Expect = 8e-05
 Identities = 16/31 (51%), Positives = 18/31 (58%)

Query: 251 FVYNTLMDGFCLTGRVNRAKELFVSMESMGC 281
             YNTL+DG C  GRV  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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 39.0 bits (92), Expect = 8e-05
 Identities = 11/35 (31%), Positives = 15/35 (42%)

Query: 53 YTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNA 87
           TYN LI+  CK GRV     +   +      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|205109 pfam12854, PPR_1, PPR repeat

 Score = 38.9 bits (92), Expect = 1e-04
 Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 12/40 (30%)

Query: 314 KGIKPDVVIYNTLFVVLFEIH------QVERAFKLFDEMQ 347
           KG+KPDVV YNTL      I       +V+ A +L DEM+
Sbjct: 1   KGLKPDVVTYNTL------IDGLCRAGRVDEAVELLDEME 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|144943 pfam01535, PPR, PPR repeat

 Score = 38.6 bits (91), Expect = 1e-04
 Identities = 12/31 (38%), Positives = 18/31 (58%)

Query: 251 FVYNTLMDGFCLTGRVNRAKELFVSMESMGC 281
             YN+L+ 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 38.2 bits (90), Expect = 2e-04
 Identities = 14/35 (40%), Positives = 23/35 (65%)

Query: 216 VTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNA 250
           VT+N ++D LCK G+++EA  L   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|205109 pfam12854, PPR_1, PPR repeat

 Score = 37.7 bits (89), Expect = 3e-04
 Identities = 12/28 (42%), Positives = 16/28 (57%)

Query: 83  FTPNAVTFTSLIKGLCAESRIMEAAALF 110
             P+ VT+ +LI GLC   R+ EA  L 
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELL 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|144943 pfam01535, PPR, PPR repeat

 Score = 36.7 bits (86), Expect = 6e-04
 Identities = 15/31 (48%), Positives = 19/31 (61%)

Query: 181 VTYTSVIRGFCYANDWNEAKCLLIEMMDQGV 211
           VTY S+I G+C A    EA  L  EM ++GV
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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 36.4 bits (85), Expect = 7e-04
 Identities = 11/34 (32%), Positives = 19/34 (55%)

Query: 215 VVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRP 248
           + T+N ++  L K G  D A  +L+ M   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 = 35.5 bits (83), Expect = 0.001
 Identities = 16/35 (45%), Positives = 23/35 (65%)

Query: 88  VTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNV 122
           VT+ +LI GLC   R+ EA  LF +++  G EP+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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 35.6 bits (83), Expect = 0.001
 Identities = 10/34 (29%), Positives = 18/34 (52%)

Query: 180 VVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQP 213
           + TY +++     A D + A  +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|144943 pfam01535, PPR, PPR repeat

 Score = 34.7 bits (81), Expect = 0.003
 Identities = 13/26 (50%), Positives = 17/26 (65%)

Query: 123 FTYNTLINGLYRTGHTIVALNLFEEM 148
            TYN+LI+G  + G    AL LF+EM
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEM 26

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

 Score = 34.4 bits (80), Expect = 0.004
 Identities = 15/35 (42%), Positives = 20/35 (57%)

Query: 321 VIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADT 355
           V YNTL   L +  +VE A +LF EM+  G+  D 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	400
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.98
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.98
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.95
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.94
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.94
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.93
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.93
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.93
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.93
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.93
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.92
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.91
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.91
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.89
PRK14574	822	hmsH outer membrane protein; Provisional	99.88
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.86
PRK14574	822	hmsH outer membrane protein; Provisional	99.85
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.84
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.83
KOG2003	840	consensus TPR repeat-containing protein [General f	99.82
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.81
KOG2076	895	consensus RNA polymerase III transcription factor	99.79
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.78
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.78
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.77
KOG2003	840	consensus TPR repeat-containing protein [General f	99.77
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.76
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.76
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.76
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.76
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.76
KOG1126	638	consensus DNA-binding cell division cycle control	99.75
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.75
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.75
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.74
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.72
KOG1126	638	consensus DNA-binding cell division cycle control	99.72
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.71
KOG2076	895	consensus RNA polymerase III transcription factor	99.7
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.7
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.7
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.68
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.67
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.67
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.65
PRK12370	553	invasion protein regulator; Provisional	99.61
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.6
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.6
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.58
PRK12370	553	invasion protein regulator; Provisional	99.58
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.58
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.54
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.52
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.52
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.52
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.52
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.51
KOG1129	478	consensus TPR repeat-containing protein [General f	99.5
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.5
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.49
KOG1129	478	consensus TPR repeat-containing protein [General f	99.49
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.46
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	99.45
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.44
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.43
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.41
PRK11189	296	lipoprotein NlpI; Provisional	99.4
PF13041	50	PPR_2: PPR repeat family	99.4
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.39
PF13041	50	PPR_2: PPR repeat family	99.39
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.38
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.37
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.36
PRK11189	296	lipoprotein NlpI; Provisional	99.36
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.36
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.35
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.34
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.33
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.31
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.28
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.24
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.23
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.22
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.19
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.19
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.16
KOG1125	579	consensus TPR repeat-containing protein [General f	99.16
PRK04841	903	transcriptional regulator MalT; Provisional	99.15
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.14
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.13
KOG1125	579	consensus TPR repeat-containing protein [General f	99.12
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.1
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.09
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.07
PLN02789	320	farnesyltranstransferase	99.04
PRK04841	903	transcriptional regulator MalT; Provisional	99.03
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.02
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.99
PLN02789	320	farnesyltranstransferase	98.98
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.98
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.97
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.96
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.94
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.92
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.9
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.9
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.9
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.89
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.89
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.87
PRK15359	144	type III secretion system chaperone protein SscB;	98.87
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.86
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.85
PRK15359	144	type III secretion system chaperone protein SscB;	98.85
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.83
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.82
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.81
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.81
PF12854	34	PPR_1: PPR repeat	98.8
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.78
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.78
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.78
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.75
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.75
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.75
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.72
PF12854	34	PPR_1: PPR repeat	98.69
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.69
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.65
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	98.61
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.59
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.58
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.55
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.48
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.45
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	98.41
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.36
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.33
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.32
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.32
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.31
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.28
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.27
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.24
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.24
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.24
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.23
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.23
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.22
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.22
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.2
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.19
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.19
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.18
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.18
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.17
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.17
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	98.16
KOG0553	304	consensus TPR repeat-containing protein [General f	98.14
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.13
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.13
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.12
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.12
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.11
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.1
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.09
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.08
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.07
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.03
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.01
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.99
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.97
PF12688	120	TPR_5: Tetratrico peptide repeat	97.97
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.96
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.96
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.93
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.92
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.91
PF12688	120	TPR_5: Tetratrico peptide repeat	97.9
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.9
KOG0553	304	consensus TPR repeat-containing protein [General f	97.86
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.85
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.84
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.82
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.8
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.8
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.76
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.75
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.73
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.73
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.73
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.65
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.65
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.64
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.63
PRK15331	165	chaperone protein SicA; Provisional	97.62
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.62
PRK10803	263	tol-pal system protein YbgF; Provisional	97.52
PRK10803	263	tol-pal system protein YbgF; Provisional	97.52
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.45
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.43
PRK15331	165	chaperone protein SicA; Provisional	97.38
PF13371	73	TPR_9: Tetratricopeptide repeat	97.33
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.3
PF13371	73	TPR_9: Tetratricopeptide repeat	97.29
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.25
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.24
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.19
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.19
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.16
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.13
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.08
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.06
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.04
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.03
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.0
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.88
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.87
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.85
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.81
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.8
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.76
PF13512	142	TPR_18: Tetratricopeptide repeat	96.71
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.71
KOG1585	308	consensus Protein required for fusion of vesicles	96.71
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.69
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.67
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.65
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.63
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.57
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.47
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.43
KOG4555	175	consensus TPR repeat-containing protein [Function	96.43
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.41
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	96.38
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.37
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.3
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.29
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.22
KOG1550	552	consensus Extracellular protein SEL-1 and related	96.2
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.17
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.17
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.16
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.15
KOG4555	175	consensus TPR repeat-containing protein [Function	96.14
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.12
PRK11906	458	transcriptional regulator; Provisional	96.12
PRK11906	458	transcriptional regulator; Provisional	96.1
PF13431	34	TPR_17: Tetratricopeptide repeat	96.03
PF13512	142	TPR_18: Tetratricopeptide repeat	96.02
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.98
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.98
PF13428	44	TPR_14: Tetratricopeptide repeat	95.97
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.92
KOG1258	577	consensus mRNA processing protein [RNA processing	95.91
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.9
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.89
PF13428	44	TPR_14: Tetratricopeptide repeat	95.86
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.86
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	95.77
KOG3941	406	consensus Intermediate in Toll signal transduction	95.63
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.54
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.52
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.51
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.35
KOG3941	406	consensus Intermediate in Toll signal transduction	95.19
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.15
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	95.01
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.0
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.82
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.78
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	94.78
KOG1585	308	consensus Protein required for fusion of vesicles	94.77
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.75
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.71
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.44
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.41
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.32
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.28
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.18
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.05
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.98
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.88
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	93.81
PF13431	34	TPR_17: Tetratricopeptide repeat	93.78
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.57
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.57
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	93.36
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.25
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	93.11
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	93.1
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.08
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	92.99
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	92.91
COG0457	291	NrfG FOG: TPR repeat [General function prediction	92.63
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	92.49
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	92.36
KOG4234	271	consensus TPR repeat-containing protein [General f	92.26
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	92.14
KOG1258	577	consensus mRNA processing protein [RNA processing	91.96
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	91.93
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	91.88
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	91.83
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	91.8
COG3947	361	Response regulator containing CheY-like receiver a	91.69
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	91.56
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.46
PRK13184	932	pknD serine/threonine-protein kinase; Reviewed	90.88
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	90.77
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	90.72
KOG2471	696	consensus TPR repeat-containing protein [General f	90.56
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	90.49
PRK11619	644	lytic murein transglycosylase; Provisional	90.46
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	90.43
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	90.37
COG4455	273	ImpE Protein of avirulence locus involved in tempe	90.18
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	90.03
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.95
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	89.93
COG4455	273	ImpE Protein of avirulence locus involved in tempe	89.21
KOG4234	271	consensus TPR repeat-containing protein [General f	89.07
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	89.07
PF13929	292	mRNA_stabil: mRNA stabilisation	88.62
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.6
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	88.57
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	88.42
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	88.2
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	88.18
KOG1550	552	consensus Extracellular protein SEL-1 and related	88.09
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.05
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	87.76
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	87.39
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	87.32
KOG4648	536	consensus Uncharacterized conserved protein, conta	87.24
KOG4648	536	consensus Uncharacterized conserved protein, conta	87.09
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	87.05
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	86.8
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	86.78
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	86.54
KOG1586	288	consensus Protein required for fusion of vesicles	86.17
COG1747	711	Uncharacterized N-terminal domain of the transcrip	85.72
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	85.71
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	85.58
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	84.99
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	84.98
PRK09687	280	putative lyase; Provisional	84.91
COG1747	711	Uncharacterized N-terminal domain of the transcrip	84.61
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	84.3
COG3947	361	Response regulator containing CheY-like receiver a	84.25
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	83.75
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	83.7
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	83.32
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	82.33
KOG1586	288	consensus Protein required for fusion of vesicles	81.55
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	80.73
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	80.54
KOG4507	886	consensus Uncharacterized conserved protein, conta	80.38
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	80.11

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.1e-63  Score=460.40  Aligned_cols=395  Identities=21%  Similarity=0.321  Sum_probs=375.7

Q ss_pred             chhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 040367            2 CIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRS   81 (400)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (400)
                      ++|++|...+..+++...++.++..|.+.|.+++|+.+|+.|..    ||..+|+.++.+|++.|+++.|.++++.|.+.
T Consensus       391 ~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~  466 (1060)
T PLN03218        391 DLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCASSQDIDGALRVLRLVQEA  466 (1060)
T ss_pred             HHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHc
Confidence            68899999888767888888899999999999999999988874    89999999999999999999999999999999


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc----
Q 040367           82 CFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV----  157 (400)
Q Consensus        82 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----  157 (400)
                      |+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|+.|...+..++.    
T Consensus       467 Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYn  546 (1060)
T PLN03218        467 GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFN  546 (1060)
T ss_pred             CCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999888766554    


Q ss_pred             --------ccchHHHHHHHHHHHh--CCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 040367          158 --------EGFVDKAKELFLQMKD--ENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCK  227 (400)
Q Consensus       158 --------~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  227 (400)
                              .|.+++|.++|++|..  .++.||..+|+.++.+|++.|++++|.++|+.|.+.|+.|+..+|+.++.+|++
T Consensus       547 sLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k  626 (1060)
T PLN03218        547 ALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQ  626 (1060)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHh
Confidence                    7889999999999976  578999999999999999999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 040367          228 NGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSL  307 (400)
Q Consensus       228 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  307 (400)
                      .|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++++.|.+.|+.|+..+|+.|+.+|++.|++++|.++
T Consensus       627 ~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~l  706 (1060)
T PLN03218        627 KGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALEL  706 (1060)
T ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhccc
Q 040367          308 YGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCE  387 (400)
Q Consensus       308 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  387 (400)
                      |++|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|.+.|++++|.+++++|.+.|+.
T Consensus       707 f~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~  786 (1060)
T PLN03218        707 YEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIK  786 (1060)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHhhcC
Q 040367          388 LDIRAYNCLIDGL  400 (400)
Q Consensus       388 p~~~~~~~ll~~~  400 (400)
                      ||..+|++|+..|
T Consensus       787 pd~~tynsLIglc  799 (1060)
T PLN03218        787 PNLVMCRCITGLC  799 (1060)
T ss_pred             CCHHHHHHHHHHH
Confidence            9999999998643

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.7e-63  Score=459.71  Aligned_cols=385  Identities=22%  Similarity=0.371  Sum_probs=368.6

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLI   94 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (400)
                      ||..+|+.++.+|++.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.|+++.|.++|++|.+.|+.||..+|+.+|
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI  514 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALI  514 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcC--CCCCC------------cccc
Q 040367           95 KGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASG--NGEFG------------VEGF  160 (400)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~------------~~~~  160 (400)
                      .+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|...  +..++            ..|+
T Consensus       515 ~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~  594 (1060)
T PLN03218        515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ  594 (1060)
T ss_pred             HHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCC
Confidence            999999999999999999999999999999999999999999999999999999763  32222            2899


Q ss_pred             hHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHH
Q 040367          161 VDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDL  240 (400)
Q Consensus       161 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  240 (400)
                      +++|.++|+.|.+.+++|+..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.+++++
T Consensus       595 ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~e  674 (1060)
T PLN03218        595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD  674 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCch
Q 040367          241 MIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDV  320 (400)
Q Consensus       241 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  320 (400)
                      |.+.|+.|+..+|+.++.+|++.|++++|.++|++|.+.++.||..+|+.|+.+|++.|++++|.++|++|.+.|+.||.
T Consensus       675 M~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~  754 (1060)
T PLN03218        675 ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNT  754 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----c-------------------CcHHHHHHH
Q 040367          321 VIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCK----N-------------------SYIVEAVEL  377 (400)
Q Consensus       321 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~-------------------g~~~~a~~~  377 (400)
                      .+|+.++.+|++.|++++|.+++++|.+.|+.||..+|+.++..|.+    .                   +..++|+.+
T Consensus       755 ~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~l  834 (1060)
T PLN03218        755 ITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMV  834 (1060)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHH
Confidence            99999999999999999999999999999999999999999876542    1                   234689999


Q ss_pred             HHHHHHhcccchhHHHHHHhhc
Q 040367          378 FRTLRILKCELDIRAYNCLIDG  399 (400)
Q Consensus       378 ~~~~~~~~~~p~~~~~~~ll~~  399 (400)
                      |++|.+.|+.||..||+.+|.+
T Consensus       835 f~eM~~~Gi~Pd~~T~~~vL~c  856 (1060)
T PLN03218        835 YRETISAGTLPTMEVLSQVLGC  856 (1060)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHH
Confidence            9999999999999999999943

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

Probab=100.00  E-value=3.2e-58  Score=423.10  Aligned_cols=384  Identities=20%  Similarity=0.322  Sum_probs=353.7

Q ss_pred             chhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 040367            2 CIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRS   81 (400)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (400)
                      ++|++|...++.+||..+|+.++.++.+.++++.|.+++..|.+.|+.||..+|+.++..|++.|+++.|.++|++|.  
T Consensus       108 ~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~--  185 (697)
T PLN03081        108 ELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMP--  185 (697)
T ss_pred             HHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCC--
Confidence            578888877766688999999999999999999999999999999999999999999999999999999999999886  


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc----
Q 040367           82 CFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV----  157 (400)
Q Consensus        82 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----  157 (400)
                        .||..+|+.++.+|++.|++++|.++|++|.+.|+.|+..+|..++.++.+.|....+.+++..+.+.+...+.    
T Consensus       186 --~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n  263 (697)
T PLN03081        186 --ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSC  263 (697)
T ss_pred             --CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHH
Confidence              47888999999999999999999999999999998999999999999999999999999998888877654333    


Q ss_pred             --------ccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC
Q 040367          158 --------EGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNG  229 (400)
Q Consensus       158 --------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  229 (400)
                              .|++++|.++|+.|..    +|..+|+.++.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|
T Consensus       264 ~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g  339 (697)
T PLN03081        264 ALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLA  339 (697)
T ss_pred             HHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcc
Confidence                    8899999999999964    5889999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 040367          230 KMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYG  309 (400)
Q Consensus       230 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  309 (400)
                      ++++|.+++..|.+.|+.|+..+++.|+.+|++.|++++|.++|++|.    .||..+|+.|+.+|++.|+.++|.++|+
T Consensus       340 ~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~  415 (697)
T PLN03081        340 LLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFE  415 (697)
T ss_pred             chHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999997    5789999999999999999999999999


Q ss_pred             HHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccc
Q 040367          310 EMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQR-DGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCEL  388 (400)
Q Consensus       310 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  388 (400)
                      +|.+.|+.||..||+.++.+|.+.|.+++|.++|+.|.+ .|+.|+..+|+.++++|++.|++++|.+++++|   ++.|
T Consensus       416 ~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p  492 (697)
T PLN03081        416 RMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKP  492 (697)
T ss_pred             HHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCC
Confidence            999999999999999999999999999999999999986 589999999999999999999999999998876   4789


Q ss_pred             hhHHHHHHhhcC
Q 040367          389 DIRAYNCLIDGL  400 (400)
Q Consensus       389 ~~~~~~~ll~~~  400 (400)
                      +..+|++|+.+|
T Consensus       493 ~~~~~~~Ll~a~  504 (697)
T PLN03081        493 TVNMWAALLTAC  504 (697)
T ss_pred             CHHHHHHHHHHH
Confidence            999999999886

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=8.6e-57  Score=423.13  Aligned_cols=370  Identities=21%  Similarity=0.308  Sum_probs=272.8

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLI   94 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (400)
                      ||+.+||.++.+|++.|++++|+++|++|.+.|+.||..+|+.++.+|.+.|+.+.|.+++..+.+.|+.||..+|+.++
T Consensus       251 ~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li  330 (857)
T PLN03077        251 RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLI  330 (857)
T ss_pred             CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHH
Confidence            56777888888888888888888888888777777888888888888888888888888888777777777777777777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc------------ccchH
Q 040367           95 KGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV------------EGFVD  162 (400)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------------~~~~~  162 (400)
                      .+|++.|++++|.++|++|.    .||..+|+.++.+|.+.|++++|+++|++|...+..++.            .|+++
T Consensus       331 ~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~  406 (857)
T PLN03077        331 QMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLD  406 (857)
T ss_pred             HHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHH
Confidence            77777777777777777775    467777777777777777777777777777766644433            56666


Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHH
Q 040367          163 KAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMI  242 (400)
Q Consensus       163 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  242 (400)
                      .+.++++.+.+.|+.|+..+|+.++.+|++.|++++|.++|++|.+    +|..+|+.++.+|.+.|+.++|..+|++|.
T Consensus       407 ~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~  482 (857)
T PLN03077        407 VGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQML  482 (857)
T ss_pred             HHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            7777777777666666666666666666666666666666666543    233444444444444444444444444444


Q ss_pred             ----------------------------------HcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhH
Q 040367          243 ----------------------------------QIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSY  288 (400)
Q Consensus       243 ----------------------------------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  288 (400)
                                                        +.|+.++..++++++++|++.|+.++|..+|+.+     .+|..+|
T Consensus       483 ~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~  557 (857)
T PLN03077        483 LTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVVSW  557 (857)
T ss_pred             hCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCChhhH
Confidence                                              4444444444455555566666666666666554     4677888


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHh
Q 040367          289 SILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQ-RDGVAADTWTYRTFIDGLCK  367 (400)
Q Consensus       289 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~  367 (400)
                      +.++.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|.+++|.++|+.|. +.|+.|+..+|+.++++|.+
T Consensus       558 n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r  637 (857)
T PLN03077        558 NILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGR  637 (857)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh
Confidence            88888888888888888888888888888888888888888888888888888888888 56888888888888888888


Q ss_pred             cCcHHHHHHHHHHHHHhcccchhHHHHHHhhcC
Q 040367          368 NSYIVEAVELFRTLRILKCELDIRAYNCLIDGL  400 (400)
Q Consensus       368 ~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~~  400 (400)
                      .|++++|.+++++|.   ++||..+|++|+.+|
T Consensus       638 ~G~~~eA~~~~~~m~---~~pd~~~~~aLl~ac  667 (857)
T PLN03077        638 AGKLTEAYNFINKMP---ITPDPAVWGALLNAC  667 (857)
T ss_pred             CCCHHHHHHHHHHCC---CCCCHHHHHHHHHHH
Confidence            888888888888884   688888888888876

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

Probab=100.00  E-value=7.2e-56  Score=407.54  Aligned_cols=374  Identities=19%  Similarity=0.281  Sum_probs=356.5

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTG-LFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSL   93 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (400)
                      .+..+|+.++..+.+.|++++|+++|+.|...+ ..||..+|+.++.+|.+.++++.+.+++..|.+.|+.||..+|+.+
T Consensus        85 ~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~L  164 (697)
T PLN03081         85 KSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRV  164 (697)
T ss_pred             CCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHH
Confidence            355689999999999999999999999998764 6899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc------------ccch
Q 040367           94 IKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV------------EGFV  161 (400)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------------~~~~  161 (400)
                      +.+|++.|++++|.++|++|.    .||..+|+.++.+|++.|++++|+++|++|...+..++.            .|..
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~----~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~  240 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA  240 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCC----CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcH
Confidence            999999999999999999997    589999999999999999999999999999988766543            6788


Q ss_pred             HHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 040367          162 DKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLM  241 (400)
Q Consensus       162 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  241 (400)
                      +.+.+++..+.+.|+.||..+|++++.+|++.|++++|.++|++|..    +|..+|+.++.+|++.|+.++|.++|++|
T Consensus       241 ~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M  316 (697)
T PLN03081        241 RAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEM  316 (697)
T ss_pred             HHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999964    68999999999999999999999999999


Q ss_pred             HHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchh
Q 040367          242 IQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVV  321 (400)
Q Consensus       242 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  321 (400)
                      .+.|+.||..+|+.++.+|++.|++++|.+++..|.+.|++||..+|+.|+.+|++.|++++|.++|++|.+    ||..
T Consensus       317 ~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~  392 (697)
T PLN03081        317 RDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLI  392 (697)
T ss_pred             HHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCee
Confidence            999999999999999999999999999999999999999999999999999999999999999999999964    6899


Q ss_pred             hHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH-hcccchhHHHHHHhhcC
Q 040367          322 IYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI-LKCELDIRAYNCLIDGL  400 (400)
Q Consensus       322 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~p~~~~~~~ll~~~  400 (400)
                      +|+.++.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|+.++|.++|+.|.+ .|+.|+..+|++++++|
T Consensus       393 t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l  472 (697)
T PLN03081        393 SWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELL  472 (697)
T ss_pred             eHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999985 69999999999999864

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=6.6e-56  Score=417.16  Aligned_cols=387  Identities=19%  Similarity=0.269  Sum_probs=331.5

Q ss_pred             hHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCC
Q 040367            4 FDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCF   83 (400)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   83 (400)
                      +..+.+.|.. |++.+||.++.+|++.|+++.|..+|++|..    ||..+|+.+|.+|++.|++++|+++|++|.+.|+
T Consensus       210 ~~~~~~~g~~-~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~  284 (857)
T PLN03077        210 HAHVVRFGFE-LDVDVVNALITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRELSV  284 (857)
T ss_pred             HHHHHHcCCC-cccchHhHHHHHHhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            3344444444 5666778888888888888888888888863    6788899999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCC--------C
Q 040367           84 TPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGE--------F  155 (400)
Q Consensus        84 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------~  155 (400)
                      .||..+|+.++.+|++.|+.+.|.+++..+.+.|+.||..+|+.|+.+|.+.|++++|.++|++|...+..        +
T Consensus       285 ~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~  364 (857)
T PLN03077        285 DPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGY  364 (857)
T ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999998765432        2


Q ss_pred             CcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHH
Q 040367          156 GVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEAS  235 (400)
Q Consensus       156 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  235 (400)
                      ...|++++|+++|++|...|+.||..+|+.++.+|++.|+++.|.++++.+.+.|+.|+..+|+.++.+|++.|++++|.
T Consensus       365 ~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~  444 (857)
T PLN03077        365 EKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKAL  444 (857)
T ss_pred             HhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHH
Confidence            33888999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040367          236 RLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG  315 (400)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  315 (400)
                      ++|++|.+    +|..+|+.++.+|++.|+.++|..+|++|.. +++||..+|+.++.+|++.|+.+.+.+++..+.+.|
T Consensus       445 ~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g  519 (857)
T PLN03077        445 EVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTG  519 (857)
T ss_pred             HHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhC
Confidence            99999854    4677888888888888888888888888875 467777777766665555555555555555444443


Q ss_pred             C------------------------------CCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 040367          316 I------------------------------KPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGL  365 (400)
Q Consensus       316 ~------------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  365 (400)
                      +                              .||..+|+.++.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|
T Consensus       520 ~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~  599 (857)
T PLN03077        520 IGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCAC  599 (857)
T ss_pred             CCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHH
Confidence            3                              4678889999999999999999999999999999999999999999999


Q ss_pred             HhcCcHHHHHHHHHHHH-HhcccchhHHHHHHhhcC
Q 040367          366 CKNSYIVEAVELFRTLR-ILKCELDIRAYNCLIDGL  400 (400)
Q Consensus       366 ~~~g~~~~a~~~~~~~~-~~~~~p~~~~~~~ll~~~  400 (400)
                      .+.|++++|.++|+.|. +.|+.|+..+|++++++|
T Consensus       600 ~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l  635 (857)
T PLN03077        600 SRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLL  635 (857)
T ss_pred             hhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHH
Confidence            99999999999999998 789999999999998764

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

Probab=99.98  E-value=1.4e-27  Score=230.14  Aligned_cols=382  Identities=13%  Similarity=0.084  Sum_probs=287.6

Q ss_pred             chhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 040367            2 CIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRS   81 (400)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (400)
                      ++|+.+++..|.  +...+..+...+.+.|++++|...|+++.+.+ +.+..++..+...+...|+.++|...++++...
T Consensus       486 ~~~~~a~~~~~~--~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  562 (899)
T TIGR02917       486 EAFEKALSIEPD--FFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAEL  562 (899)
T ss_pred             HHHHHHHhhCCC--cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            456777776665  66677778888888888888888888887764 446777888888888888888888888888776


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc----
Q 040367           82 CFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV----  157 (400)
Q Consensus        82 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----  157 (400)
                      + +.+...+..++..+...|++++|..+++.+.+.. +.+..+|..+..++...|++++|...|+++....+....    
T Consensus       563 ~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  640 (899)
T TIGR02917       563 N-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLL  640 (899)
T ss_pred             C-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHH
Confidence            4 3456677778888888888888888888887654 557778888888888888888888888888766543222    


Q ss_pred             -------ccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC
Q 040367          158 -------EGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGK  230 (400)
Q Consensus       158 -------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  230 (400)
                             .|++++|...++++.+.. +.+..++..++..+...|++++|.++++.+.+.+ +.+...+..+...+...|+
T Consensus       641 l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~  718 (899)
T TIGR02917       641 LADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKD  718 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCC
Confidence                   677888888888887654 4456777888888888888888888888887764 4566677777778888888


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 040367          231 MDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGE  310 (400)
Q Consensus       231 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  310 (400)
                      +++|...++++...+  |+..++..++.++.+.|++++|...++.+.+.. +.+...+..+...|...|++++|.+.|++
T Consensus       719 ~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~  795 (899)
T TIGR02917       719 YPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRT  795 (899)
T ss_pred             HHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            888888888887753  344566677778888888888888888877765 55677777788888888888888888888


Q ss_pred             HHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchh
Q 040367          311 MLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDI  390 (400)
Q Consensus       311 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  390 (400)
                      +.+.. +++...+..+...+...|+ .+|+.+++++.+.. +.+..++..+...+...|++++|.+.++++.+.+.. +.
T Consensus       796 ~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~  871 (899)
T TIGR02917       796 VVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AA  871 (899)
T ss_pred             HHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-Ch
Confidence            87764 3466777777788877787 77888888877652 335566677777778888888888888888875532 55


Q ss_pred             HHHHHHh
Q 040367          391 RAYNCLI  397 (400)
Q Consensus       391 ~~~~~ll  397 (400)
                      .++..+.
T Consensus       872 ~~~~~l~  878 (899)
T TIGR02917       872 AIRYHLA  878 (899)
T ss_pred             HHHHHHH
Confidence            5555444

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=99.98  E-value=2.6e-27  Score=228.38  Aligned_cols=357  Identities=11%  Similarity=0.045  Sum_probs=169.4

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      ++.+|..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.++++...+ +.+..++..+..
T Consensus       464 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  541 (899)
T TIGR02917       464 NASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAG  541 (899)
T ss_pred             CcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHH
Confidence            44445555555555555555555555554432 2233444444455555555555555555554432 223444444555


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCC-----------cccchHHH
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFG-----------VEGFVDKA  164 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----------~~~~~~~a  164 (400)
                      .+.+.|++++|...++++...+ +.+...+..++..+.+.|++++|..+++.+....+...           ..|++++|
T Consensus       542 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  620 (899)
T TIGR02917       542 LYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKA  620 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            5555555555555555544433 33444444455555555555555555555444332211           13445555


Q ss_pred             HHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHc
Q 040367          165 KELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQI  244 (400)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  244 (400)
                      ...++++.+.. +.+...+..+..++.+.|++++|...++++.+.. +.+..++..+...+...|++++|.++++.+.+.
T Consensus       621 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  698 (899)
T TIGR02917       621 VSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQ  698 (899)
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            55555544432 2233444444555555555555555555554432 233444445555555555555555555555444


Q ss_pred             CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHH
Q 040367          245 GVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYN  324 (400)
Q Consensus       245 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  324 (400)
                      + +.+...+..+...+...|++++|...|+.+....  |+..++..++.++...|++++|.+.++++.+.. +.+...+.
T Consensus       699 ~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~  774 (899)
T TIGR02917       699 H-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRT  774 (899)
T ss_pred             C-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            2 2233444444455555555555555555554432  222444444555555555555555555554432 22344444


Q ss_pred             HHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          325 TLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       325 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      .+...+...|++++|..+|+++.+.. +++..++..+...+...|+ ++|+..++++.+
T Consensus       775 ~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~  831 (899)
T TIGR02917       775 ALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALK  831 (899)
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHh
Confidence            44555555555555555555554432 2344444555555555555 445555555543

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

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.95  E-value=1.7e-23  Score=181.71  Aligned_cols=299  Identities=15%  Similarity=0.084  Sum_probs=162.0

Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCCh
Q 040367           62 FCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPN---VFTYNTLINGLYRTGHT  138 (400)
Q Consensus        62 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~  138 (400)
                      +...|++++|...|+++.+.+ +.+..++..+...+...|++++|..+++.+...+..++   ...+..++..+.+.|++
T Consensus        45 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~  123 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLL  123 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCH
Confidence            344555555666666555543 22344555555555556666666666555554321111   13445555556666654


Q ss_pred             HHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----
Q 040367          139 IVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPN----  214 (400)
Q Consensus       139 ~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----  214 (400)
                      ++|..+|+++..                       .. +.+..++..++..+.+.|++++|.+.++.+.+.+..+.    
T Consensus       124 ~~A~~~~~~~l~-----------------------~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  179 (389)
T PRK11788        124 DRAEELFLQLVD-----------------------EG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEI  179 (389)
T ss_pred             HHHHHHHHHHHc-----------------------CC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHH
Confidence            444444433322                       11 23445556666666666666666666666655432211    


Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 040367          215 VVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILING  294 (400)
Q Consensus       215 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  294 (400)
                      ...+..+...+.+.|++++|...++++.+.. +.+...+..+...+.+.|++++|...++++.+.+......++..++.+
T Consensus       180 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  258 (389)
T PRK11788        180 AHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMEC  258 (389)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHH
Confidence            1123344555556666666666666665542 223445555666666666666666666666654312123445566666


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh---cCcH
Q 040367          295 YCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCK---NSYI  371 (400)
Q Consensus       295 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~  371 (400)
                      |...|++++|.+.++++.+..  |+...+..++..+.+.|++++|..+++++.+.  .|+...+..++..+..   .|+.
T Consensus       259 ~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~  334 (389)
T PRK11788        259 YQALGDEAEGLEFLRRALEEY--PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRA  334 (389)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccc
Confidence            666666666666666666542  34444455666666666666666666666654  4566566655555443   3466


Q ss_pred             HHHHHHHHHHHHhcccchh
Q 040367          372 VEAVELFRTLRILKCELDI  390 (400)
Q Consensus       372 ~~a~~~~~~~~~~~~~p~~  390 (400)
                      ++++.++++|.+.++.|+.
T Consensus       335 ~~a~~~~~~~~~~~~~~~p  353 (389)
T PRK11788        335 KESLLLLRDLVGEQLKRKP  353 (389)
T ss_pred             hhHHHHHHHHHHHHHhCCC
Confidence            6666666666665555544

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.94  E-value=3.1e-23  Score=180.09  Aligned_cols=316  Identities=14%  Similarity=0.069  Sum_probs=259.8

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC---hhhHHHHHHH
Q 040367           20 FNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPN---AVTFTSLIKG   96 (400)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~   96 (400)
                      .......+...|++++|+..|+++.+.+ +.+..++..+...+...|++++|..+++.+...+..++   ...+..++..
T Consensus        38 ~y~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~  116 (389)
T PRK11788         38 DYFKGLNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQD  116 (389)
T ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence            3334556778899999999999999875 44677899999999999999999999999987532221   2567888999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCC
Q 040367           97 LCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENI  176 (400)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  176 (400)
                      |...|++++|..+|+++.+.. +.+..++..++..+.+.|+                       +++|.+.++.+.+.+.
T Consensus       117 ~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~-----------------------~~~A~~~~~~~~~~~~  172 (389)
T PRK11788        117 YLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKD-----------------------WQKAIDVAERLEKLGG  172 (389)
T ss_pred             HHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhch-----------------------HHHHHHHHHHHHHhcC
Confidence            999999999999999999764 5678899999999999988                       7889999999987653


Q ss_pred             CCC----hHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHh
Q 040367          177 NPD----VVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFV  252 (400)
Q Consensus       177 ~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  252 (400)
                      .+.    ...+..+...+...|++++|...++++.+.. +.+...+..+...+.+.|++++|.++++++.+.+......+
T Consensus       173 ~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  251 (389)
T PRK11788        173 DSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEV  251 (389)
T ss_pred             CcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHH
Confidence            322    1245567778889999999999999998764 44566788888999999999999999999998643333567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE  332 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  332 (400)
                      +..++.+|...|++++|...++++.+.  .|+...+..++..+.+.|++++|..+++++.+.  .|+..++..++..+..
T Consensus       252 ~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~  327 (389)
T PRK11788        252 LPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLA  327 (389)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhh
Confidence            888999999999999999999999887  456667788999999999999999999999886  5788888887777664


Q ss_pred             ---hCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcH
Q 040367          333 ---IHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYI  371 (400)
Q Consensus       333 ---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  371 (400)
                         .|+.+++..+++++.+.++.|++.      ..|.++|-.
T Consensus       328 ~~~~g~~~~a~~~~~~~~~~~~~~~p~------~~c~~cg~~  363 (389)
T PRK11788        328 EAEEGRAKESLLLLRDLVGEQLKRKPR------YRCRNCGFT  363 (389)
T ss_pred             ccCCccchhHHHHHHHHHHHHHhCCCC------EECCCCCCC
Confidence               568999999999999887777766      236666654

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

Probab=99.94  E-value=1.3e-23  Score=175.90  Aligned_cols=362  Identities=16%  Similarity=0.132  Sum_probs=303.3

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhh-HHHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVT-FTSL   93 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l   93 (400)
                      .-.++|..+...+-..|++++|+.+++.+.+.. +.....|..+..++...|+.+.|.+.|...++.  .|+... ...+
T Consensus       114 q~ae~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~l  190 (966)
T KOG4626|consen  114 QGAEAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDL  190 (966)
T ss_pred             hHHHHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--Ccchhhhhcch
Confidence            356789999999999999999999999999874 346789999999999999999999999999886  444433 3345


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc-----------ccchH
Q 040367           94 IKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV-----------EGFVD  162 (400)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~  162 (400)
                      ...+...|++++|...|.+..+.. +-=...|..|.-.+-..|+...|++.|++....++.+..           .+.++
T Consensus       191 gnLlka~Grl~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d  269 (966)
T KOG4626|consen  191 GNLLKAEGRLEEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFD  269 (966)
T ss_pred             hHHHHhhcccchhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcch
Confidence            555667899999999999888763 334678999999999999999999999999888776544           66778


Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHH
Q 040367          163 KAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMI  242 (400)
Q Consensus       163 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  242 (400)
                      +|+..+.+..... +.....+..+...|...|+.+.|+..|++.++.. +.-...|+.+..++...|+..+|.+.+++.+
T Consensus       270 ~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL  347 (966)
T KOG4626|consen  270 RAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKAL  347 (966)
T ss_pred             HHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHH
Confidence            8888888777653 3456677888888999999999999999999864 3346789999999999999999999999999


Q ss_pred             HcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-hh
Q 040367          243 QIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPD-VV  321 (400)
Q Consensus       243 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~  321 (400)
                      ... +......+.|...|...|.+++|..+|....+.. +.-...++.|...|.++|++++|+..+++.++.  +|+ ..
T Consensus       348 ~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~-p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fAd  423 (966)
T KOG4626|consen  348 RLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALEVF-PEFAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFAD  423 (966)
T ss_pred             HhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHhhC-hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHHH
Confidence            863 3356788899999999999999999999988764 334567889999999999999999999999985  555 45


Q ss_pred             hHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchh
Q 040367          322 IYNTLFVVLFEIHQVERAFKLFDEMQRDGVAAD-TWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDI  390 (400)
Q Consensus       322 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  390 (400)
                      .|+.+...|-..|+.+.|...+.+++..  .|. ...++.|...|-..|+..+|+.-|++.++  ++||.
T Consensus       424 a~~NmGnt~ke~g~v~~A~q~y~rAI~~--nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDf  489 (966)
T KOG4626|consen  424 ALSNMGNTYKEMGDVSAAIQCYTRAIQI--NPTFAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDF  489 (966)
T ss_pred             HHHhcchHHHHhhhHHHHHHHHHHHHhc--CcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCC
Confidence            8899999999999999999999999875  454 67889999999999999999999999987  67775

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.93  E-value=1.8e-21  Score=177.02  Aligned_cols=332  Identities=14%  Similarity=0.064  Sum_probs=210.1

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLC   98 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (400)
                      -.-.++..+.+.|++++|+.+++...... +-+...+..++.+....|+++.|.+.++++.... +.+...+..+...+.
T Consensus        44 ~~~~~~~~~~~~g~~~~A~~l~~~~l~~~-p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~  121 (656)
T PRK15174         44 NIILFAIACLRKDETDVGLTLLSDRVLTA-KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLL  121 (656)
T ss_pred             CHHHHHHHHHhcCCcchhHHHhHHHHHhC-CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHH
Confidence            34556778888999999999999988874 3456667777778888999999999999998875 346677888888999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCC
Q 040367           99 AESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINP  178 (400)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  178 (400)
                      ..|++++|...+++..... +.+...+..+...+...|++++|...++.+....+.                        
T Consensus       122 ~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~------------------------  176 (656)
T PRK15174        122 KSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP------------------------  176 (656)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC------------------------
Confidence            9999999999999998764 456778888999999999977777776665433221                        


Q ss_pred             ChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 040367          179 DVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMD  258 (400)
Q Consensus       179 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  258 (400)
                      +...+..+ ..+...|++++|...++.+.+....++...+..+..++...|++++|...++++.+.. +.+...+..+..
T Consensus       177 ~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~  254 (656)
T PRK15174        177 RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGL  254 (656)
T ss_pred             CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            22222222 2345556666666666665544322233333334455556666666666666665543 224455555666


Q ss_pred             HHHhcCCHHH----HHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhC
Q 040367          259 GFCLTGRVNR----AKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIH  334 (400)
Q Consensus       259 ~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  334 (400)
                      ++...|++++    |...++++.+.. +.+...+..+...+...|++++|...++++.+.... +...+..+..++.+.|
T Consensus       255 ~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-~~~a~~~La~~l~~~G  332 (656)
T PRK15174        255 AYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-LPYVRAMYARALRQVG  332 (656)
T ss_pred             HHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCC
Confidence            6666666553    566666665543 334555566666666666666666666666654322 3444555556666666


Q ss_pred             cHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          335 QVERAFKLFDEMQRDGVAADT-WTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       335 ~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      ++++|...++++.+.  .|+. ..+..+..++...|++++|...|++..+
T Consensus       333 ~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~  380 (656)
T PRK15174        333 QYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQ  380 (656)
T ss_pred             CHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            666666666665553  2222 2233334455566666666666666554

>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=99.93  E-value=8.1e-21  Score=173.36  Aligned_cols=357  Identities=11%  Similarity=0.008  Sum_probs=274.2

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 040367           20 FNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCA   99 (400)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (400)
                      +......+.+.|++++|+..|++....  .|+...|..+..+|.+.|++++|++.++..++.+ +.+...+..+..+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            556778899999999999999999876  5788899999999999999999999999999875 3467788889999999


Q ss_pred             cCCHHHHHHHHHHHHHcCC-----------------------------CCCHHHHHHHHH--------------------
Q 040367          100 ESRIMEAAALFTKLRVFGC-----------------------------EPNVFTYNTLIN--------------------  130 (400)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~~-----------------------------~~~~~~~~~l~~--------------------  130 (400)
                      .|++++|+..|..+...+-                             +++...+..+..                    
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  286 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNEL  286 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccc
Confidence            9999999876654432210                             000000000000                    


Q ss_pred             ----------HH------HhcCChHHHHHHHHHHHcCCCC-C-------------CcccchHHHHHHHHHHHhCCCCCCh
Q 040367          131 ----------GL------YRTGHTIVALNLFEEMASGNGE-F-------------GVEGFVDKAKELFLQMKDENINPDV  180 (400)
Q Consensus       131 ----------~~------~~~~~~~~a~~~~~~~~~~~~~-~-------------~~~~~~~~a~~~~~~~~~~~~~~~~  180 (400)
                                ..      ...+++++|...|+.....+.. +             ...|++++|+..+++..... +...
T Consensus       287 ~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~  365 (615)
T TIGR00990       287 DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVT  365 (615)
T ss_pred             ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcH
Confidence                      00      1125678888888888865421 1             11788999999999988764 3346


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 040367          181 VTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGF  260 (400)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  260 (400)
                      ..|..+..++...|++++|+..++++.+.. +.+...+..+...+...|++++|...|++.++.. +.+...+..+..++
T Consensus       366 ~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~  443 (615)
T TIGR00990       366 QSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQ  443 (615)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHH
Confidence            678888888999999999999999998764 4567888889999999999999999999998864 33567777888899


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchh------hHHHHHHHHHhhC
Q 040367          261 CLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVV------IYNTLFVVLFEIH  334 (400)
Q Consensus       261 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~  334 (400)
                      .+.|++++|+..|++..+.. +.+...++.+...+...|++++|.+.|++..+.....+..      .++.....+...|
T Consensus       444 ~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~  522 (615)
T TIGR00990       444 YKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQ  522 (615)
T ss_pred             HHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhh
Confidence            99999999999999988764 5567888999999999999999999999988764321111      1122222333469


Q ss_pred             cHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Q 040367          335 QVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       335 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                      ++++|.++++++.+.. +.+...+..+...+...|++++|++.|++..+.
T Consensus       523 ~~~eA~~~~~kAl~l~-p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       523 DFIEAENLCEKALIID-PECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             hHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            9999999999988763 334567888999999999999999999998764

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.93  E-value=1.8e-21  Score=188.78  Aligned_cols=371  Identities=11%  Similarity=0.036  Sum_probs=233.0

Q ss_pred             hhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCC-CHHHH------------HHHHHHHHhcCChh
Q 040367            3 IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFP-DLYTY------------NILINCFCKMGRVS   69 (400)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~------------~~l~~~~~~~~~~~   69 (400)
                      .|+..++..|.  +...+..+...+.+.|++++|+..|++..+..... ....+            ......+.+.|+++
T Consensus       291 ~l~~aL~~~P~--~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~  368 (1157)
T PRK11447        291 ELQQAVRANPK--DSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLA  368 (1157)
T ss_pred             HHHHHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHH
Confidence            45556665554  66666666677777777777777777666543111 11111            11233455667777


Q ss_pred             hHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 040367           70 HGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMA  149 (400)
Q Consensus        70 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  149 (400)
                      +|+..++++.+.. +.+...+..+..++...|++++|++.|+++.+.. +.+...+..+...+. .++.++|+.+++.+.
T Consensus       369 eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~  445 (1157)
T PRK11447        369 QAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYR-QQSPEKALAFIASLS  445 (1157)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-hcCHHHHHHHHHhCC
Confidence            7777777766653 2344555566666777777777777777766553 334445555555543 345566665555432


Q ss_pred             cCCC--------------------CCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          150 SGNG--------------------EFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ  209 (400)
Q Consensus       150 ~~~~--------------------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  209 (400)
                      ....                    .+...|++++|++.+++..+.. |.+...+..+...+.+.|++++|...++++.+.
T Consensus       446 ~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~  524 (1157)
T PRK11447        446 ASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQ  524 (1157)
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            2110                    0112577788888888877764 345666777777888888888888888887764


Q ss_pred             CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHc---------------------------------------CCCCCH
Q 040367          210 GVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQI---------------------------------------GVRPNA  250 (400)
Q Consensus       210 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------------------------------------~~~~~~  250 (400)
                      . +.+...+..+...+...++.++|...++.+...                                       ..+.+.
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 223333333333334444444444444332110                                       123345


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHH
Q 040367          251 FVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVL  330 (400)
Q Consensus       251 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  330 (400)
                      ..+..+...+.+.|++++|+..|+++.+.. +.+...+..++..+...|++++|.+.++.+.+.. +.+...+..+..++
T Consensus       604 ~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~  681 (1157)
T PRK11447        604 RIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAW  681 (1157)
T ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHH
Confidence            556677778888888888888888888775 5567788888888888888888888888777653 22455566677788


Q ss_pred             HhhCcHHHHHHHHHHHHHcCC--CC---CHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          331 FEIHQVERAFKLFDEMQRDGV--AA---DTWTYRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       331 ~~~~~~~~a~~~~~~~~~~~~--~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                      ...|++++|.++++++.....  +|   +...+..+...+...|++++|++.|++.+
T Consensus       682 ~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al  738 (1157)
T PRK11447        682 AALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAM  738 (1157)
T ss_pred             HhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            888888888888888876522  12   23455666777888888888888888886

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.93  E-value=1.2e-20  Score=171.68  Aligned_cols=347  Identities=9%  Similarity=0.013  Sum_probs=260.3

Q ss_pred             hhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcC
Q 040367            3 IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSC   82 (400)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   82 (400)
                      +++..+...|.  +...+..++.+....|+++.|+..|+++.+.. |.+...+..+...+...|++++|...++++.+..
T Consensus        64 l~~~~l~~~p~--~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~  140 (656)
T PRK15174         64 LLSDRVLTAKN--GRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF  140 (656)
T ss_pred             HhHHHHHhCCC--chhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            45666677776  56677777888889999999999999999875 5567889999999999999999999999999874


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchH
Q 040367           83 FTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVD  162 (400)
Q Consensus        83 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  162 (400)
                       +.+...+..+...+...|++++|...++.+.... +.+...+..+ ..+...|++++|...++.+.             
T Consensus       141 -P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~-P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l-------------  204 (656)
T PRK15174        141 -SGNSQIFALHLRTLVLMDKELQAISLARTQAQEV-PPRGDMIATC-LSFLNKSRLPEDHDLARALL-------------  204 (656)
T ss_pred             -CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHH-------------
Confidence             4467788889999999999999999999887664 3344444443 34778888666666655543             


Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHH----HHHHH
Q 040367          163 KAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDE----ASRLL  238 (400)
Q Consensus       163 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~  238 (400)
                                +....++......+..++...|++++|+..++++.+.+ +.+...+..+...+...|++++    |...+
T Consensus       205 ----------~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~  273 (656)
T PRK15174        205 ----------PFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHW  273 (656)
T ss_pred             ----------hcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHH
Confidence                      33212233444555678889999999999999998764 4567788888889999999885    79999


Q ss_pred             HHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 040367          239 DLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKP  318 (400)
Q Consensus       239 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  318 (400)
                      +++.+.. +.+...+..+..++...|++++|...++++.+.. +.+...+..+..++.+.|++++|.+.++++.+.+.. 
T Consensus       274 ~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~-  350 (656)
T PRK15174        274 RHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGV-  350 (656)
T ss_pred             HHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-
Confidence            9998864 3367788889999999999999999999998875 556777888889999999999999999999876422 


Q ss_pred             chhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHH----HHHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          319 DVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTW----TYRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       319 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                      +...+..+..++...|++++|...|+++.+....-...    ....+-.++...+..++...+..++.
T Consensus       351 ~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~~~~~~ea~~~~~~~~~~~~~~~~~~~W~~~~~  418 (656)
T PRK15174        351 TSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHLPQSFEEGLLALDGQISAVNLPPERLDWAWEVA  418 (656)
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhchhhHHHHHHHHHHHHHhcCCccchhhHHHHHh
Confidence            22334445677889999999999999988752211122    22233333444444444434555554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.93  E-value=2e-20  Score=173.77  Aligned_cols=379  Identities=10%  Similarity=-0.010  Sum_probs=283.8

Q ss_pred             hhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcC
Q 040367            3 IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSC   82 (400)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   82 (400)
                      +|..+....+  .+...+..+...+.+.|++++|..+|++..+.. +.+...+..+..++...|++++|+..++++.+..
T Consensus        37 ~~~~~~~~~~--~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~  113 (765)
T PRK10049         37 VYNRYRVHMQ--LPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA  113 (765)
T ss_pred             HHHHHHhhCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            4555554333  366678888999999999999999999988764 4567778888888999999999999999998874


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCC----------
Q 040367           83 FTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGN----------  152 (400)
Q Consensus        83 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----------  152 (400)
                       +.+.. +..+..++...|++++|+..++++.+.. +.+...+..+..++...+..+.|+..++.+....          
T Consensus       114 -P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~  190 (765)
T PRK10049        114 -PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADA  190 (765)
T ss_pred             -CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHH
Confidence             34555 8888888999999999999999999874 4466677778888888899998998887655410          


Q ss_pred             ----------CCCCcccch---HHHHHHHHHHHhC-CCCCChH-hHH----HHHHHHHhcCCHHHHHHHHHHHHhCCCC-
Q 040367          153 ----------GEFGVEGFV---DKAKELFLQMKDE-NINPDVV-TYT----SVIRGFCYANDWNEAKCLLIEMMDQGVQ-  212 (400)
Q Consensus       153 ----------~~~~~~~~~---~~a~~~~~~~~~~-~~~~~~~-~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~-  212 (400)
                                ......+++   ++|++.++.+.+. ...|+.. .+.    ..+.++...|++++|+..|+.+.+.+.+ 
T Consensus       191 ~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~  270 (765)
T PRK10049        191 AAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQII  270 (765)
T ss_pred             HHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCC
Confidence                      000112233   6788888888753 1122221 111    1133456779999999999999987532 


Q ss_pred             CCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCC---CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC--------
Q 040367          213 PNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRP---NAFVYNTLMDGFCLTGRVNRAKELFVSMESMGC--------  281 (400)
Q Consensus       213 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------  281 (400)
                      |+. ....+...|...|++++|...|+++.+.....   .......+..++...|++++|...++.+.....        
T Consensus       271 P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~  349 (765)
T PRK10049        271 PPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGS  349 (765)
T ss_pred             CHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCC
Confidence            322 22335778999999999999999988753211   134456677788999999999999999987531        


Q ss_pred             ---CCC---hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCH
Q 040367          282 ---THT---VFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADT  355 (400)
Q Consensus       282 ---~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  355 (400)
                         .|+   ...+..+...+...|++++|++.++++.... +.+...+..+...+...|++++|++.++++.... +.+.
T Consensus       350 ~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~-Pd~~  427 (765)
T PRK10049        350 PTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEVLE-PRNI  427 (765)
T ss_pred             CCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC-CCCh
Confidence               122   2245567788899999999999999998874 4467888899999999999999999999999863 3347


Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHH
Q 040367          356 WTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRA  392 (400)
Q Consensus       356 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  392 (400)
                      ..+...+..+...|++++|..+++++++.  .|+...
T Consensus       428 ~l~~~~a~~al~~~~~~~A~~~~~~ll~~--~Pd~~~  462 (765)
T PRK10049        428 NLEVEQAWTALDLQEWRQMDVLTDDVVAR--EPQDPG  462 (765)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCCCHH
Confidence            77778888899999999999999999973  555543

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

Probab=99.92  E-value=5.2e-21  Score=160.51  Aligned_cols=350  Identities=14%  Similarity=0.118  Sum_probs=295.7

Q ss_pred             chhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCChhhHHHHHHHHHh
Q 040367            2 CIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLY-TYNILINCFCKMGRVSHGFVVLGRILR   80 (400)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~   80 (400)
                      .++..+++..|.  .++.|-.+..++...|+.+.|.+.|.+..+.  .|+.. ....+...+-..|+.++|...|.+.++
T Consensus       137 ~~y~~aiel~p~--fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~  212 (966)
T KOG4626|consen  137 ALYRAAIELKPK--FIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKACYLKAIE  212 (966)
T ss_pred             HHHHHHHhcCch--hhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHHHHHHHh
Confidence            467778888876  8999999999999999999999999999987  46544 445566677779999999999999988


Q ss_pred             cCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCC-----
Q 040367           81 SCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEF-----  155 (400)
Q Consensus        81 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----  155 (400)
                      .. +--...|..|...+-..|+...|++.|++..+.. +--...|..|...|...+.++.|+..+.+.....+..     
T Consensus       213 ~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld-P~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn~A~a~g  290 (966)
T KOG4626|consen  213 TQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD-PNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPNHAVAHG  290 (966)
T ss_pred             hC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCC-CcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCcchhhcc
Confidence            74 2235678999999999999999999999998764 3347789999999999999999999999988765543     


Q ss_pred             ------CcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC
Q 040367          156 ------GVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNG  229 (400)
Q Consensus       156 ------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  229 (400)
                            -.+|.++.|++.+++..+.. |-=...|+.|..++...|++.+|.+.|.+.+... +......+.+...+...|
T Consensus       291 Nla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~  368 (966)
T KOG4626|consen  291 NLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQG  368 (966)
T ss_pred             ceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhc
Confidence                  33999999999999999874 3336789999999999999999999999999863 446778999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 040367          230 KMDEASRLLDLMIQIGVRP-NAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLY  308 (400)
Q Consensus       230 ~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  308 (400)
                      .+++|..+|....+-  .| -...++.|...|-++|++++|+..|++..+.. +.-...|+.+...|-..|+.+.|.+.+
T Consensus       369 ~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~-P~fAda~~NmGnt~ke~g~v~~A~q~y  445 (966)
T KOG4626|consen  369 KIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIK-PTFADALSNMGNTYKEMGDVSAAIQCY  445 (966)
T ss_pred             cchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcC-chHHHHHHhcchHHHHhhhHHHHHHHH
Confidence            999999999999885  33 35678899999999999999999999999874 334678999999999999999999999


Q ss_pred             HHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHH
Q 040367          309 GEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAAD-TWTYRTFIDGL  365 (400)
Q Consensus       309 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  365 (400)
                      .+++..++. -...++.|...+-..|+..+|++-++..++.  .|| +..|..++.+.
T Consensus       446 ~rAI~~nPt-~AeAhsNLasi~kDsGni~~AI~sY~~aLkl--kPDfpdA~cNllh~l  500 (966)
T KOG4626|consen  446 TRAIQINPT-FAEAHSNLASIYKDSGNIPEAIQSYRTALKL--KPDFPDAYCNLLHCL  500 (966)
T ss_pred             HHHHhcCcH-HHHHHhhHHHHhhccCCcHHHHHHHHHHHcc--CCCCchhhhHHHHHH
Confidence            999986422 3457889999999999999999999999985  555 55666666554

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.91  E-value=2.2e-19  Score=174.42  Aligned_cols=371  Identities=12%  Similarity=0.064  Sum_probs=226.8

Q ss_pred             hhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHH----------------HHHHHHHHhcC
Q 040367            3 IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTY----------------NILINCFCKMG   66 (400)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----------------~~l~~~~~~~~   66 (400)
                      .+++++...|.  |+..+..++..+.+.|+.++|.+.++++.+.. +.+....                ..+...+...|
T Consensus        50 ~l~kl~~~~p~--~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~-P~~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g  126 (1157)
T PRK11447         50 SLYRLELIDPN--NPDVIAARFRLLLRQGDSDGAQKLLDRLSQLA-PDSNAYRSSRTTMLLSTPEGRQALQQARLLATTG  126 (1157)
T ss_pred             HHHHHHccCCC--CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHhcCCchhhHHHHHHHHHhCC
Confidence            45666666666  88889999999999999999999999999875 3343332                23344678899


Q ss_pred             ChhhHHHHHHHHHhcCCCCChh-hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 040367           67 RVSHGFVVLGRILRSCFTPNAV-TFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLF  145 (400)
Q Consensus        67 ~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  145 (400)
                      ++++|.+.|+.+.+.+ +|+.. ............|+.++|.+.++++.+.. +.+...+..+...+...|+.++|+..+
T Consensus       127 ~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~~~g~~~eAl~~l  204 (1157)
T PRK11447        127 RTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLLFSSGRRDEGFAVL  204 (1157)
T ss_pred             CHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            9999999999998764 33332 11122222334689999999999999875 557788889999999999999999999


Q ss_pred             HHHHcCCCCCCc-------------------------------ccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcC
Q 040367          146 EEMASGNGEFGV-------------------------------EGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYAN  194 (400)
Q Consensus       146 ~~~~~~~~~~~~-------------------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  194 (400)
                      +++.........                               ......+...+.........|+.. .......+...|
T Consensus       205 ~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~-~~~~G~~~~~~g  283 (1157)
T PRK11447        205 EQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFR-ARAQGLAAVDSG  283 (1157)
T ss_pred             HHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchH-HHHHHHHHHHCC
Confidence            988654321000                               000111222222211111111111 112233455566


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH-H------------hHHHHHHHHH
Q 040367          195 DWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNA-F------------VYNTLMDGFC  261 (400)
Q Consensus       195 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~------------~~~~l~~~~~  261 (400)
                      ++++|+..|++.++.. +.+...+..+..++.+.|++++|...|++..+....... .            ........+.
T Consensus       284 ~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~  362 (1157)
T PRK11447        284 QGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAAL  362 (1157)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHH
Confidence            6666666666666542 335555666666666666666666666666554221110 0            0112234455


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhH------------------
Q 040367          262 LTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIY------------------  323 (400)
Q Consensus       262 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~------------------  323 (400)
                      +.|++++|...|+++.+.. +.+...+..+...+...|++++|++.|+++.+.... +...+                  
T Consensus       363 ~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~~~~~~~A~~~  440 (1157)
T PRK11447        363 KANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYRQQSPEKALAF  440 (1157)
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCHHHHHHH
Confidence            6666666666666666554 334455555666666666666666666666554211 11111                  


Q ss_pred             ------------------------HHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHH
Q 040367          324 ------------------------NTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFR  379 (400)
Q Consensus       324 ------------------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  379 (400)
                                              ..+...+...|++++|++.++++++.. +.+...+..+...|.+.|++++|...++
T Consensus       441 l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~  519 (1157)
T PRK11447        441 IASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMR  519 (1157)
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence                                    122334456788888888888887752 2246667777778888888888888888


Q ss_pred             HHHH
Q 040367          380 TLRI  383 (400)
Q Consensus       380 ~~~~  383 (400)
                      ++.+
T Consensus       520 ~al~  523 (1157)
T PRK11447        520 RLAQ  523 (1157)
T ss_pred             HHHH
Confidence            8775

>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=99.91  E-value=3.5e-19  Score=162.70  Aligned_cols=328  Identities=12%  Similarity=0.047  Sum_probs=257.8

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 040367           54 TYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLY  133 (400)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  133 (400)
                      .+......+.+.|++++|+..|++.+..  .|+...|..+..+|.+.|++++|++.+++..+.. +.+...|..+..++.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~  205 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            3556778899999999999999999876  5677889999999999999999999999999875 457789999999999


Q ss_pred             hcCChHHHHHHHHHHHcCC------------------------------CCC----------------------------
Q 040367          134 RTGHTIVALNLFEEMASGN------------------------------GEF----------------------------  155 (400)
Q Consensus       134 ~~~~~~~a~~~~~~~~~~~------------------------------~~~----------------------------  155 (400)
                      ..|++++|+..|..+...+                              +..                            
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  285 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNE  285 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccc
Confidence            9999999987554332110                              000                            


Q ss_pred             -------------------CcccchHHHHHHHHHHHhCC--CCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 040367          156 -------------------GVEGFVDKAKELFLQMKDEN--INPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPN  214 (400)
Q Consensus       156 -------------------~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  214 (400)
                                         ...+.+++|.+.|+...+.+  .+.....+..+...+...|++++|+..+++.++.. +..
T Consensus       286 ~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~  364 (615)
T TIGR00990       286 LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRV  364 (615)
T ss_pred             cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCc
Confidence                               00145778888888887754  23345667888888889999999999999998763 334


Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 040367          215 VVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILING  294 (400)
Q Consensus       215 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  294 (400)
                      ...|..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...|++..+.. +.+...+..+...
T Consensus       365 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~  442 (615)
T TIGR00990       365 TQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVT  442 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHH
Confidence            6678888888999999999999999998864 3467788889999999999999999999998876 5567778888899


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCH------HHHHHHHHHHHhc
Q 040367          295 YCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADT------WTYRTFIDGLCKN  368 (400)
Q Consensus       295 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~  368 (400)
                      +.+.|++++|+..+++.++.. +.+...++.+...+...|++++|++.|++..+.....+.      ..+......+...
T Consensus       443 ~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~  521 (615)
T TIGR00990       443 QYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWK  521 (615)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHh
Confidence            999999999999999998763 336778888999999999999999999998875321111      1122222233446


Q ss_pred             CcHHHHHHHHHHHHHhcccchh
Q 040367          369 SYIVEAVELFRTLRILKCELDI  390 (400)
Q Consensus       369 g~~~~a~~~~~~~~~~~~~p~~  390 (400)
                      |++++|.+++++....  .|+.
T Consensus       522 ~~~~eA~~~~~kAl~l--~p~~  541 (615)
T TIGR00990       522 QDFIEAENLCEKALII--DPEC  541 (615)
T ss_pred             hhHHHHHHHHHHHHhc--CCCc
Confidence            9999999999998864  4544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.89  E-value=6.8e-18  Score=157.10  Aligned_cols=364  Identities=10%  Similarity=0.023  Sum_probs=273.2

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      ++.-..-.+......|+.++|++++++..... +.+...+..+...+...|++++|.+++++.++.. +.+...+..++.
T Consensus        14 ~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~   91 (765)
T PRK10049         14 SNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLIL   91 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            55555666778889999999999999998733 4566779999999999999999999999998874 445777888889


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc-----------ccchHHH
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV-----------EGFVDKA  164 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~~a  164 (400)
                      ++...|++++|...++++.+.. +.+.. +..+..++...|+.++|+..++++....+....           .+..+.|
T Consensus        92 ~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~A  169 (765)
T PRK10049         92 TLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPA  169 (765)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHH
Confidence            9999999999999999999874 45666 889999999999999999999999988776433           4566677


Q ss_pred             HHHHHHHHhCCCCCCh------HhHHHHHHHHH-----hcCCH---HHHHHHHHHHHhC-CCCCCHH-HH----HHHHHH
Q 040367          165 KELFLQMKDENINPDV------VTYTSVIRGFC-----YANDW---NEAKCLLIEMMDQ-GVQPNVV-TF----NVIMDE  224 (400)
Q Consensus       165 ~~~~~~~~~~~~~~~~------~~~~~l~~~~~-----~~~~~---~~a~~~~~~~~~~-~~~~~~~-~~----~~l~~~  224 (400)
                      ++.++....   .|+.      .....++....     ..+++   ++|++.++.+.+. ...|+.. .+    ...+..
T Consensus       170 l~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~  246 (765)
T PRK10049        170 LGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGA  246 (765)
T ss_pred             HHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHH
Confidence            777766554   1221      11222222222     22234   7788888888854 1222221 11    111345


Q ss_pred             HHhCCChHHHHHHHHHHHHcCCC-CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCC
Q 040367          225 LCKNGKMDEASRLLDLMIQIGVR-PNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTH---TVFSYSILINGYCKNKE  300 (400)
Q Consensus       225 ~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~  300 (400)
                      +...|++++|...|+++.+.+.+ |+. ....+..+|...|++++|+..|+++.+.....   .......+..++...|+
T Consensus       247 Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~  325 (765)
T PRK10049        247 LLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESEN  325 (765)
T ss_pred             HHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhccc
Confidence            56779999999999999887532 332 22335778999999999999999987653111   12346667778899999


Q ss_pred             HHHHHHHHHHHHhCCC-----------CCc---hhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 040367          301 IEGALSLYGEMLSKGI-----------KPD---VVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLC  366 (400)
Q Consensus       301 ~~~a~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  366 (400)
                      +++|.++++.+.+...           .|+   ...+..+...+...|++++|+++++++... .+.+...+..+...+.
T Consensus       326 ~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~-~P~n~~l~~~lA~l~~  404 (765)
T PRK10049        326 YPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN-APGNQGLRIDYASVLQ  404 (765)
T ss_pred             HHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHH
Confidence            9999999999987531           122   124456777888999999999999999886 4556888999999999


Q ss_pred             hcCcHHHHHHHHHHHHHhcccchh
Q 040367          367 KNSYIVEAVELFRTLRILKCELDI  390 (400)
Q Consensus       367 ~~g~~~~a~~~~~~~~~~~~~p~~  390 (400)
                      ..|++++|++.+++...  +.|+.
T Consensus       405 ~~g~~~~A~~~l~~al~--l~Pd~  426 (765)
T PRK10049        405 ARGWPRAAENELKKAEV--LEPRN  426 (765)
T ss_pred             hcCCHHHHHHHHHHHHh--hCCCC
Confidence            99999999999999997  45765

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.88  E-value=3.1e-17  Score=150.16  Aligned_cols=375  Identities=10%  Similarity=-0.004  Sum_probs=246.8

Q ss_pred             chhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 040367            2 CIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRS   81 (400)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (400)
                      +.|+.+++..|.  +......++..+...|+.++|+..+++..... +........+...+...|++++|+++|+++.+.
T Consensus        55 ~~L~qaL~~~P~--~~~av~dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~  131 (822)
T PRK14574         55 DYLQEESKAGPL--QSGQVDDWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEKRWDQALALWQSSLKK  131 (822)
T ss_pred             HHHHHHHhhCcc--chhhHHHHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            345555555554  32111155556666666666666666666211 222333333345666666777777777766665


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc----
Q 040367           82 CFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV----  157 (400)
Q Consensus        82 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----  157 (400)
                      .+ .+...+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|+..++++....+....    
T Consensus       132 dP-~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~P~n~e~~~~  208 (822)
T PRK14574        132 DP-TNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLAPTSEEVLKN  208 (822)
T ss_pred             CC-CCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            42 23455555566666666666666666666654  344444433333333344444566666666555433221    


Q ss_pred             ----------------------------------------------------cc---chHHHHHHHHHHHhC--CCCCCh
Q 040367          158 ----------------------------------------------------EG---FVDKAKELFLQMKDE--NINPDV  180 (400)
Q Consensus       158 ----------------------------------------------------~~---~~~~a~~~~~~~~~~--~~~~~~  180 (400)
                                                                          ..   ..+.|+.-++.+...  ..|+..
T Consensus       209 ~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~  288 (822)
T PRK14574        209 HLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQ  288 (822)
T ss_pred             HHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccc
Confidence                                                                11   234455556665542  112221


Q ss_pred             HhH----HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCC-----CCCHH
Q 040367          181 VTY----TSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV-----RPNAF  251 (400)
Q Consensus       181 ~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~  251 (400)
                      ..|    .-.+-++...|++.++++.|+.+...+.+....+-..+.++|...+++++|..++..+.....     .++..
T Consensus       289 ~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~  368 (822)
T PRK14574        289 ADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLL  368 (822)
T ss_pred             hHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchH
Confidence            222    233457788899999999999999888666677888999999999999999999999877531     22333


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-----------CCCh---hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 040367          252 VYNTLMDGFCLTGRVNRAKELFVSMESMGC-----------THTV---FSYSILINGYCKNKEIEGALSLYGEMLSKGIK  317 (400)
Q Consensus       252 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  317 (400)
                      ....|.-++...+++++|..+++.+.+...           .||+   .....++..+...|++.+|++.++++.... +
T Consensus       369 ~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P  447 (822)
T PRK14574        369 DADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-P  447 (822)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            356788899999999999999999987421           1221   123456777888999999999999998764 4


Q ss_pred             CchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Q 040367          318 PDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       318 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                      -|......+...+...|.+.+|.+.++.+... -+-+..+....+.++...|++++|..+.+.+.+.
T Consensus       448 ~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l-~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~  513 (822)
T PRK14574        448 ANQNLRIALASIYLARDLPRKAEQELKAVESL-APRSLILERAQAETAMALQEWHQMELLTDDVISR  513 (822)
T ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh-CCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh
Confidence            48888889999999999999999999777665 2335677778888889999999999999888763

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.86  E-value=5.4e-17  Score=151.63  Aligned_cols=117  Identities=10%  Similarity=0.049  Sum_probs=66.1

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHH
Q 040367          263 TGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKL  342 (400)
Q Consensus       263 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  342 (400)
                      .|++++|...+++..+..  |+...+..+..++.+.|++++|...+++..+..+. +...+..+..++...|++++|+..
T Consensus       589 ~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd-~~~a~~nLG~aL~~~G~~eeAi~~  665 (987)
T PRK09782        589 PGQPELALNDLTRSLNIA--PSANAYVARATIYRQRHNVPAAVSDLRAALELEPN-NSNYQAALGYALWDSGDIAQSREM  665 (987)
T ss_pred             CCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHH
Confidence            355555555555555442  34555555555666666666666666666555322 444555555556666666666666


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          343 FDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       343 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      ++++.+.. +.+...+..+..++...|++++|+..+++..+
T Consensus       666 l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~  705 (987)
T PRK09782        666 LERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVID  705 (987)
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            66665541 22455555666666666666666666666654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.85  E-value=6.7e-16  Score=141.52  Aligned_cols=363  Identities=12%  Similarity=0.021  Sum_probs=270.4

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDL--YTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKG   96 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   96 (400)
                      +-..-+-...+.|+++.|++.|++..+..  |+.  ..+ .++..+...|+.++|+..+++..... .........+...
T Consensus        36 ~~y~~aii~~r~Gd~~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~l  111 (822)
T PRK14574         36 TQYDSLIIRARAGDTAPVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARA  111 (822)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHH
Confidence            33344446789999999999999999874  443  344 88888999999999999999998221 2233334444668


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc----------ccchHHHHH
Q 040367           97 LCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV----------EGFVDKAKE  166 (400)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~~a~~  166 (400)
                      +...|++++|+++|+++.+.. +.++..+..++..+...++.++|++.++++....+....          .+...+|++
T Consensus       112 y~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~  190 (822)
T PRK14574        112 YRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQ  190 (822)
T ss_pred             HHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHH
Confidence            889999999999999999885 456788888899999999999999999999887765322          355556999


Q ss_pred             HHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHH------------------------------------------
Q 040367          167 LFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLI------------------------------------------  204 (400)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~------------------------------------------  204 (400)
                      .++++.+.. |.+...+..+..+..+.|-...|.++..                                          
T Consensus       191 ~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~  269 (822)
T PRK14574        191 ASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADK  269 (822)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHH
Confidence            999998875 4456666666666666665444443333                                          


Q ss_pred             ------HHHhC-CCCCCH-H----HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHH
Q 040367          205 ------EMMDQ-GVQPNV-V----TFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKEL  272 (400)
Q Consensus       205 ------~~~~~-~~~~~~-~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  272 (400)
                            .+... +..|.. .    ...-.+-++...|++.++++.++.+...+.+....+-..+.++|...+++++|..+
T Consensus       270 ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l  349 (822)
T PRK14574        270 ALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPI  349 (822)
T ss_pred             HHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHH
Confidence                  22221 111221 1    12234457778899999999999999887665667888999999999999999999


Q ss_pred             HHHHHhcCC-----CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-----------CCch---hhHHHHHHHHHhh
Q 040367          273 FVSMESMGC-----THTVFSYSILINGYCKNKEIEGALSLYGEMLSKGI-----------KPDV---VIYNTLFVVLFEI  333 (400)
Q Consensus       273 ~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~~---~~~~~l~~~~~~~  333 (400)
                      |+.+.....     +++......|..++...+++++|..+++++.+..+           .||.   .....++..+...
T Consensus       350 ~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~  429 (822)
T PRK14574        350 LSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVAL  429 (822)
T ss_pred             HHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHc
Confidence            999976431     22333357788999999999999999999987421           1222   1234456778889


Q ss_pred             CcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchh
Q 040367          334 HQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDI  390 (400)
Q Consensus       334 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  390 (400)
                      |+..+|++.++++... -+-|......+.+.+...|.+.+|.+.++....  +.|+.
T Consensus       430 gdl~~Ae~~le~l~~~-aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~--l~P~~  483 (822)
T PRK14574        430 NDLPTAQKKLEDLSST-APANQNLRIALASIYLARDLPRKAEQELKAVES--LAPRS  483 (822)
T ss_pred             CCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh--hCCcc
Confidence            9999999999999876 355888999999999999999999999987775  35654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.84  E-value=5e-16  Score=125.34  Aligned_cols=347  Identities=13%  Similarity=0.168  Sum_probs=258.5

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLI   94 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (400)
                      .+..++..+|.++++--..++|.+++++......+.+..+||.+|.+-.-.    ...+++.+|.+....||..|+|+++
T Consensus       205 KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~Pnl~TfNalL  280 (625)
T KOG4422|consen  205 KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPNLFTFNALL  280 (625)
T ss_pred             CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCchHhHHHHH
Confidence            478899999999999999999999999998887788999999999765433    2378899999999999999999999


Q ss_pred             HHHHhcCCHHH----HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHH-HHHHHHHHHcCCCCCCcccchHHHHHHHH
Q 040367           95 KGLCAESRIME----AAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIV-ALNLFEEMASGNGEFGVEGFVDKAKELFL  169 (400)
Q Consensus        95 ~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~~~~~~~~~~~~a~~~~~  169 (400)
                      ++..+.|+++.    |.+++.+|++.|+.|...+|..+|..+.+.+++.+ |..++..+                   ..
T Consensus       281 ~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI-------------------~N  341 (625)
T KOG4422|consen  281 SCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDI-------------------QN  341 (625)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHH-------------------HH
Confidence            99999998865    56788899999999999999999999998888643 22233222                   22


Q ss_pred             HHHhCCC----CCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CCCC---HHHHHHHHHHHHhCCChHHHHHHH
Q 040367          170 QMKDENI----NPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQG----VQPN---VVTFNVIMDELCKNGKMDEASRLL  238 (400)
Q Consensus       170 ~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~l~~~~~~~~~~~~a~~~~  238 (400)
                      .+....+    +.|..-|...+..|.+..+.+-|.++..-+....    +.|+   ..-|..+....++....+.....|
T Consensus       342 ~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y  421 (625)
T KOG4422|consen  342 SLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWY  421 (625)
T ss_pred             hhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2222222    2345567778888999999998888876665321    2333   234667777888888999999999


Q ss_pred             HHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC-CH--------HH-----H
Q 040367          239 DLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNK-EI--------EG-----A  304 (400)
Q Consensus       239 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~--------~~-----a  304 (400)
                      +.+.-.-.-|+..+...++++....|.++-..++|..+...|...+...-..++..+++.+ ++        ..     |
T Consensus       422 ~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~a  501 (625)
T KOG4422|consen  422 EDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCA  501 (625)
T ss_pred             HHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHH
Confidence            9998887788888999999999999999999999998888775555554444444444433 11        00     1


Q ss_pred             HHHH-------HHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcC-C---CCCHHHHHHHHHHHHhcCcHHH
Q 040367          305 LSLY-------GEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDG-V---AADTWTYRTFIDGLCKNSYIVE  373 (400)
Q Consensus       305 ~~~~-------~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~---~~~~~~~~~l~~~~~~~g~~~~  373 (400)
                      ..++       .++.+  ........+..+..+.+.|..++|.++|..+.+.+ -   .|.......+++.-...++...
T Consensus       502 ad~~e~~e~~~~R~r~--~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsq  579 (625)
T KOG4422|consen  502 ADIKEAYESQPIRQRA--QDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQ  579 (625)
T ss_pred             HHHHHHHHhhHHHHHh--ccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHH
Confidence            1111       12222  34456667788888899999999999999986553 2   2333444467777778899999


Q ss_pred             HHHHHHHHHHhcc
Q 040367          374 AVELFRTLRILKC  386 (400)
Q Consensus       374 a~~~~~~~~~~~~  386 (400)
                      |..+++-|...+.
T Consensus       580 A~~~lQ~a~~~n~  592 (625)
T KOG4422|consen  580 AIEVLQLASAFNL  592 (625)
T ss_pred             HHHHHHHHHHcCc
Confidence            9999999976654

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

Probab=99.83  E-value=1.3e-16  Score=140.95  Aligned_cols=389  Identities=12%  Similarity=0.057  Sum_probs=257.0

Q ss_pred             hhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 040367            3 IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLF--PDLYTYNILINCFCKMGRVSHGFVVLGRILR   80 (400)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   80 (400)
                      ++......++.  |+...+.|...+.-.|++..++++.+.+......  .-...|-.+.++|...|++++|...|....+
T Consensus       258 ll~~ay~~n~~--nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k  335 (1018)
T KOG2002|consen  258 LLQRAYKENNE--NPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLK  335 (1018)
T ss_pred             HHHHHHhhcCC--CcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHc
Confidence            34444455555  8888899999999999999999999888765311  1244688889999999999999999988877


Q ss_pred             cCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC----ChHHHHHHHHHHHcCCCCCC
Q 040367           81 SCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTG----HTIVALNLFEEMASGNGEFG  156 (400)
Q Consensus        81 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~  156 (400)
                      ....-....+--+.+.+.+.|+++.+...|+.+.... +-+..+...|...|...+    ..++|..++.+.....+...
T Consensus       336 ~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~  414 (1018)
T KOG2002|consen  336 ADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDS  414 (1018)
T ss_pred             cCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccH
Confidence            6422123445567788889999999988888887763 445556666666665553    33444444444433321111


Q ss_pred             c-------------------------------------------------ccchHHHHHHHHHHHhC---CCCCCh----
Q 040367          157 V-------------------------------------------------EGFVDKAKELFLQMKDE---NINPDV----  180 (400)
Q Consensus       157 ~-------------------------------------------------~~~~~~a~~~~~~~~~~---~~~~~~----  180 (400)
                      .                                                 .|.++.|...|++....   ...++.    
T Consensus       415 ~a~l~laql~e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~  494 (1018)
T KOG2002|consen  415 EAWLELAQLLEQTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKST  494 (1018)
T ss_pred             HHHHHHHHHHHhcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccc
Confidence            0                                                 66777777777776544   112222    


Q ss_pred             --HhHHHHHHHHHhcCCHHHHHHHHHHHHhCC---------------------------------CCCCHHHHHHHHHHH
Q 040367          181 --VTYTSVIRGFCYANDWNEAKCLLIEMMDQG---------------------------------VQPNVVTFNVIMDEL  225 (400)
Q Consensus       181 --~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------------------------------~~~~~~~~~~l~~~~  225 (400)
                        .+-..+..+.-..++.+.|.+.|....+..                                 ...++..+..+...+
T Consensus       495 ~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~  574 (1018)
T KOG2002|consen  495 NLTLKYNLARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLH  574 (1018)
T ss_pred             hhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHH
Confidence              122223344444555555555555554431                                 122333444444455


Q ss_pred             HhCCChHHHHHHHHHHHHcC-CCCCHHhHHHHHHHHHhc------------CCHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 040367          226 CKNGKMDEASRLLDLMIQIG-VRPNAFVYNTLMDGFCLT------------GRVNRAKELFVSMESMGCTHTVFSYSILI  292 (400)
Q Consensus       226 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  292 (400)
                      .+...+..|.+-|..+.+.. ..+|+.+.-+|.+.|...            +..++|+++|.++.+.. |.|...-+.+.
T Consensus       575 l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIg  653 (1018)
T KOG2002|consen  575 LKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIG  653 (1018)
T ss_pred             HhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchh
Confidence            55555555555454444431 124555555666655432            34678888998888876 66888888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCcH
Q 040367          293 NGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD-GVAADTWTYRTFIDGLCKNSYI  371 (400)
Q Consensus       293 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~  371 (400)
                      -.++..|++.+|..+|.+..+... ....+|-.+..+|...|++..|+++|+...+. ....+..+...|.+++.+.|.+
T Consensus       654 iVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~  732 (1018)
T KOG2002|consen  654 IVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKL  732 (1018)
T ss_pred             hhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhH
Confidence            889999999999999999988743 25567888999999999999999999887765 3345788888999999999999


Q ss_pred             HHHHHHHHHHHHhcccchhHHHHHH
Q 040367          372 VEAVELFRTLRILKCELDIRAYNCL  396 (400)
Q Consensus       372 ~~a~~~~~~~~~~~~~p~~~~~~~l  396 (400)
                      .+|.+.+...+.....-....||..
T Consensus       733 ~eak~~ll~a~~~~p~~~~v~FN~a  757 (1018)
T KOG2002|consen  733 QEAKEALLKARHLAPSNTSVKFNLA  757 (1018)
T ss_pred             HHHHHHHHHHHHhCCccchHHhHHH
Confidence            9999988888865444344445543

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

Probab=99.82  E-value=4.3e-17  Score=132.58  Aligned_cols=366  Identities=14%  Similarity=0.122  Sum_probs=218.8

Q ss_pred             HHHhccCChhHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCChhhHHHHHHHHHhcCCCCC----hhhHHHHHHHHHh
Q 040367           25 GCLAKNKHYDTVLSLFKRLNSTGLFPDLYTY-NILINCFCKMGRVSHGFVVLGRILRSCFTPN----AVTFTSLIKGLCA   99 (400)
Q Consensus        25 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~   99 (400)
                      .-|..+....+|+..|+-+.+....|+.-.. ..+.+.+.+..++.+|+.+|+..+..-+..+    ..+.+.+...+.+
T Consensus       209 qqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtfiq  288 (840)
T KOG2003|consen  209 QQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTFIQ  288 (840)
T ss_pred             HHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeEEe
Confidence            3444455566666666666555545554332 2344555666666666666666554411111    1233334444556


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc----------------------
Q 040367          100 ESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV----------------------  157 (400)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------------  157 (400)
                      .|+++.|+..|+...+.  .|+..+-..|+-++...|+.++..+.|.++.......+.                      
T Consensus       289 ~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~nd  366 (840)
T KOG2003|consen  289 AGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKND  366 (840)
T ss_pred             cccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhhH
Confidence            66666666666666554  455555555555555666666666666666543322111                      


Q ss_pred             -----------------------------------------------------------------ccchHHHHHHHHHHH
Q 040367          158 -----------------------------------------------------------------EGFVDKAKELFLQMK  172 (400)
Q Consensus       158 -----------------------------------------------------------------~~~~~~a~~~~~~~~  172 (400)
                                                                                       .|+++.|+++++-+.
T Consensus       367 ~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv~~  446 (840)
T KOG2003|consen  367 HLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKVFE  446 (840)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHHHH
Confidence                                                                             556666666665554


Q ss_pred             hCCCCCChHhHHHHHH------------------------------------HHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 040367          173 DENINPDVVTYTSVIR------------------------------------GFCYANDWNEAKCLLIEMMDQGVQPNVV  216 (400)
Q Consensus       173 ~~~~~~~~~~~~~l~~------------------------------------~~~~~~~~~~a~~~~~~~~~~~~~~~~~  216 (400)
                      +..-+.-...-+.|-.                                    .....|++++|.+.|++.+..+.. ...
T Consensus       447 ~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndas-c~e  525 (840)
T KOG2003|consen  447 KKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDAS-CTE  525 (840)
T ss_pred             hccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchH-HHH
Confidence            4321111111111100                                    002235566666666665543211 111


Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 040367          217 TFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYC  296 (400)
Q Consensus       217 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  296 (400)
                      ....+.-.+...|++++|++.|-++... +..+..+...+...|....+..+|++++.+.... ++.|+...+.|...|-
T Consensus       526 alfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dlyd  603 (840)
T KOG2003|consen  526 ALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADLYD  603 (840)
T ss_pred             HHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhh
Confidence            1122222445566666666666555443 2235556666777777777777777777776654 3667888888888888


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-hcCcHHHHH
Q 040367          297 KNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLC-KNSYIVEAV  375 (400)
Q Consensus       297 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~a~  375 (400)
                      +.|+-..|++.+-+-.+. ++-|..+...|...|....-+++++.+|+++.-  +.|+..-|..++..|. +.|++++|+
T Consensus       604 qegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsgnyqka~  680 (840)
T KOG2003|consen  604 QEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSGNYQKAF  680 (840)
T ss_pred             cccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhcccHHHHH
Confidence            888888888877666554 556788888888888888888999999988754  6899999988776654 579999999


Q ss_pred             HHHHHHHHhcccchhHHHHHHhhc
Q 040367          376 ELFRTLRILKCELDIRAYNCLIDG  399 (400)
Q Consensus       376 ~~~~~~~~~~~~p~~~~~~~ll~~  399 (400)
                      ++|+...+. ++-|..+..-|++-
T Consensus       681 d~yk~~hrk-fpedldclkflvri  703 (840)
T KOG2003|consen  681 DLYKDIHRK-FPEDLDCLKFLVRI  703 (840)
T ss_pred             HHHHHHHHh-CccchHHHHHHHHH
Confidence            999988753 66677777766653

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.81  E-value=5.4e-15  Score=138.45  Aligned_cols=253  Identities=10%  Similarity=-0.037  Sum_probs=190.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCC----------CcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHH
Q 040367          121 NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEF----------GVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGF  190 (400)
Q Consensus       121 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  190 (400)
                      +...|..+..++.. +++++|+..+.+.....+..          ...|++++|...++++...  +|+...+..+..++
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~al  552 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTA  552 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHH
Confidence            44555555555554 55555665555544433321          1145567777777766544  44445566777888


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHH
Q 040367          191 CYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAK  270 (400)
Q Consensus       191 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  270 (400)
                      .+.|++++|...+++..+.+ +.....+..+.......|++++|...+++..+.  .|+...+..+..++.+.|++++|.
T Consensus       553 l~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~  629 (987)
T PRK09782        553 QAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAV  629 (987)
T ss_pred             HHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999999998864 334444444444555679999999999999986  456888899999999999999999


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcC
Q 040367          271 ELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDG  350 (400)
Q Consensus       271 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  350 (400)
                      ..+++..... +.+...+..+..++...|++++|++.+++..+..+ -+...+..+..++...|++++|+..+++..+. 
T Consensus       630 ~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P-~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l-  706 (987)
T PRK09782        630 SDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLP-DDPALIRQLAYVNQRLDDMAATQHYARLVIDD-  706 (987)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-
Confidence            9999999886 66788888999999999999999999999998753 36778899999999999999999999999986 


Q ss_pred             CCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          351 VAAD-TWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       351 ~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                       .|+ ..+.........+..+++.+.+-+++...
T Consensus       707 -~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~  739 (987)
T PRK09782        707 -IDNQALITPLTPEQNQQRFNFRRLHEEVGRRWT  739 (987)
T ss_pred             -CCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhh
Confidence             344 45555666667777778888887777665

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

Probab=99.79  E-value=1.3e-14  Score=127.63  Aligned_cols=360  Identities=12%  Similarity=0.071  Sum_probs=278.0

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLC   98 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (400)
                      ..-.....+.-.|+.++|..++.+..+.. +.+...|..|...|-..|+.+++...+-.+.-.+ +.|...|..+.....
T Consensus       141 ~ll~eAN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~  218 (895)
T KOG2076|consen  141 QLLGEANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSE  218 (895)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHH
Confidence            33344445555699999999999999885 5578899999999999999999988776665443 457789999999999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc----------------ccchH
Q 040367           99 AESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV----------------EGFVD  162 (400)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~  162 (400)
                      +.|.+..|.-+|.+.++.. +++...+-.-+..|-+.|+...|...|.++....+..+-                .+..+
T Consensus       219 ~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e  297 (895)
T KOG2076|consen  219 QLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERE  297 (895)
T ss_pred             hcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHH
Confidence            9999999999999999886 667777777888999999999999999999887772221                33347


Q ss_pred             HHHHHHHHHHhC-CCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC---------------------------CCCC
Q 040367          163 KAKELFLQMKDE-NINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQG---------------------------VQPN  214 (400)
Q Consensus       163 ~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------------------------~~~~  214 (400)
                      .|.+.++..... +-..+...++.++..+.+..+++.|......+....                           ..++
T Consensus       298 ~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~  377 (895)
T KOG2076|consen  298 RAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYD  377 (895)
T ss_pred             HHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCcc
Confidence            777777776552 223456678899999999999999999888876521                           1222


Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHHHcC--CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 040367          215 VVTFNVIMDELCKNGKMDEASRLLDLMIQIG--VRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILI  292 (400)
Q Consensus       215 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  292 (400)
                      ..++ -++-++.+.+..+....+.....+..  +..+...|.-+..++...|.+.+|..+|..+.......+...|-.+.
T Consensus       378 l~v~-rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a  456 (895)
T KOG2076|consen  378 LRVI-RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLA  456 (895)
T ss_pred             chhH-hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHH
Confidence            2231 22334555555566666666666655  33456788899999999999999999999999876666778999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHH--------HcCCCCCHHHHHHHHHH
Q 040367          293 NGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQ--------RDGVAADTWTYRTFIDG  364 (400)
Q Consensus       293 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~  364 (400)
                      .+|...|.++.|.+.+...+... +.+...-..|...+-+.|+.++|.+.++.+.        ..+..|+..........
T Consensus       457 ~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~  535 (895)
T KOG2076|consen  457 RCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDI  535 (895)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHH
Confidence            99999999999999999999864 2245555677788889999999999999854        23466677777778888


Q ss_pred             HHhcCcHHHHHHHHHHHHH
Q 040367          365 LCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       365 ~~~~g~~~~a~~~~~~~~~  383 (400)
                      +...|+.++-+.+..+|..
T Consensus       536 l~~~gk~E~fi~t~~~Lv~  554 (895)
T KOG2076|consen  536 LFQVGKREEFINTASTLVD  554 (895)
T ss_pred             HHHhhhHHHHHHHHHHHHH
Confidence            8999999988777777764

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.78  E-value=2.1e-14  Score=116.13  Aligned_cols=310  Identities=14%  Similarity=0.155  Sum_probs=209.2

Q ss_pred             CCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 040367           50 PDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLI  129 (400)
Q Consensus        50 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  129 (400)
                      -+..++..+|.++++.-..+.|.++|++......+.+..+||.+|.+-.-.    .-.+++.+|....+.||..|+|+++
T Consensus       205 KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~Pnl~TfNalL  280 (625)
T KOG4422|consen  205 KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPNLFTFNALL  280 (625)
T ss_pred             CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCchHhHHHHH
Confidence            356677788888887777888888887777666677777888777653322    2266777777777788888888888


Q ss_pred             HHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHH-HHHHHHHHHh
Q 040367          130 NGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNE-AKCLLIEMMD  208 (400)
Q Consensus       130 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~  208 (400)
                      .+..+.|+++.|.                   ..|.+++.+|++.|+.|...+|..+|..+.+.++..+ |..++.+...
T Consensus       281 ~c~akfg~F~~ar-------------------~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N  341 (625)
T KOG4422|consen  281 SCAAKFGKFEDAR-------------------KAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQN  341 (625)
T ss_pred             HHHHHhcchHHHH-------------------HHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHH
Confidence            8888888876663                   4466777788888888888888888888887777644 4444444432


Q ss_pred             ----CCC----CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcC----CCCC---HHhHHHHHHHHHhcCCHHHHHHHH
Q 040367          209 ----QGV----QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIG----VRPN---AFVYNTLMDGFCLTGRVNRAKELF  273 (400)
Q Consensus       209 ----~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~l~~~~~~~~~~~~a~~~~  273 (400)
                          +.+    +.|...|...+..|.+..+.+.|.++..-.....    +.|+   ..-|..+..+.++....+.-...|
T Consensus       342 ~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y  421 (625)
T KOG4422|consen  342 SLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWY  421 (625)
T ss_pred             hhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                111    2345566777777778888887777766554321    1222   233455666677777788888888


Q ss_pred             HHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhC-cH-------------HHH
Q 040367          274 VSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIH-QV-------------ERA  339 (400)
Q Consensus       274 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~-------------~~a  339 (400)
                      +.|...-.-|+..+...++++....+.++-.-++|.+++..|...+...-.-++..+++.. +.             +-|
T Consensus       422 ~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~a  501 (625)
T KOG4422|consen  422 EDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCA  501 (625)
T ss_pred             HHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHH
Confidence            8888776678888888889988888999998899988888764444443333444443322 11             112


Q ss_pred             HHHH-------HHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Q 040367          340 FKLF-------DEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       340 ~~~~-------~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                      ..++       .++.+..+  .....+.++..+.+.|+.++|.+++..+...
T Consensus       502 ad~~e~~e~~~~R~r~~~~--~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~  551 (625)
T KOG4422|consen  502 ADIKEAYESQPIRQRAQDW--PATSLNCIAILLLRAGRTQKAWEMLGLFLRK  551 (625)
T ss_pred             HHHHHHHHhhHHHHHhccC--ChhHHHHHHHHHHHcchHHHHHHHHHHHHhc
Confidence            2222       22333333  3445667777788999999999999999543

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

Probab=99.78  E-value=8.8e-14  Score=114.02  Aligned_cols=380  Identities=12%  Similarity=0.121  Sum_probs=283.9

Q ss_pred             chhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 040367            2 CIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRS   81 (400)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (400)
                      ++|++.+..+..  +...|-..+..-.+++++..|..++++....= |.-...|-..+..--..|+...|.++|++-...
T Consensus        94 Sv~ERALdvd~r--~itLWlkYae~Emknk~vNhARNv~dRAvt~l-PRVdqlWyKY~ymEE~LgNi~gaRqiferW~~w  170 (677)
T KOG1915|consen   94 SVFERALDVDYR--NITLWLKYAEFEMKNKQVNHARNVWDRAVTIL-PRVDQLWYKYIYMEEMLGNIAGARQIFERWMEW  170 (677)
T ss_pred             HHHHHHHhcccc--cchHHHHHHHHHHhhhhHhHHHHHHHHHHHhc-chHHHHHHHHHHHHHHhcccHHHHHHHHHHHcC
Confidence            467777776655  88888888888899999999999999888752 323345666666666788999999999988765


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc----
Q 040367           82 CFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV----  157 (400)
Q Consensus        82 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----  157 (400)
                        .|+...|++.|..-.+.+.++.|..+|++.+-.  .|++.+|......-.++|+...|..+|+.....-.....    
T Consensus       171 --~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~l  246 (677)
T KOG1915|consen  171 --EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEIL  246 (677)
T ss_pred             --CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHH
Confidence              789999999999888889999999999988765  588888888888888888888888888776543221100    


Q ss_pred             ----------------------------------------------cc---chHHHHH-----HHHHHHhCCCCCChHhH
Q 040367          158 ----------------------------------------------EG---FVDKAKE-----LFLQMKDENINPDVVTY  183 (400)
Q Consensus       158 ----------------------------------------------~~---~~~~a~~-----~~~~~~~~~~~~~~~~~  183 (400)
                                                                    .|   .+++++-     -++.....+ +.|-.+|
T Consensus       247 fvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~nYDsW  325 (677)
T KOG1915|consen  247 FVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYNYDSW  325 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCCchHH
Confidence                                                          11   1222211     122333332 5567788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHH---HhCCChHHHHHHHHHHHHcCCCCCHHhH
Q 040367          184 TSVIRGFCYANDWNEAKCLLIEMMDQGVQPNV-------VTFNVIMDEL---CKNGKMDEASRLLDLMIQIGVRPNAFVY  253 (400)
Q Consensus       184 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~  253 (400)
                      --.++.-...|+.+...++|+.++.. ++|-.       .+|..+--++   ....+.+.+.++++..++. ++....||
T Consensus       326 fdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IPHkkFtF  403 (677)
T KOG1915|consen  326 FDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IPHKKFTF  403 (677)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcccchH
Confidence            88888888889999999999999875 55532       1222222222   3467899999999999884 44455666


Q ss_pred             HHHHHHH----HhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHH
Q 040367          254 NTLMDGF----CLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVV  329 (400)
Q Consensus       254 ~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  329 (400)
                      ..+--.|    .++.+...|.+++......  -|...+|...|..-.+.++++.+..++++.++-++. |..+|......
T Consensus       404 aKiWlmyA~feIRq~~l~~ARkiLG~AIG~--cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe-~c~~W~kyaEl  480 (677)
T KOG1915|consen  404 AKIWLMYAQFEIRQLNLTGARKILGNAIGK--CPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPE-NCYAWSKYAEL  480 (677)
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHhcc--CCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChH-hhHHHHHHHHH
Confidence            5544443    4678999999999988754  788889999999999999999999999999998644 78899999888


Q ss_pred             HHhhCcHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHHHH
Q 040367          330 LFEIHQVERAFKLFDEMQRDG-VAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCL  396 (400)
Q Consensus       330 ~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  396 (400)
                      -...|+.+.|..+|+-+++.. .......|.+.|+.-...|.+++|..+++++++.  .+...+|.++
T Consensus       481 E~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r--t~h~kvWisF  546 (677)
T KOG1915|consen  481 ETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR--TQHVKVWISF  546 (677)
T ss_pred             HHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh--cccchHHHhH
Confidence            889999999999999998752 2223556778888888999999999999999975  3444566554

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

Probab=99.77  E-value=9.2e-18  Score=138.26  Aligned_cols=161  Identities=16%  Similarity=0.122  Sum_probs=58.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 040367          182 TYTSVIRGFCYANDWNEAKCLLIEMMDQG-VQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGF  260 (400)
Q Consensus       182 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  260 (400)
                      .+..++..+.+.++++++.++++.+.... .+.+...|..+...+.+.|+.++|.+.+++.++.. +.+......++..+
T Consensus       112 ~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~~~~~~~~l~~~l  190 (280)
T PF13429_consen  112 YLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD-PDDPDARNALAWLL  190 (280)
T ss_dssp             ------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT-HHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHH
Confidence            33444444444445555444444443221 12333444444444444444444444444444432 11333444444444


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHH
Q 040367          261 CLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAF  340 (400)
Q Consensus       261 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  340 (400)
                      ...|+.+++..++....+.. +.++..+..+..++...|++++|..++++..+.. +.|+.....+..++...|+.++|.
T Consensus       191 i~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~  268 (280)
T PF13429_consen  191 IDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEAL  268 (280)
T ss_dssp             CTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT---------
T ss_pred             HHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-cccccccccccccccccccccccc
Confidence            44444444444444444332 3333444444444444444444444444444432 123444444444444444444444


Q ss_pred             HHHHH
Q 040367          341 KLFDE  345 (400)
Q Consensus       341 ~~~~~  345 (400)
                      ++..+
T Consensus       269 ~~~~~  273 (280)
T PF13429_consen  269 RLRRQ  273 (280)
T ss_dssp             -----
T ss_pred             ccccc
Confidence            44443

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

Probab=99.77  E-value=1.8e-14  Score=117.59  Aligned_cols=340  Identities=13%  Similarity=0.122  Sum_probs=234.5

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC------------C
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTP------------N   86 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------------~   86 (400)
                      ..+.+...+.+.|+++.|+.-|+...+.  .|+..+-..|+-++..-|+.++..+.|.+++.....+            +
T Consensus       278 il~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~  355 (840)
T KOG2003|consen  278 ILNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPD  355 (840)
T ss_pred             HHhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcc
Confidence            3455566778888888888888888776  4676665556666667788888888888887542211            1


Q ss_pred             hhhHHHHH-----HHHHhcCC--HHHHHHHHHHHHHcCCCCCH---------------------HHHHHHHHHHHhcCCh
Q 040367           87 AVTFTSLI-----KGLCAESR--IMEAAALFTKLRVFGCEPNV---------------------FTYNTLINGLYRTGHT  138 (400)
Q Consensus        87 ~~~~~~l~-----~~~~~~~~--~~~a~~~~~~~~~~~~~~~~---------------------~~~~~l~~~~~~~~~~  138 (400)
                      ....+-.+     .-+-+.+.  .++++-.-.++..--+.|+-                     ..-..-...+.+.|++
T Consensus       356 ~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~  435 (840)
T KOG2003|consen  356 DNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDI  435 (840)
T ss_pred             hHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCH
Confidence            11111111     11111111  11111111111100011110                     0001112345566666


Q ss_pred             HHHHHHHHHHHcCCCCC------------------------------------------------CcccchHHHHHHHHH
Q 040367          139 IVALNLFEEMASGNGEF------------------------------------------------GVEGFVDKAKELFLQ  170 (400)
Q Consensus       139 ~~a~~~~~~~~~~~~~~------------------------------------------------~~~~~~~~a~~~~~~  170 (400)
                      +.|+++++-+.+.+...                                                -..|++++|.+.+++
T Consensus       436 ~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~yke  515 (840)
T KOG2003|consen  436 EGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKE  515 (840)
T ss_pred             HHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHH
Confidence            66666555554332211                                                118899999999999


Q ss_pred             HHhCCCCCChHhHHHH---HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC
Q 040367          171 MKDENINPDVVTYTSV---IRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVR  247 (400)
Q Consensus       171 ~~~~~~~~~~~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  247 (400)
                      .....    ..+-.+|   .-.+-..|+.++|++.|-++... +..+..+...+.+.|....+..+|++++.+.... ++
T Consensus       516 al~nd----asc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~sl-ip  589 (840)
T KOG2003|consen  516 ALNND----ASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IP  589 (840)
T ss_pred             HHcCc----hHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CC
Confidence            88753    3333333   33567889999999999888654 3457778888899999999999999999988775 56


Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHH
Q 040367          248 PNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLF  327 (400)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  327 (400)
                      .|+.+...|...|-+.|+-.+|.+.+-.--+. ++.+..+...|...|....-+++++.+|++..-  +.|+..-|..++
T Consensus       590 ~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmi  666 (840)
T KOG2003|consen  590 NDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMI  666 (840)
T ss_pred             CCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHH
Confidence            68999999999999999999999987766554 367889999999999999999999999998765  578999999887


Q ss_pred             HH-HHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCc
Q 040367          328 VV-LFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSY  370 (400)
Q Consensus       328 ~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  370 (400)
                      .. +.+.|++.+|.++++...+. ++.|......|++.+...|-
T Consensus       667 asc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  667 ASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            55 55789999999999999886 77899999999999887774

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

Probab=99.76  E-value=1.1e-17  Score=137.82  Aligned_cols=262  Identities=15%  Similarity=0.119  Sum_probs=116.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHH
Q 040367           92 SLIKGLCAESRIMEAAALFTKLRVFG-CEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQ  170 (400)
Q Consensus        92 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  170 (400)
                      .+...+...|++++|++++++..... .+.+...|..+.......++++.|...++++.                     
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~---------------------   71 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLL---------------------   71 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc---------------------
Confidence            45677778888888888885544332 13355555556666666777555555554443                     


Q ss_pred             HHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcC-CCCC
Q 040367          171 MKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIG-VRPN  249 (400)
Q Consensus       171 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~  249 (400)
                        ..+ +.+...+..++.. ...+++++|.+++....+..  +++..+..++..+.+.++++++..+++.+.... .+.+
T Consensus        72 --~~~-~~~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~  145 (280)
T PF13429_consen   72 --ASD-KANPQDYERLIQL-LQDGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDS  145 (280)
T ss_dssp             ----------------------------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-
T ss_pred             --ccc-ccccccccccccc-cccccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCC
Confidence              332 2245566677766 78999999999998876653  566777888889999999999999999987642 3457


Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHH
Q 040367          250 AFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVV  329 (400)
Q Consensus       250 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  329 (400)
                      ...|..+...+.+.|+.++|...+++..+.. |.|......++..+...|+.+++.++++...+.. +.|+..+..+..+
T Consensus       146 ~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~  223 (280)
T PF13429_consen  146 ARFWLALAEIYEQLGDPDKALRDYRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAA  223 (280)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHH
Confidence            7888889999999999999999999999986 5568889999999999999999999988887763 4567778899999


Q ss_pred             HHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          330 LFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       330 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      +...|++++|+.++++..+. .+.|+.+...+..++...|+.++|.++.+++.+
T Consensus       224 ~~~lg~~~~Al~~~~~~~~~-~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  224 YLQLGRYEEALEYLEKALKL-NPDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHT-HHHHHHHHHHHHHH-STT-HHHHHHHHHHHT-----------------
T ss_pred             hccccccccccccccccccc-ccccccccccccccccccccccccccccccccc
Confidence            99999999999999999886 345888999999999999999999999888753

>TIGR00540 hemY_coli hemY protein

Probab=99.76  E-value=1.9e-14  Score=124.64  Aligned_cols=289  Identities=10%  Similarity=-0.010  Sum_probs=208.1

Q ss_pred             HhcCChhhHHHHHHHHHhcCCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHhcCChH
Q 040367           63 CKMGRVSHGFVVLGRILRSCFTPNA-VTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNV--FTYNTLINGLYRTGHTI  139 (400)
Q Consensus        63 ~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~  139 (400)
                      ...|+++.|.+.+.+..+.  .|+. ..+-....+....|+++.|.+.+.+..+..  |+.  .........+...|+++
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~  170 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELH  170 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHH
Confidence            3679999999999888776  3443 334455677888899999999999987653  443  34444577888888866


Q ss_pred             HHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 040367          140 VALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFN  219 (400)
Q Consensus       140 ~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  219 (400)
                      .|...++.+                       .+.. |-+...+..+...+...|++++|.+.+..+.+.++. +...+.
T Consensus       171 ~Al~~l~~l-----------------------~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~  225 (409)
T TIGR00540       171 AARHGVDKL-----------------------LEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFA  225 (409)
T ss_pred             HHHHHHHHH-----------------------HHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHH
Confidence            555555554                       4443 446778889999999999999999999999988644 333332


Q ss_pred             -HHHHHH---HhCCChHHHHHHHHHHHHcCC---CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhh---HH
Q 040367          220 -VIMDEL---CKNGKMDEASRLLDLMIQIGV---RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFS---YS  289 (400)
Q Consensus       220 -~l~~~~---~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~  289 (400)
                       .-..++   ...+..+++.+.+..+.+...   +.++..+..++..+...|+.++|...+++..+..  |+...   ..
T Consensus       226 ~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~  303 (409)
T TIGR00540       226 DLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPL  303 (409)
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHH
Confidence             111111   333333444445555555422   1378888899999999999999999999999874  33321   11


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCch--hhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 040367          290 ILINGYCKNKEIEGALSLYGEMLSKGIKPDV--VIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCK  367 (400)
Q Consensus       290 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  367 (400)
                      .........++.+.+.+.++...+.. +-|+  ....++.+.+.+.|++++|.+.|+........|+...+..+...+.+
T Consensus       304 l~~~~~l~~~~~~~~~~~~e~~lk~~-p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~  382 (409)
T TIGR00540       304 CLPIPRLKPEDNEKLEKLIEKQAKNV-DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQ  382 (409)
T ss_pred             HHHhhhcCCCChHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHH
Confidence            12222334578888999998888763 2245  66778999999999999999999964444457899989999999999


Q ss_pred             cCcHHHHHHHHHHHHH
Q 040367          368 NSYIVEAVELFRTLRI  383 (400)
Q Consensus       368 ~g~~~~a~~~~~~~~~  383 (400)
                      .|+.++|.+++++...
T Consensus       383 ~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       383 AGDKAEAAAMRQDSLG  398 (409)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            9999999999998753

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.

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

Probab=99.76  E-value=2.1e-13  Score=111.48  Aligned_cols=366  Identities=11%  Similarity=0.032  Sum_probs=250.9

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhH--HHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTF--TSL   93 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l   93 (400)
                      |...+......+.+.|..+.|++.|......- |-.-.+|..|...+..       +++....... .+.+....  -.+
T Consensus       163 D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~-P~~W~AWleL~~lit~-------~e~~~~l~~~-l~~~~h~M~~~F~  233 (559)
T KOG1155|consen  163 DEFLLYLYGVVLKELGLLSLAIDSFVEVVNRY-PWFWSAWLELSELITD-------IEILSILVVG-LPSDMHWMKKFFL  233 (559)
T ss_pred             hhHHHHHHHHHHHhhchHHHHHHHHHHHHhcC-CcchHHHHHHHHhhch-------HHHHHHHHhc-CcccchHHHHHHH
Confidence            44344444445566677777777777666541 2233334333333211       2222222211 11111111  123


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchH-----------
Q 040367           94 IKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVD-----------  162 (400)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----------  162 (400)
                      ..++-...+.+++.+-.+.....|++.+...-+....+.....++++|+..|+++...++- .. ++.+           
T Consensus       234 ~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPY-Rl-~dmdlySN~LYv~~~  311 (559)
T KOG1155|consen  234 KKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPY-RL-DDMDLYSNVLYVKND  311 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCC-cc-hhHHHHhHHHHHHhh
Confidence            3455566677777777777777777666666666667777778888888888888776331 11 1111           


Q ss_pred             -HHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 040367          163 -KAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLM  241 (400)
Q Consensus       163 -~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  241 (400)
                       ..+..+.+-...--+--+.|+-.+.+.|+-.++.++|...|+..++.+ +.....|+.+..-|....+...|.+-++.+
T Consensus       312 ~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrA  390 (559)
T KOG1155|consen  312 KSKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRA  390 (559)
T ss_pred             hHHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHH
Confidence             111122211111012234577788888999999999999999999875 446678888999999999999999999999


Q ss_pred             HHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchh
Q 040367          242 IQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVV  321 (400)
Q Consensus       242 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  321 (400)
                      ++.. +.|-..|..|.++|.-.+.+.-|+-.|++..... |.|...|.+|..+|.+.++.++|++.|+.....|-. +..
T Consensus       391 vdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~  467 (559)
T KOG1155|consen  391 VDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGS  467 (559)
T ss_pred             HhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chH
Confidence            9874 4478899999999999999999999999999876 778999999999999999999999999999987633 667


Q ss_pred             hHHHHHHHHHhhCcHHHHHHHHHHHHHc----CC-CC-CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHHH
Q 040367          322 IYNTLFVVLFEIHQVERAFKLFDEMQRD----GV-AA-DTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNC  395 (400)
Q Consensus       322 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  395 (400)
                      .+..+...+-+.++.++|...+++.++.    |. .| ......-|..-+.+.+++++|..........  .+..+--++
T Consensus       468 ~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~--~~e~eeak~  545 (559)
T KOG1155|consen  468 ALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG--ETECEEAKA  545 (559)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC--CchHHHHHH
Confidence            8899999999999999999999887753    32 22 1223334666778889999998876666642  566666666


Q ss_pred             Hhh
Q 040367          396 LID  398 (400)
Q Consensus       396 ll~  398 (400)
                      |++
T Consensus       546 LlR  548 (559)
T KOG1155|consen  546 LLR  548 (559)
T ss_pred             HHH
Confidence            654

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.76  E-value=2.5e-14  Score=123.27  Aligned_cols=290  Identities=14%  Similarity=0.055  Sum_probs=181.8

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHH--HHHHHHHhcCCHHHH
Q 040367           30 NKHYDTVLSLFKRLNSTGLFPDLYTY-NILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFT--SLIKGLCAESRIMEA  106 (400)
Q Consensus        30 ~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a  106 (400)
                      .|+++.|.+.+....+..  +++..+ .....+..+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++.|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            599999998888766542  233333 33345558899999999999999876  44543322  346788899999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHH
Q 040367          107 AALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSV  186 (400)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  186 (400)
                      .+.++++.+.. |-++..+..+...|.+.|++++|..++..+.+.....     .++..++           ...+|..+
T Consensus       173 l~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~-----~~~~~~l-----------~~~a~~~l  235 (398)
T PRK10747        173 RHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGD-----EEHRAML-----------EQQAWIGL  235 (398)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCC-----HHHHHHH-----------HHHHHHHH
Confidence            99999998876 5578888999999999999776666666654432110     0000000           00122333


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCH
Q 040367          187 IRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRV  266 (400)
Q Consensus       187 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  266 (400)
                      +.......+.+...++++.+.+. .+.++.....+...+...|+.++|.+++++..+.  +++....  ++.+....++.
T Consensus       236 ~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~  310 (398)
T PRK10747        236 MDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNP  310 (398)
T ss_pred             HHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCCh
Confidence            33333344455555555554432 2445666666777777777777777777776663  3343221  22233344667


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHH
Q 040367          267 NRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEM  346 (400)
Q Consensus       267 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  346 (400)
                      +++....+...+.. +.|+..+..+...+.+.+++++|.+.|+.+.+.  .|+...+..+...+.+.|+.++|.+++++.
T Consensus       311 ~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~  387 (398)
T PRK10747        311 EQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDG  387 (398)
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            77777776666554 445555666677777777777777777777664  456666666667777777777777776665


Q ss_pred             HH
Q 040367          347 QR  348 (400)
Q Consensus       347 ~~  348 (400)
                      ..
T Consensus       388 l~  389 (398)
T PRK10747        388 LM  389 (398)
T ss_pred             Hh
Confidence            43

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.76  E-value=3.5e-14  Score=122.36  Aligned_cols=284  Identities=11%  Similarity=0.047  Sum_probs=213.9

Q ss_pred             hcCChhhHHHHHHHHHhcCCCCChhh-HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHH--HHHHHHHhcCChHH
Q 040367           64 KMGRVSHGFVVLGRILRSCFTPNAVT-FTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYN--TLINGLYRTGHTIV  140 (400)
Q Consensus        64 ~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~  140 (400)
                      ..|+++.|.+.+....+..  +++.. +........+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++.
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            3699999998888766542  22333 333345558899999999999999875  55554333  34667888888666


Q ss_pred             HHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-----
Q 040367          141 ALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNV-----  215 (400)
Q Consensus       141 a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----  215 (400)
                      |...+++.                       .+.. |-+......+...|.+.|++++|.+++..+.+.+..++.     
T Consensus       172 Al~~l~~~-----------------------~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l  227 (398)
T PRK10747        172 ARHGVDKL-----------------------LEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAML  227 (398)
T ss_pred             HHHHHHHH-----------------------HhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            66555554                       4433 446778889999999999999999999999987644322     


Q ss_pred             --HHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367          216 --VTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILIN  293 (400)
Q Consensus       216 --~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  293 (400)
                        .+|..++.......+.+...++++...+. .+.++.....+...+...|+.++|..++++..+.  +++....  ++.
T Consensus       228 ~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~  302 (398)
T PRK10747        228 EQQAWIGLMDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLI  302 (398)
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHH
Confidence              12333344444445566666666665443 3457888889999999999999999999999874  5555322  334


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHH
Q 040367          294 GYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVE  373 (400)
Q Consensus       294 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  373 (400)
                      +....++.+++.+..+...+..+ -|...+..+.+.+.+.+++++|.+.|+.+.+.  .|+...+..+...+.+.|+.++
T Consensus       303 ~~l~~~~~~~al~~~e~~lk~~P-~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~  379 (398)
T PRK10747        303 PRLKTNNPEQLEKVLRQQIKQHG-DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEE  379 (398)
T ss_pred             hhccCCChHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHH
Confidence            44556999999999999988743 36777889999999999999999999999985  7899999999999999999999


Q ss_pred             HHHHHHHHHH
Q 040367          374 AVELFRTLRI  383 (400)
Q Consensus       374 a~~~~~~~~~  383 (400)
                      |.+++++-..
T Consensus       380 A~~~~~~~l~  389 (398)
T PRK10747        380 AAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHh
Confidence            9999998864

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

Probab=99.75  E-value=2.2e-15  Score=128.31  Aligned_cols=290  Identities=11%  Similarity=0.070  Sum_probs=222.2

Q ss_pred             ChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHhcCChHHHHHH
Q 040367           67 RVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFG--CEPNVFTYNTLINGLYRTGHTIVALNL  144 (400)
Q Consensus        67 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~  144 (400)
                      +.++|...|+.+... +.-+..+...+..+|.+.+++++|..+|+.+.+..  .--+..+|.+.+..+-+.         
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~---------  403 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE---------  403 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh---------
Confidence            467778888875444 23344556667788888888888888888887663  112566777776654332         


Q ss_pred             HHHHHcCCCCCCcccchHHHHHHHH-HHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 040367          145 FEEMASGNGEFGVEGFVDKAKELFL-QMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMD  223 (400)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  223 (400)
                                        -++..+. .+.+. -+..+.+|-++..+|.-.++.+.|++.|++.++.+ +-...+|+.+..
T Consensus       404 ------------------v~Ls~Laq~Li~~-~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGh  463 (638)
T KOG1126|consen  404 ------------------VALSYLAQDLIDT-DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGH  463 (638)
T ss_pred             ------------------HHHHHHHHHHHhh-CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCC
Confidence                              1122222 22222 24567899999999999999999999999999864 337788998888


Q ss_pred             HHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHH
Q 040367          224 ELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEG  303 (400)
Q Consensus       224 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  303 (400)
                      -+.....+|.|...|+..+....+ +-..|.-+...|.++++++.|+-.|+.+.+.+ +.+......+...+.+.|+.++
T Consensus       464 E~~~~ee~d~a~~~fr~Al~~~~r-hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~  541 (638)
T KOG1126|consen  464 ESIATEEFDKAMKSFRKALGVDPR-HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDK  541 (638)
T ss_pred             hhhhhHHHHhHHHHHHhhhcCCch-hhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhH
Confidence            889999999999999998764221 34455668889999999999999999999887 6677888888999999999999


Q ss_pred             HHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          304 ALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       304 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      |+++++++...+.+ |+..--.-+..+...+++++|+..++++++. .+-+...+..+...|-+.|+.+.|+.-|.-+.+
T Consensus       542 AL~~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~  619 (638)
T KOG1126|consen  542 ALQLYEKAIHLDPK-NPLCKYHRASILFSLGRYVEALQELEELKEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWALD  619 (638)
T ss_pred             HHHHHHHHHhcCCC-CchhHHHHHHHHHhhcchHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhc
Confidence            99999999987655 4444444566677789999999999999986 444678888999999999999999999999987


Q ss_pred             hcccchh
Q 040367          384 LKCELDI  390 (400)
Q Consensus       384 ~~~~p~~  390 (400)
                      ...++..
T Consensus       620 ldpkg~~  626 (638)
T KOG1126|consen  620 LDPKGAQ  626 (638)
T ss_pred             CCCccch
Confidence            5544433

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

Probab=99.75  E-value=3.8e-14  Score=125.68  Aligned_cols=375  Identities=13%  Similarity=0.096  Sum_probs=234.9

Q ss_pred             hHHHHhcCCCCCChhhHHHHHHHHhccC----ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 040367            4 FDYMLNMRPSPPPVCSFNILFGCLAKNK----HYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRIL   79 (400)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   79 (400)
                      |+.+.+..|.  +..+...+...|...+    ..+.|..++.+..+.- +.|...|..+...+....-+. ++.+|..+.
T Consensus       365 fEkv~k~~p~--~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~~-sL~~~~~A~  440 (1018)
T KOG2002|consen  365 FEKVLKQLPN--NYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPWA-SLDAYGNAL  440 (1018)
T ss_pred             HHHHHHhCcc--hHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChHH-HHHHHHHHH
Confidence            3444444443  4444444444443332    2333444444443332 234444444444443322222 244443332


Q ss_pred             ----hcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCC------CCHHHHHHHHHHHHhcCChHHHHHHHH
Q 040367           80 ----RSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVF---GCE------PNVFTYNTLINGLYRTGHTIVALNLFE  146 (400)
Q Consensus        80 ----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~  146 (400)
                          ..+-.+.+...|.+...+...|+++.|...|......   ...      ++..+-..+....-..++++.|.+.|.
T Consensus       441 d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk  520 (1018)
T KOG2002|consen  441 DILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYK  520 (1018)
T ss_pred             HHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHH
Confidence                1222345555666666666666666666666655433   011      122233345555555566666666666


Q ss_pred             HHHcCCCCCCc-----------ccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCC
Q 040367          147 EMASGNGEFGV-----------EGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQG-VQPN  214 (400)
Q Consensus       147 ~~~~~~~~~~~-----------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~  214 (400)
                      .+....+.|-.           .+...+|...+......+ ..++..+..+...+.....+..|.+-|....+.- ..+|
T Consensus       521 ~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D  599 (1018)
T KOG2002|consen  521 SILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTD  599 (1018)
T ss_pred             HHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCc
Confidence            66655544332           455667777777766553 4455667777778888888888888777665432 2357


Q ss_pred             HHHHHHHHHHHHh------------CCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 040367          215 VVTFNVIMDELCK------------NGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCT  282 (400)
Q Consensus       215 ~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  282 (400)
                      +.+...|.+.|.+            .+..++|+++|.++++.. +.|...-+-+.-+++..|++..|..+|.++.+.. .
T Consensus       600 ~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~-~  677 (1018)
T KOG2002|consen  600 AYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREAT-S  677 (1018)
T ss_pred             hhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHH-h
Confidence            7666666665543            245778999999998874 4477778888889999999999999999999875 3


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 040367          283 HTVFSYSILINGYCKNKEIEGALSLYGEMLSK-GIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTF  361 (400)
Q Consensus       283 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  361 (400)
                      ....+|-.+..+|..+|++..|+++|+...+. ....+..+...|.+++.+.|.+.+|.+.+..+....+......|+..
T Consensus       678 ~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a  757 (1018)
T KOG2002|consen  678 DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLA  757 (1018)
T ss_pred             hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHH
Confidence            46677889999999999999999999977764 44557778899999999999999999999888876443334444433


Q ss_pred             HHH------------------HHhcCcHHHHHHHHHHHHHhc
Q 040367          362 IDG------------------LCKNSYIVEAVELFRTLRILK  385 (400)
Q Consensus       362 ~~~------------------~~~~g~~~~a~~~~~~~~~~~  385 (400)
                      +-.                  -...+..+.|.++|..|...+
T Consensus       758 ~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~  799 (1018)
T KOG2002|consen  758 LVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNG  799 (1018)
T ss_pred             HHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            221                  112245678888888887654

>TIGR00540 hemY_coli hemY protein

Probab=99.75  E-value=4.1e-14  Score=122.63  Aligned_cols=293  Identities=11%  Similarity=-0.023  Sum_probs=207.4

Q ss_pred             hccCChhHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHH
Q 040367           28 AKNKHYDTVLSLFKRLNSTGLFPDL-YTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEA  106 (400)
Q Consensus        28 ~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  106 (400)
                      ...|+++.|.+.+.+..+..  |+. ..+-....+....|+++.|.+.+.+..+....+...........+...|+++.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~--~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHA--AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHH
Confidence            45899999999999887763  443 344555678889999999999999998763232223444457888899999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHH--
Q 040367          107 AALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYT--  184 (400)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--  184 (400)
                      .+.++.+.+.+ |-+..++..+...+...|+++.|.+.+..+.+.                       +.. +...+.  
T Consensus       173 l~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~-----------------------~~~-~~~~~~~l  227 (409)
T TIGR00540       173 RHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKA-----------------------GLF-DDEEFADL  227 (409)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHc-----------------------CCC-CHHHHHHH
Confidence            99999999886 557888999999999999977666666665443                       221 222221  


Q ss_pred             --HHHHHHHhcCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhH-HHHHH
Q 040367          185 --SVIRGFCYANDWNEAKCLLIEMMDQG---VQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVY-NTLMD  258 (400)
Q Consensus       185 --~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~  258 (400)
                        .........+..++..+.+..+.+..   .+.+...+..+...+...|+.++|.+++++..+.........+ .....
T Consensus       228 ~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~  307 (409)
T TIGR00540       228 EQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPI  307 (409)
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHh
Confidence              11111122333333344555554432   1237788888889999999999999999999986433221111 11112


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCh--hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcH
Q 040367          259 GFCLTGRVNRAKELFVSMESMGCTHTV--FSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQV  336 (400)
Q Consensus       259 ~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  336 (400)
                      .....++.+.+.+.++...+.. +.|+  .....+...+.+.|++++|.+.|+........|+...+..+...+.+.|+.
T Consensus       308 ~~l~~~~~~~~~~~~e~~lk~~-p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~  386 (409)
T TIGR00540       308 PRLKPEDNEKLEKLIEKQAKNV-DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDK  386 (409)
T ss_pred             hhcCCCChHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCH
Confidence            2234577888888888887764 4455  667788999999999999999999544444467888888999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040367          337 ERAFKLFDEMQR  348 (400)
Q Consensus       337 ~~a~~~~~~~~~  348 (400)
                      ++|.+++++...
T Consensus       387 ~~A~~~~~~~l~  398 (409)
T TIGR00540       387 AEAAAMRQDSLG  398 (409)
T ss_pred             HHHHHHHHHHHH
Confidence            999999998654

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

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

Probab=99.74  E-value=2.2e-14  Score=111.73  Aligned_cols=300  Identities=15%  Similarity=0.147  Sum_probs=220.0

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCCh------hhHHH
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNA------VTFTS   92 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~   92 (400)
                      .|-.-++. .-+.+.++|.++|-+|.+.. +.+.++..+|.+.|-+.|..+.|+++.+.+.++   ||.      .....
T Consensus        38 ~Yv~GlNf-LLs~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~q  112 (389)
T COG2956          38 DYVKGLNF-LLSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQ  112 (389)
T ss_pred             HHHhHHHH-HhhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHH
Confidence            34444443 33578999999999999864 446677889999999999999999999999875   333      24456


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHH
Q 040367           93 LIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMK  172 (400)
Q Consensus        93 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  172 (400)
                      |.+-|...|-+|.|+++|..+.+.+ .--......|+..|-...++++|+++-+++...++...                
T Consensus       113 L~~Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~----------------  175 (389)
T COG2956         113 LGRDYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTY----------------  175 (389)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccc----------------
Confidence            7778899999999999999999865 45677888999999999998777777666554332210                


Q ss_pred             hCCCCCC-hHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHH
Q 040367          173 DENINPD-VVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAF  251 (400)
Q Consensus       173 ~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  251 (400)
                          ... ...|--+...+....+++.|..++.+..+.+ +..+..-..+.+.....|+++.|.+.++.+.+.+..--+.
T Consensus       176 ----~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~e  250 (389)
T COG2956         176 ----RVEIAQFYCELAQQALASSDVDRARELLKKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSE  250 (389)
T ss_pred             ----hhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHH
Confidence                111 1234455566667788999999999988764 3344444556678888999999999999999887666677


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHH
Q 040367          252 VYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLF  331 (400)
Q Consensus       252 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  331 (400)
                      +...|..+|...|+.++....+..+.+..  +....-..+...-....-.+.|...+.+-++.  +|+...+..++....
T Consensus       251 vl~~L~~~Y~~lg~~~~~~~fL~~~~~~~--~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l  326 (389)
T COG2956         251 VLEMLYECYAQLGKPAEGLNFLRRAMETN--TGADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHL  326 (389)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHcc--CCccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhh
Confidence            78888999999999999999999888764  44444455555555555666777666555554  578888888887664


Q ss_pred             h---hCcHHHHHHHHHHHHHc
Q 040367          332 E---IHQVERAFKLFDEMQRD  349 (400)
Q Consensus       332 ~---~~~~~~a~~~~~~~~~~  349 (400)
                      .   .|...+...+++.|...
T Consensus       327 ~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         327 ADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             ccccccchhhhHHHHHHHHHH
Confidence            3   44566777777777754

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

Probab=99.72  E-value=9.7e-14  Score=108.23  Aligned_cols=287  Identities=13%  Similarity=0.109  Sum_probs=212.1

Q ss_pred             cCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH------HHHHHHHHHHHhcCCh
Q 040367           65 MGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNV------FTYNTLINGLYRTGHT  138 (400)
Q Consensus        65 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~  138 (400)
                      .++.++|.+.|-+|.+.+ +.+..+--.|.+.|.+.|..+.|+.+.+.+.++   ||.      .....|..-|...|- 
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl-  122 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGL-  122 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhh-
Confidence            567888888888888753 335556667888888889999999988888764   332      233445555566665 


Q ss_pred             HHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH---
Q 040367          139 IVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNV---  215 (400)
Q Consensus       139 ~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---  215 (400)
                                            +++|..+|..+.+.+ .--......|+..|-...+|++|+++-+++.+.+..+..   
T Consensus       123 ----------------------~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eI  179 (389)
T COG2956         123 ----------------------LDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEI  179 (389)
T ss_pred             ----------------------hhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHH
Confidence                                  556666666666543 223457788999999999999999999999887644432   


Q ss_pred             -HHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 040367          216 -VTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILING  294 (400)
Q Consensus       216 -~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  294 (400)
                       ..|.-+...+....+.+.|...+.+..+.+.+ .+..--.+.+.....|+++.|.+.++.+.+.+..--+.+...|..+
T Consensus       180 AqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~  258 (389)
T COG2956         180 AQFYCELAQQALASSDVDRARELLKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYEC  258 (389)
T ss_pred             HHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHH
Confidence             24555666667788999999999999987433 3444446788899999999999999999988755566778899999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc---CcH
Q 040367          295 YCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKN---SYI  371 (400)
Q Consensus       295 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~  371 (400)
                      |.+.|+.++...++..+.+...  +...-..+...-....-.+.|...+.+-+..  .|+...+..++..-...   |..
T Consensus       259 Y~~lg~~~~~~~fL~~~~~~~~--g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~  334 (389)
T COG2956         259 YAQLGKPAEGLNFLRRAMETNT--GADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRA  334 (389)
T ss_pred             HHHhCCHHHHHHHHHHHHHccC--CccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccch
Confidence            9999999999999999998643  3333455555555556667777777666654  68999999999876543   567


Q ss_pred             HHHHHHHHHHHHh
Q 040367          372 VEAVELFRTLRIL  384 (400)
Q Consensus       372 ~~a~~~~~~~~~~  384 (400)
                      .+.+..++.|...
T Consensus       335 k~sL~~lr~mvge  347 (389)
T COG2956         335 KESLDLLRDMVGE  347 (389)
T ss_pred             hhhHHHHHHHHHH
Confidence            7778888888643

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

Probab=99.72  E-value=1.7e-14  Score=122.94  Aligned_cols=289  Identities=11%  Similarity=0.037  Sum_probs=213.2

Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCC--CCChhhHHHHHHHHHhcCCHHHHHH
Q 040367           31 KHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCF--TPNAVTFTSLIKGLCAESRIMEAAA  108 (400)
Q Consensus        31 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~  108 (400)
                      =+..+|+..|+..... +..+......+..+|...+++++|.++|+.+.+...  .-+.++|...+-.+-+   .-+---
T Consensus       333 y~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~---~v~Ls~  408 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD---EVALSY  408 (638)
T ss_pred             HHHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh---hHHHHH
Confidence            3578899999996555 344567778899999999999999999999987632  1255667666654322   222222


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 040367          109 LFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIR  188 (400)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  188 (400)
                      +-+.+.+.. +-.+.+|..+..+|.-+++.+.|++.|++..+.+                        +....+|+.+..
T Consensus       409 Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld------------------------p~faYayTLlGh  463 (638)
T KOG1126|consen  409 LAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD------------------------PRFAYAYTLLGH  463 (638)
T ss_pred             HHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC------------------------CccchhhhhcCC
Confidence            233334333 5678999999999999999877777777765543                        225677888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHH
Q 040367          189 GFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNR  268 (400)
Q Consensus       189 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  268 (400)
                      -+.....+|.|...|+..+..+ +-+-..|.-+...|.+.++++.|+-.|+++.+.+.. +......+...+.+.|+.++
T Consensus       464 E~~~~ee~d~a~~~fr~Al~~~-~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~  541 (638)
T KOG1126|consen  464 ESIATEEFDKAMKSFRKALGVD-PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDK  541 (638)
T ss_pred             hhhhhHHHHhHHHHHHhhhcCC-chhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhH
Confidence            8888888999999998887542 122334445566788899999999999998886533 56667778888888899999


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHH
Q 040367          269 AKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       269 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  348 (400)
                      |+.+++++...+ +.|+..--.-+..+...+++++|+..++++++. ++.+...+..+.+.|.+.|+.+.|+.-|--+.+
T Consensus       542 AL~~~~~A~~ld-~kn~l~~~~~~~il~~~~~~~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~  619 (638)
T KOG1126|consen  542 ALQLYEKAIHLD-PKNPLCKYHRASILFSLGRYVEALQELEELKEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWALD  619 (638)
T ss_pred             HHHHHHHHHhcC-CCCchhHHHHHHHHHhhcchHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhc
Confidence            999999988776 445555556666777888999999999998886 344566777888899999999999988888887


Q ss_pred             cCCC
Q 040367          349 DGVA  352 (400)
Q Consensus       349 ~~~~  352 (400)
                      ...+
T Consensus       620 ldpk  623 (638)
T KOG1126|consen  620 LDPK  623 (638)
T ss_pred             CCCc
Confidence            6433

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

Probab=99.71  E-value=2.5e-12  Score=109.73  Aligned_cols=361  Identities=10%  Similarity=0.013  Sum_probs=203.8

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFP--DLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTS   92 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   92 (400)
                      -+...|-.=...|-..|..-.+..+.......|+..  -..+|..-.+.|.+.+.++-|..+|...++.. +-+...|..
T Consensus       477 i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvf-p~k~slWlr  555 (913)
T KOG0495|consen  477 INRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVF-PCKKSLWLR  555 (913)
T ss_pred             ecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhc-cchhHHHHH
Confidence            455555555555555555555555555555544432  12345555555556666666666665555542 234445555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc-----------ccch
Q 040367           93 LIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV-----------EGFV  161 (400)
Q Consensus        93 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~  161 (400)
                      .+..--..|..++...++++....- +.....|......+...|+...|..++..+.+..+....           ...+
T Consensus       556 a~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~  634 (913)
T KOG0495|consen  556 AAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDEL  634 (913)
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccH
Confidence            5554445555555555555555441 233444445555555555555555555555544433111           4445


Q ss_pred             HHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 040367          162 DKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLM  241 (400)
Q Consensus       162 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  241 (400)
                      ++|..+|.+....  .|+...|.--+..---.++.++|++++++.++. ++.-...|..+.+.+-+.++.+.|...|..-
T Consensus       635 eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G  711 (913)
T KOG0495|consen  635 ERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQG  711 (913)
T ss_pred             HHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhc
Confidence            5555555555543  344555555555455555666666666655553 2222334555555555566666666555554


Q ss_pred             HHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC------
Q 040367          242 IQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG------  315 (400)
Q Consensus       242 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------  315 (400)
                      .+. ++-....|-.|...-.+.|.+-+|..++++..-.+ +.+...|-..+++-.+.|+.+.|..+..++++.-      
T Consensus       712 ~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~L  789 (913)
T KOG0495|consen  712 TKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLL  789 (913)
T ss_pred             ccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchh
Confidence            443 23334445555555555556666666666555544 4455556566666666666665555554444320      


Q ss_pred             -----------------------CCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHH
Q 040367          316 -----------------------IKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIV  372 (400)
Q Consensus       316 -----------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  372 (400)
                                             ..-|+.....+...+....+++.|.++|++..+.+ +.+-.+|..+...+..+|.-+
T Consensus       790 WaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykfel~hG~ee  868 (913)
T KOG0495|consen  790 WAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD-PDNGDAWAWFYKFELRHGTEE  868 (913)
T ss_pred             HHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC-CccchHHHHHHHHHHHhCCHH
Confidence                                   12245555667777778888999999999998863 335778888888888999888


Q ss_pred             HHHHHHHHHHH
Q 040367          373 EAVELFRTLRI  383 (400)
Q Consensus       373 ~a~~~~~~~~~  383 (400)
                      +-.+++.....
T Consensus       869 d~kev~~~c~~  879 (913)
T KOG0495|consen  869 DQKEVLKKCET  879 (913)
T ss_pred             HHHHHHHHHhc
Confidence            88888887764

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

Probab=99.70  E-value=5.1e-13  Score=117.81  Aligned_cols=322  Identities=14%  Similarity=0.087  Sum_probs=249.7

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 040367           57 ILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTG  136 (400)
Q Consensus        57 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  136 (400)
                      ...+.....|++++|.+++.++++.. +.+...|..|...|-..|+.+++...+-..-..+ +-|...|..+.....+.|
T Consensus       144 ~eAN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~  221 (895)
T KOG2076|consen  144 GEANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLG  221 (895)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcc
Confidence            33444556699999999999999986 4578899999999999999999998876665554 557899999999999999


Q ss_pred             ChHHHHHHHHHHHcCCCCCCc-----------ccchHHHHHHHHHHHhCCCCCChHhHH----HHHHHHHhcCCHHHHHH
Q 040367          137 HTIVALNLFEEMASGNGEFGV-----------EGFVDKAKELFLQMKDENINPDVVTYT----SVIRGFCYANDWNEAKC  201 (400)
Q Consensus       137 ~~~~a~~~~~~~~~~~~~~~~-----------~~~~~~a~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~~~~~~a~~  201 (400)
                      +++.|.-+|.++++..+....           .|....|..-|.++.....+.|..-+.    .++..+...++-+.|.+
T Consensus       222 ~i~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~  301 (895)
T KOG2076|consen  222 NINQARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAK  301 (895)
T ss_pred             cHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            999999999999988776433           789999999999998875433433333    34556777888899999


Q ss_pred             HHHHHHhC-CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcC---------------------------CCCCHHhH
Q 040367          202 LLIEMMDQ-GVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIG---------------------------VRPNAFVY  253 (400)
Q Consensus       202 ~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------------------------~~~~~~~~  253 (400)
                      .++..... +-..+...++.++..+.+...++.+...........                           ..++..++
T Consensus       302 ~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~  381 (895)
T KOG2076|consen  302 ALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVI  381 (895)
T ss_pred             HHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhH
Confidence            99888763 234455678888889999999999988887776621                           11222221


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcC--CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHH
Q 040367          254 NTLMDGFCLTGRVNRAKELFVSMESMG--CTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLF  331 (400)
Q Consensus       254 ~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  331 (400)
                       .++-++......+....+...+...+  +.-+...|.-+..++...|++.+|+.++..+......-+...|-.+..+|.
T Consensus       382 -rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~  460 (895)
T KOG2076|consen  382 -RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYM  460 (895)
T ss_pred             -hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHH
Confidence             22333444555555555555555554  333566788999999999999999999999998755557789999999999


Q ss_pred             hhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          332 EIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       332 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                      ..|.++.|.+.++..+.. -+.+...-.+|...+.+.|+.++|.+.++.+.
T Consensus       461 ~l~e~e~A~e~y~kvl~~-~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  461 ELGEYEEAIEFYEKVLIL-APDNLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             HHhhHHHHHHHHHHHHhc-CCCchhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            999999999999999986 23456677788889999999999999999876

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

Probab=99.70  E-value=4.4e-13  Score=110.34  Aligned_cols=354  Identities=14%  Similarity=0.104  Sum_probs=240.5

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHH
Q 040367           20 FNILFGCLAKNKHYDTVLSLFKRLNSTGLFPD-LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPN-AVTFTSLIKGL   97 (400)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~   97 (400)
                      +-...+-+.++|.+++|++.|.+..+.  .|+ +..|.....+|...|+|++..+.-...++.+  |+ +..+..-.+++
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~--P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELN--PDYVKALLRRASAH  193 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC--cHHHHHHHHHHHHH
Confidence            445567788999999999999999987  567 8889999999999999999999888887763  33 33444445566


Q ss_pred             HhcCCHHHHHHHH----------------------HH---------HHHcC--CCCCHHHHHHHHHHHHhc--------C
Q 040367           98 CAESRIMEAAALF----------------------TK---------LRVFG--CEPNVFTYNTLINGLYRT--------G  136 (400)
Q Consensus        98 ~~~~~~~~a~~~~----------------------~~---------~~~~~--~~~~~~~~~~l~~~~~~~--------~  136 (400)
                      -..|++++|+.-.                      .+         +...+  +-|+.....+....+...        +
T Consensus       194 E~lg~~~eal~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~  273 (606)
T KOG0547|consen  194 EQLGKFDEALFDVTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKS  273 (606)
T ss_pred             HhhccHHHHHHhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCC
Confidence            6666666654321                      11         11111  223443333333322110        0


Q ss_pred             C-----hHHHHHHHHHH---------------HcC------------------------CCCCCcccchHHHHHHHHHHH
Q 040367          137 H-----TIVALNLFEEM---------------ASG------------------------NGEFGVEGFVDKAKELFLQMK  172 (400)
Q Consensus       137 ~-----~~~a~~~~~~~---------------~~~------------------------~~~~~~~~~~~~a~~~~~~~~  172 (400)
                      +     ..++.+.+...               ...                        +...-..|+.-.+..-|+..+
T Consensus       274 ~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I  353 (606)
T KOG0547|consen  274 DKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAI  353 (606)
T ss_pred             ccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHH
Confidence            1     11111111111               000                        000011666777777788777


Q ss_pred             hCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHh
Q 040367          173 DENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFV  252 (400)
Q Consensus       173 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  252 (400)
                      .....++ ..|--+..+|....+.++.+..|++..+.+ +-++.+|..-.....-.+++++|..=|++.+... +.+...
T Consensus       354 ~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~-pe~~~~  430 (606)
T KOG0547|consen  354 KLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLD-PENAYA  430 (606)
T ss_pred             hcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC-hhhhHH
Confidence            7653332 337677778889999999999999988875 4466777777777788889999999999988863 225566


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-----Cchh--hHHH
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIK-----PDVV--IYNT  325 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~--~~~~  325 (400)
                      |-.+..+..+.+.+++++..|++..+.- |.-+..|+.....+...++++.|.+.|+..++....     .+..  +.-.
T Consensus       431 ~iQl~~a~Yr~~k~~~~m~~Fee~kkkF-P~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka  509 (606)
T KOG0547|consen  431 YIQLCCALYRQHKIAESMKTFEEAKKKF-PNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKA  509 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhC-CCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhh
Confidence            6677777778899999999999988763 556788999999999999999999999998875322     1111  1122


Q ss_pred             HHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          326 LFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       326 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      ++..- -.+++..|..+++++.+... -....|..|...-.+.|+.++|+++|++...
T Consensus       510 ~l~~q-wk~d~~~a~~Ll~KA~e~Dp-kce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  510 LLVLQ-WKEDINQAENLLRKAIELDP-KCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             Hhhhc-hhhhHHHHHHHHHHHHccCc-hHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            22211 24889999999999988632 2466788899999999999999999998764

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

Probab=99.70  E-value=1.3e-12  Score=104.98  Aligned_cols=294  Identities=12%  Similarity=0.031  Sum_probs=208.9

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 040367           30 NKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAAL  109 (400)
Q Consensus        30 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  109 (400)
                      .|+|.+|..+..+-.+.+ +.....|..-..+.-+.|+.+.+-..+.++.+....++....-...+.....|+++.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~-e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHG-EQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            689999999999987776 3234456666778888999999999999998874456667777788888899999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHH
Q 040367          110 FTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRG  189 (400)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  189 (400)
                      ++++.+.+ +..+........+|.+.|++.....++.++.+.+.-.+     +++.+           ....+|..++.-
T Consensus       176 v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~-----~e~~~-----------le~~a~~glL~q  238 (400)
T COG3071         176 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSD-----EEAAR-----------LEQQAWEGLLQQ  238 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCCh-----HHHHH-----------HHHHHHHHHHHH
Confidence            99998886 66788889999999999997666666666654432210     01110           123466677776


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHH
Q 040367          190 FCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRA  269 (400)
Q Consensus       190 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  269 (400)
                      ....+..+.-...|+....+ .+.++..-..++.-+.++|+.++|.++..+..+++..|+   . ...-.+.+-++...-
T Consensus       239 ~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~---L-~~~~~~l~~~d~~~l  313 (400)
T COG3071         239 ARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR---L-CRLIPRLRPGDPEPL  313 (400)
T ss_pred             HhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---H-HHHHhhcCCCCchHH
Confidence            66666666666666665543 345566667777778888888888888888888766555   1 112234456666666


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          270 KELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       270 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      .+..+.-.+.. +.++..+..|...|.+.+.|.+|.+.|+...+.  .|+..+|+.+..++.+.|+..+|.++.++....
T Consensus       314 ~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~  390 (400)
T COG3071         314 IKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALLL  390 (400)
T ss_pred             HHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            66666555443 445577778888888888888888888876664  567778888888888888888888887776643

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

Probab=99.68  E-value=3.3e-12  Score=102.78  Aligned_cols=293  Identities=10%  Similarity=0.055  Sum_probs=222.0

Q ss_pred             hcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 040367           64 KMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALN  143 (400)
Q Consensus        64 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  143 (400)
                      ..|+|.+|++...+..+.+.. ....|..-+.+--..|+.+.+-.++.+..+..-.++....-+........|+.+.|..
T Consensus        96 ~eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            358889998888887776533 3445556667777888899999888888876324566666777777788888555544


Q ss_pred             HHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-------H
Q 040367          144 LFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNV-------V  216 (400)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~  216 (400)
                      -+.                       ++.+.+ +-++........+|.+.|++.....++.++.+.+.-.+.       .
T Consensus       175 ~v~-----------------------~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~  230 (400)
T COG3071         175 NVD-----------------------QLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQ  230 (400)
T ss_pred             HHH-----------------------HHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHH
Confidence            444                       444443 446778889999999999999999999999998865554       3


Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 040367          217 TFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYC  296 (400)
Q Consensus       217 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  296 (400)
                      +|..+++-....+..+.-...++..... .+.++..-.+++.-+..+|+.++|.++..+..+....|+   ... .-.+.
T Consensus       231 a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~---L~~-~~~~l  305 (400)
T COG3071         231 AWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR---LCR-LIPRL  305 (400)
T ss_pred             HHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---HHH-HHhhc
Confidence            5677777666666666666677666544 455677778889999999999999999999998865554   222 22456


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHH
Q 040367          297 KNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVE  376 (400)
Q Consensus       297 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  376 (400)
                      +-++.+.-.+..++-.+.. +.++..+.+|...|.+.+.+.+|.+.|+...+.  .|+..+|+.+..++.+.|+..+|.+
T Consensus       306 ~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~  382 (400)
T COG3071         306 RPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQ  382 (400)
T ss_pred             CCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHH
Confidence            7778888777777665542 335578899999999999999999999988875  7899999999999999999999999


Q ss_pred             HHHHHHHhcccch
Q 040367          377 LFRTLRILKCELD  389 (400)
Q Consensus       377 ~~~~~~~~~~~p~  389 (400)
                      ..++....-.+|+
T Consensus       383 ~r~e~L~~~~~~~  395 (400)
T COG3071         383 VRREALLLTRQPN  395 (400)
T ss_pred             HHHHHHHHhcCCC
Confidence            9998874433443

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

Probab=99.67  E-value=1.5e-12  Score=106.63  Aligned_cols=299  Identities=12%  Similarity=0.077  Sum_probs=213.9

Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHhcC
Q 040367           59 INCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGC--EPNVFTYNTLINGLYRTG  136 (400)
Q Consensus        59 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~  136 (400)
                      ..++....+.+++.+-.+.....|++-+...-+....+.-...+++.|+.+|+++.+...  -.|..+|..++-.--...
T Consensus       234 ~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~s  313 (559)
T KOG1155|consen  234 KKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKS  313 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhH
Confidence            345555567777777777777777665555555555666677788888888888877631  015566666554332221


Q ss_pred             ChHHHHHHHHHHHcCCC------------CCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHH
Q 040367          137 HTIVALNLFEEMASGNG------------EFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLI  204 (400)
Q Consensus       137 ~~~~a~~~~~~~~~~~~------------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  204 (400)
                      .    +.++.+-.....            -++..+..++|+..|++..+.+ |.....|+.+..-|...++...|++-++
T Consensus       314 k----Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYR  388 (559)
T KOG1155|consen  314 K----LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYR  388 (559)
T ss_pred             H----HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHH
Confidence            1    112222111111            1222566788888888888775 4467789999999999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 040367          205 EMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHT  284 (400)
Q Consensus       205 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  284 (400)
                      .+++.. +.|-..|..+.++|.-.+.+.=|+-.|+++.+.. +.|...+.+|..+|.+.++.++|+..|......+ ..+
T Consensus       389 rAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte  465 (559)
T KOG1155|consen  389 RAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTE  465 (559)
T ss_pred             HHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccc
Confidence            999874 6688999999999999999999999999999863 4578999999999999999999999999999877 456


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCc--hhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHH
Q 040367          285 VFSYSILINGYCKNKEIEGALSLYGEMLSK----GIKPD--VVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTY  358 (400)
Q Consensus       285 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  358 (400)
                      ...+..|.+.|.+.++.++|...+.+.++.    |...+  ......|...+.+.+++++|..........         
T Consensus       466 ~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~---------  536 (559)
T KOG1155|consen  466 GSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG---------  536 (559)
T ss_pred             hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC---------
Confidence            788999999999999999999999887762    32212  222233455666777777776655444332         


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          359 RTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       359 ~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                               .-..++|..++++++.
T Consensus       537 ---------~~e~eeak~LlReir~  552 (559)
T KOG1155|consen  537 ---------ETECEEAKALLREIRK  552 (559)
T ss_pred             ---------CchHHHHHHHHHHHHH
Confidence                     2234666666666664

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

Probab=99.67  E-value=1.8e-11  Score=104.69  Aligned_cols=373  Identities=12%  Similarity=0.028  Sum_probs=310.7

Q ss_pred             hhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHH----HhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHH
Q 040367            3 IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRL----NSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRI   78 (400)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   78 (400)
                      +++...+.-|.  +...|-.-...--.+|+.+....++.+-    ...|+.-+..-|..=...|-..|..-.+..+....
T Consensus       428 vLNkaRe~ipt--d~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~av  505 (913)
T KOG0495|consen  428 VLNKAREIIPT--DREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAV  505 (913)
T ss_pred             HHHHHHhhCCC--ChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHH
Confidence            45666666665  8889988888889999999999988864    45688889999999999999999999999999999


Q ss_pred             HhcCCCC--ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCC
Q 040367           79 LRSCFTP--NAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFG  156 (400)
Q Consensus        79 ~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  156 (400)
                      +..|+.-  -..+|+.-.+.|.+.+.++-|..+|...++.- +.+...|......--..|..+.-..+|+++...-+...
T Consensus       506 igigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvf-p~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pkae  584 (913)
T KOG0495|consen  506 IGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVF-PCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPKAE  584 (913)
T ss_pred             HhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhc-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCcch
Confidence            8887653  35688999999999999999999999988763 55788898888888889999999999999987765432


Q ss_pred             c-----------ccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 040367          157 V-----------EGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDEL  225 (400)
Q Consensus       157 ~-----------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  225 (400)
                      .           .|+...|..++.+..+.. +.+...|.+-+..-....+++.|..+|.+....  .|+...|.--+..-
T Consensus       585 ~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~e  661 (913)
T KOG0495|consen  585 ILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLE  661 (913)
T ss_pred             hHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHH
Confidence            2           789999999999998875 447888999999999999999999999998874  57888887777777


Q ss_pred             HhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHH
Q 040367          226 CKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGAL  305 (400)
Q Consensus       226 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  305 (400)
                      --.+..++|.+++++.++. ++.-...|..+...+.+.++.+.|...|..-.+.- +...-.|-.|...-.+.|.+-+|.
T Consensus       662 r~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~c-P~~ipLWllLakleEk~~~~~rAR  739 (913)
T KOG0495|consen  662 RYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKC-PNSIPLWLLLAKLEEKDGQLVRAR  739 (913)
T ss_pred             HHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccC-CCCchHHHHHHHHHHHhcchhhHH
Confidence            7789999999999999986 44446788889999999999999999998877653 555667888888888889999999


Q ss_pred             HHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc-----------------------------CCCCCHH
Q 040367          306 SLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD-----------------------------GVAADTW  356 (400)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------------------------~~~~~~~  356 (400)
                      .++++..-.+++ +...|-..++.-.+.|+.+.|..+..++++.                             ...-|+.
T Consensus       740 ~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dph  818 (913)
T KOG0495|consen  740 SILDRARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPH  818 (913)
T ss_pred             HHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCch
Confidence            999999988755 7888999999999999999998888776542                             1223444


Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHh
Q 040367          357 TYRTFIDGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       357 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                      +.-.+...|....++++|.+.|.+..+.
T Consensus       819 Vllaia~lfw~e~k~~kar~Wf~Ravk~  846 (913)
T KOG0495|consen  819 VLLAIAKLFWSEKKIEKAREWFERAVKK  846 (913)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            5556677788888999999999999874

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

Probab=99.65  E-value=1.8e-11  Score=100.77  Aligned_cols=359  Identities=12%  Similarity=0.128  Sum_probs=249.7

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      +...|-.....-..++++..|.++|++++... ..+...|...+..-.+.+....|..++++.+..-+..| ..|-..+.
T Consensus        72 ~~~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~y  149 (677)
T KOG1915|consen   72 NMQVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIY  149 (677)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHH
Confidence            44445555555566788999999999999876 34777888889999999999999999999987633322 24444555


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc----------ccchHHHH
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV----------EGFVDKAK  165 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~~a~  165 (400)
                      +--..|++..|.++|++-.+.  .|+...|++.+..-.+-...+.|..++++..-.-+....          .|....+.
T Consensus       150 mEE~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR  227 (677)
T KOG1915|consen  150 MEEMLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALAR  227 (677)
T ss_pred             HHHHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHH
Confidence            556689999999999999877  899999999999999999999999999998776554332          67777788


Q ss_pred             HHHHHHHhCCC--CCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----------------------------------
Q 040367          166 ELFLQMKDENI--NPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ----------------------------------  209 (400)
Q Consensus       166 ~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----------------------------------  209 (400)
                      .+|....+.--  ..+...+.+....-.+...++.|.-+|+-.+++                                  
T Consensus       228 ~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KR  307 (677)
T KOG1915|consen  228 SVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKR  307 (677)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhh
Confidence            88777665310  112223334433334445555555555544432                                  


Q ss_pred             ---------CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH--HhHHHHHH--------HHHhcCCHHHHH
Q 040367          210 ---------GVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNA--FVYNTLMD--------GFCLTGRVNRAK  270 (400)
Q Consensus       210 ---------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~--------~~~~~~~~~~a~  270 (400)
                               ..+.|-.+|-..+..-...|+.+...+++++++.. ++|-.  ..+...|-        .-....|.+.+.
T Consensus       308 k~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr  386 (677)
T KOG1915|consen  308 KFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTR  386 (677)
T ss_pred             hhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence                     11334455666666666677888888888877765 34321  11111111        112456777788


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHH----HHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHH
Q 040367          271 ELFVSMESMGCTHTVFSYSILING----YCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEM  346 (400)
Q Consensus       271 ~~~~~~~~~~~~~~~~~~~~l~~~----~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  346 (400)
                      ++|+...+. +|....||..+=-.    -.++.++..|.+++..++  |..|-..++...+..-.+.+++|.+..++++.
T Consensus       387 ~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkf  463 (677)
T KOG1915|consen  387 QVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKF  463 (677)
T ss_pred             HHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            888777763 34455555443333    346678888888887776  45677788888888888888999999999988


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          347 QRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       347 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      ++.+ +.+..+|......-...|+.+.|..+|+-...
T Consensus       464 le~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~  499 (677)
T KOG1915|consen  464 LEFS-PENCYAWSKYAELETSLGDTDRARAIFELAIS  499 (677)
T ss_pred             HhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhc
Confidence            8864 33677788777777788999999999988875

>PRK12370 invasion protein regulator; Provisional

Probab=99.61  E-value=3.8e-12  Score=114.70  Aligned_cols=268  Identities=13%  Similarity=0.072  Sum_probs=179.7

Q ss_pred             CCCHHHHHHHHHHHHh-----cCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHH---------hcCCHHHHHHHHHHHH
Q 040367           49 FPDLYTYNILINCFCK-----MGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLC---------AESRIMEAAALFTKLR  114 (400)
Q Consensus        49 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~  114 (400)
                      +.+...|...+.+-..     .+++++|.+.+++..+..+ .+...|..+..++.         ..+++++|...+++..
T Consensus       253 ~~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP-~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        253 LNSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSP-NSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             CCChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            3456666655555322     2346788999999887742 24555655555443         2345789999999988


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcC
Q 040367          115 VFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYAN  194 (400)
Q Consensus       115 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  194 (400)
                      +.+ +.+..++..+...+...|++++|...|++...                       .+ |.+...+..+..++...|
T Consensus       332 ~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~-----------------------l~-P~~~~a~~~lg~~l~~~G  386 (553)
T PRK12370        332 ELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANL-----------------------LS-PISADIKYYYGWNLFMAG  386 (553)
T ss_pred             hcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHH-----------------------hC-CCCHHHHHHHHHHHHHCC
Confidence            875 55788888888888888886666666555443                       32 445667888888899999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHH
Q 040367          195 DWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFV  274 (400)
Q Consensus       195 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  274 (400)
                      ++++|+..+++..+.+. .+...+..++..+...|++++|...++++.+...+.++..+..+..++...|+.++|...+.
T Consensus       387 ~~~eAi~~~~~Al~l~P-~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~  465 (553)
T PRK12370        387 QLEEALQTINECLKLDP-TRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTK  465 (553)
T ss_pred             CHHHHHHHHHHHHhcCC-CChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            99999999999988642 23333334444566788999999999988775433345566778888889999999999998


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          275 SMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK-GIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       275 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      ++.... +.+....+.+...|...|  ++|...++.+.+. .-.+....+  +...+.-.|+.+.+..+ +++.+.
T Consensus       466 ~~~~~~-~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        466 EISTQE-ITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             Hhhhcc-chhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhcc
Confidence            876553 223444555666667766  4777777776653 112222222  34445557777777776 777765

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

Probab=99.60  E-value=1.4e-11  Score=103.49  Aligned_cols=282  Identities=13%  Similarity=0.036  Sum_probs=216.9

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHH
Q 040367           86 NAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAK  165 (400)
Q Consensus        86 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~  165 (400)
                      +........+-+...+++.+..++.+.+.+.. ++....+..-|.++...|+..+-..+-.+                  
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~------------------  303 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHK------------------  303 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHH------------------
Confidence            34444555566777888888888888888775 66777777777788888775444333333                  


Q ss_pred             HHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcC
Q 040367          166 ELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIG  245 (400)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  245 (400)
                           +.+. .|....+|-++.-.|...|+..+|.+.|.+....+ +.=...|..+...|.-.|..++|...+..+-+. 
T Consensus       304 -----LV~~-yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-  375 (611)
T KOG1173|consen  304 -----LVDL-YPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-  375 (611)
T ss_pred             -----HHHh-CCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-
Confidence                 3332 35577899999999999999999999999987653 222446788888899999999999999888775 


Q ss_pred             CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCC----Cc
Q 040367          246 VRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK--GIK----PD  319 (400)
Q Consensus       246 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~----~~  319 (400)
                      ++-....+--+..-|.+.++.+.|.+.|.+..... |.|+...+.+.-.....+.+.+|..+|+..+..  .+.    .-
T Consensus       376 ~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w  454 (611)
T KOG1173|consen  376 MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFW  454 (611)
T ss_pred             ccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccch
Confidence            22222223345566888999999999999998875 678888898888888889999999999987732  111    12


Q ss_pred             hhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHHHHhh
Q 040367          320 VVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLID  398 (400)
Q Consensus       320 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~  398 (400)
                      ..+++.|+.++.+.+.+++|+..+++.+.. .+-+..++.++.-.|...|+++.|.+.|.+.+.  +.|+..+-..++.
T Consensus       455 ~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  455 EPTLNNLGHAYRKLNKYEEAIDYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLK  530 (611)
T ss_pred             hHHHHhHHHHHHHHhhHHHHHHHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHH
Confidence            345788999999999999999999999987 455899999999999999999999999999986  6888877766664

>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=99.60  E-value=8.6e-11  Score=102.55  Aligned_cols=295  Identities=13%  Similarity=0.134  Sum_probs=198.1

Q ss_pred             HHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc--
Q 040367           23 LFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAE--  100 (400)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--  100 (400)
                      ....+...|++++|++.++.-... +.............+.+.|+.++|..+|..+++.+ +.|..-|..+..+..-.  
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcc
Confidence            345567778888888888765544 33344555666777788888888888888888775 22444444444444222  


Q ss_pred             ---CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCC
Q 040367          101 ---SRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENIN  177 (400)
Q Consensus       101 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  177 (400)
                         .+.+...++|+++...-  |.......+.-.+.....                      .-..+...+......|+|
T Consensus        88 ~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~----------------------F~~~~~~yl~~~l~KgvP  143 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDE----------------------FKERLDEYLRPQLRKGVP  143 (517)
T ss_pred             cccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHH----------------------HHHHHHHHHHHHHhcCCc
Confidence               24566667777766542  333332222222221111                      134455666667777755


Q ss_pred             CChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----C----------CCCCHH--HHHHHHHHHHhCCChHHHHHHHHHH
Q 040367          178 PDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ----G----------VQPNVV--TFNVIMDELCKNGKMDEASRLLDLM  241 (400)
Q Consensus       178 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~----------~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~  241 (400)
                      +   +|+.+-..|......+-..+++......    +          -+|+..  ++..+...|...|++++|+++.++.
T Consensus       144 s---lF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~a  220 (517)
T PF12569_consen  144 S---LFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKA  220 (517)
T ss_pred             h---HHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            3   5666666666665665566666665432    1          134443  4456677888999999999999999


Q ss_pred             HHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchh
Q 040367          242 IQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVV  321 (400)
Q Consensus       242 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  321 (400)
                      +++. +..+..|..-...+-+.|++.+|.+.++.....+ ..|-..-+..+..+.+.|+.++|.+++....+.+..|-..
T Consensus       221 I~ht-Pt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~  298 (517)
T PF12569_consen  221 IEHT-PTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSN  298 (517)
T ss_pred             HhcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccC
Confidence            9973 2247788888999999999999999999999887 5677888888899999999999999999998876533322


Q ss_pred             ------hH--HHHHHHHHhhCcHHHHHHHHHHHHH
Q 040367          322 ------IY--NTLFVVLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       322 ------~~--~~l~~~~~~~~~~~~a~~~~~~~~~  348 (400)
                            .|  .-...+|.+.|++..|++.|....+
T Consensus       299 L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  299 LNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence                  22  3346788899999999888877654

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 [], [].

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.58  E-value=3.7e-12  Score=100.95  Aligned_cols=199  Identities=14%  Similarity=0.132  Sum_probs=131.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC-------ChHHHHHHHHHHHHcCCCCCH-HhHHHH
Q 040367          185 SVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNG-------KMDEASRLLDLMIQIGVRPNA-FVYNTL  256 (400)
Q Consensus       185 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~-~~~~~l  256 (400)
                      .++-.|.+.+++++|..+.+++.-    .++.-|..-.-.+...|       ...-|.+.|+-.-+++..-|. .--.++
T Consensus       290 NL~iYyL~q~dVqeA~~L~Kdl~P----ttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsm  365 (557)
T KOG3785|consen  290 NLIIYYLNQNDVQEAISLCKDLDP----TTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSM  365 (557)
T ss_pred             hheeeecccccHHHHHHHHhhcCC----CChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHH
Confidence            345567788889998888776542    22322222222222333       344566666655554433332 223345


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhH-HHHHHHHHhhCc
Q 040367          257 MDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIY-NTLFVVLFEIHQ  335 (400)
Q Consensus       257 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~  335 (400)
                      ..++.-..++++.+..+..+...-...|...+ .+.++++..|++.+|.++|-+.....++ |..+| ..+.++|.+.++
T Consensus       366 As~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkk  443 (557)
T KOG3785|consen  366 ASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKK  443 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCC
Confidence            55666667889999888888876544444444 5788999999999999999887765555 55555 456689999999


Q ss_pred             HHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHH
Q 040367          336 VERAFKLFDEMQRDGVAAD-TWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYN  394 (400)
Q Consensus       336 ~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  394 (400)
                      ++.|++++-.+-.   +.+ ......+.+.|.+.+.+--|.+.|+.+..  +.|+.+.|.
T Consensus       444 P~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~--lDP~pEnWe  498 (557)
T KOG3785|consen  444 PQLAWDMMLKTNT---PSERFSLLQLIANDCYKANEFYYAAKAFDELEI--LDPTPENWE  498 (557)
T ss_pred             chHHHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHc--cCCCccccC
Confidence            9999988655432   222 33445667789999999999999998886  467777664

>PRK12370 invasion protein regulator; Provisional

Probab=99.58  E-value=1.3e-11  Score=111.25  Aligned_cols=278  Identities=12%  Similarity=0.013  Sum_probs=187.9

Q ss_pred             CCChhhHHHHHHHHHh-----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcc
Q 040367           84 TPNAVTFTSLIKGLCA-----ESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVE  158 (400)
Q Consensus        84 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  158 (400)
                      ..+...|...+.+...     .+++++|.+.|++..+.. +.+...|..+..++...+.....              ...
T Consensus       253 ~~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~--------------~~~  317 (553)
T PRK12370        253 LNSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIF--------------DKQ  317 (553)
T ss_pred             CCChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCc--------------ccc
Confidence            3455555555544221     234689999999999774 33566777776655432211000              001


Q ss_pred             cchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHH
Q 040367          159 GFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLL  238 (400)
Q Consensus       159 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  238 (400)
                      +.+++|...+++..+.+ |.+...+..+..++...|++++|...++++.+.+ +.+...+..+..++...|++++|...+
T Consensus       318 ~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~  395 (553)
T PRK12370        318 NAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTI  395 (553)
T ss_pred             hHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            22456666666666654 4577888888889999999999999999999875 556778888899999999999999999


Q ss_pred             HHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 040367          239 DLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKP  318 (400)
Q Consensus       239 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  318 (400)
                      +++.+.... +...+..++..+...|++++|...++++.....+.++..+..+..++...|++++|...++++.... +.
T Consensus       396 ~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~  473 (553)
T PRK12370        396 NECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-IT  473 (553)
T ss_pred             HHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-ch
Confidence            999987433 2333334455566789999999999998876423355567788888999999999999999876642 22


Q ss_pred             chhhHHHHHHHHHhhCcHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhc
Q 040367          319 DVVIYNTLFVVLFEIHQVERAFKLFDEMQRDG-VAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILK  385 (400)
Q Consensus       319 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  385 (400)
                      +....+.+...+...|  +.|...++.+.+.. ..+....+  +...+.-.|+.+.+..+ +++.+.|
T Consensus       474 ~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        474 GLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             hHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            3444555666667667  47888777776531 12222222  33445556777776665 7777543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.58  E-value=8.5e-12  Score=100.48  Aligned_cols=201  Identities=12%  Similarity=0.027  Sum_probs=169.0

Q ss_pred             ChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 040367          179 DVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMD  258 (400)
Q Consensus       179 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  258 (400)
                      ....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+..
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~  107 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            45677888899999999999999999998764 4467788888999999999999999999999874 335677888889


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHH
Q 040367          259 GFCLTGRVNRAKELFVSMESMGC-THTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVE  337 (400)
Q Consensus       259 ~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  337 (400)
                      .+...|++++|...+.+..+... +.....+..+...+...|++++|.+.+.+..+... .+...+..+...+...|+++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP-QRPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CChHHHHHHHHHHHHcCCHH
Confidence            99999999999999999987432 22345677788899999999999999999988643 35667888889999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          338 RAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       338 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      +|...+++..+. .+.+...+..+...+...|+.++|..+.+.+..
T Consensus       187 ~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       187 DARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            999999999886 345677777888888999999999999888765

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=99.54  E-value=2.5e-11  Score=97.79  Aligned_cols=203  Identities=13%  Similarity=0.067  Sum_probs=164.9

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHH
Q 040367          120 PNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEA  199 (400)
Q Consensus       120 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  199 (400)
                      .....+..+...+...|++++|...+++...                       .. +.+...+..+...+...|++++|
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~-----------------------~~-p~~~~~~~~la~~~~~~~~~~~A   84 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALE-----------------------HD-PDDYLAYLALALYYQQLGELEKA   84 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-----------------------hC-cccHHHHHHHHHHHHHcCCHHHH
Confidence            3466788888999999997777666665532                       21 34567888889999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          200 KCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV-RPNAFVYNTLMDGFCLTGRVNRAKELFVSMES  278 (400)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  278 (400)
                      .+.+++..+.. +.+...+..+...+...|++++|.+.++++..... ......+..+..++...|++++|...+.+..+
T Consensus        85 ~~~~~~al~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  163 (234)
T TIGR02521        85 EDSFRRALTLN-PNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQ  163 (234)
T ss_pred             HHHHHHHHhhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999998864 44667788888899999999999999999987532 22345677788899999999999999999988


Q ss_pred             cCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          279 MGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       279 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      .. +.+...+..+...+...|++++|...+++..+. .+.+...+..+...+...|+.++|..+.+.+...
T Consensus       164 ~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       164 ID-PQRPESLLELAELYYLRGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             hC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            75 446778889999999999999999999999887 3446667777888888999999999998887653

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.

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

Probab=99.52  E-value=9.3e-11  Score=98.71  Aligned_cols=286  Identities=11%  Similarity=0.021  Sum_probs=214.0

Q ss_pred             CCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 040367           50 PDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLI  129 (400)
Q Consensus        50 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  129 (400)
                      .+......-.+-+...+++++..++.+.+.+.. ++....+..-|.++.+.|+..+-..+=.++.+.- |-.+.+|.++.
T Consensus       242 ~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg  319 (611)
T KOG1173|consen  242 ENLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVG  319 (611)
T ss_pred             hcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHH
Confidence            355556666677788899999999999999875 5666677777778889998888777777777663 55788999999


Q ss_pred             HHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          130 NGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ  209 (400)
Q Consensus       130 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  209 (400)
                      --|...|..++|.++|.+....++.                        =...|-.....|+-.|..+.|+..+..+-+.
T Consensus       320 ~YYl~i~k~seARry~SKat~lD~~------------------------fgpaWl~fghsfa~e~EhdQAmaaY~tAarl  375 (611)
T KOG1173|consen  320 CYYLMIGKYSEARRYFSKATTLDPT------------------------FGPAWLAFGHSFAGEGEHDQAMAAYFTAARL  375 (611)
T ss_pred             HHHHHhcCcHHHHHHHHHHhhcCcc------------------------ccHHHHHHhHHhhhcchHHHHHHHHHHHHHh
Confidence            9999999987777777776543322                        2347888888888899999999888877653


Q ss_pred             CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhc----C--CCC
Q 040367          210 GVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESM----G--CTH  283 (400)
Q Consensus       210 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~--~~~  283 (400)
                      - +-....+--+.--|.+.++.+.|.+.|.++... .+.|+.+.+-+.-.....+.+.+|...|+.....    +  ...
T Consensus       376 ~-~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~  453 (611)
T KOG1173|consen  376 M-PGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIF  453 (611)
T ss_pred             c-cCCcchHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccc
Confidence            1 111111222334577788999999999988876 3557788888888878888999999988877521    1  011


Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 040367          284 TVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFID  363 (400)
Q Consensus       284 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  363 (400)
                      ...+++.|..+|.+.+.+++|+..+++.+.... .+..++.++.-.+...|+++.|.+.|.+.+-  +.|+-.+...++.
T Consensus       454 w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~-k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  454 WEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSP-KDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLK  530 (611)
T ss_pred             hhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCC-CchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHH
Confidence            334578888899999999999999999888753 4788888998899999999999999998876  4677666666655


Q ss_pred             HHH
Q 040367          364 GLC  366 (400)
Q Consensus       364 ~~~  366 (400)
                      .+.
T Consensus       531 ~ai  533 (611)
T KOG1173|consen  531 LAI  533 (611)
T ss_pred             HHH
Confidence            443

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

Probab=99.52  E-value=4.4e-10  Score=93.12  Aligned_cols=322  Identities=13%  Similarity=0.070  Sum_probs=218.5

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 040367           55 YNILINCFCKMGRVSHGFVVLGRILRSCFTPN-AVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLY  133 (400)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  133 (400)
                      +....+-|.+.|++++|++.|.+.+..  .|+ +..|.....+|...|+++++.+.-.+.++.+ +.-+..+..-..++.
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~-P~Y~KAl~RRA~A~E  194 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELN-PDYVKALLRRASAHE  194 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC-cHHHHHHHHHHHHHH
Confidence            455667788999999999999999987  567 7888899999999999999999888888763 223556777777888


Q ss_pred             hcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHH--------HHHh-CC--CCCChHhHHHHHHHHHh----------
Q 040367          134 RTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFL--------QMKD-EN--INPDVVTYTSVIRGFCY----------  192 (400)
Q Consensus       134 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~--------~~~~-~~--~~~~~~~~~~l~~~~~~----------  192 (400)
                      ..|++++|+.=..-.--.+. +........+.+++.        +-.+ .+  +-|+.....+....+-.          
T Consensus       195 ~lg~~~eal~D~tv~ci~~~-F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~  273 (606)
T KOG0547|consen  195 QLGKFDEALFDVTVLCILEG-FQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKS  273 (606)
T ss_pred             hhccHHHHHHhhhHHHHhhh-cccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCC
Confidence            88888877653322211110 000001111112221        1111 11  12333222222222210          


Q ss_pred             ---------------cC---CHHHHHHHHHHHHhCC-CCC-----CH------HHHHHHHHHHHhCCChHHHHHHHHHHH
Q 040367          193 ---------------AN---DWNEAKCLLIEMMDQG-VQP-----NV------VTFNVIMDELCKNGKMDEASRLLDLMI  242 (400)
Q Consensus       193 ---------------~~---~~~~a~~~~~~~~~~~-~~~-----~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~  242 (400)
                                     .+   .+..|...+.+-.... ..+     |.      .+...-..-+.-.|+.-.|..-|+..+
T Consensus       274 ~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I  353 (606)
T KOG0547|consen  274 DKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAI  353 (606)
T ss_pred             ccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHH
Confidence                           01   1223333332211100 011     11      111111222344688889999999999


Q ss_pred             HcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhh
Q 040367          243 QIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVI  322 (400)
Q Consensus       243 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  322 (400)
                      +....+ ...|-.+..+|...++.++....|....+.+ +.++.+|..-.+.+.-.+++++|..-|++.++.... +...
T Consensus       354 ~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe-~~~~  430 (606)
T KOG0547|consen  354 KLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPE-NAYA  430 (606)
T ss_pred             hcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChh-hhHH
Confidence            875443 3337777788999999999999999999987 678889999999999999999999999999987533 5666


Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Q 040367          323 YNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       323 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                      |-.+..+..+.++++++...|++.+++ ++..+..|+.....+..++++++|.+.|+..++.
T Consensus       431 ~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  431 YIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            667777777899999999999999987 7777999999999999999999999999999863

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.52  E-value=3.4e-11  Score=103.80  Aligned_cols=244  Identities=20%  Similarity=0.202  Sum_probs=165.7

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhc-----C-CCCChhh-HHHHHHHHHhcCCHHHHHHHHHHHHHc-----C-C
Q 040367           52 LYTYNILINCFCKMGRVSHGFVVLGRILRS-----C-FTPNAVT-FTSLIKGLCAESRIMEAAALFTKLRVF-----G-C  118 (400)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~  118 (400)
                      ..+...+...|...|+++.|..++++.++.     | ..|...+ .+.+...|...+++.+|..+|+++...     | .
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            456677899999999999999999988775     1 1344433 345778899999999999999998753     3 1


Q ss_pred             -CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCC-hHhHHHHHHHHHhcCCH
Q 040367          119 -EPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPD-VVTYTSVIRGFCYANDW  196 (400)
Q Consensus       119 -~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~  196 (400)
                       +.-..+++.|..+|.+.|++++|...+                +.|.+++++..... .|. ...++.+...|...+++
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~----------------e~Al~I~~~~~~~~-~~~v~~~l~~~~~~~~~~~~~  341 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYC----------------ERALEIYEKLLGAS-HPEVAAQLSELAAILQSMNEY  341 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHH----------------HHHHHHHHHhhccC-hHHHHHHHHHHHHHHHHhcch
Confidence             123467888888999999999999984                55677777733322 222 23456677788889999


Q ss_pred             HHHHHHHHHHHhCC---CC----CCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcC----C--C-CCHHhHHHHHHHHHh
Q 040367          197 NEAKCLLIEMMDQG---VQ----PNVVTFNVIMDELCKNGKMDEASRLLDLMIQIG----V--R-PNAFVYNTLMDGFCL  262 (400)
Q Consensus       197 ~~a~~~~~~~~~~~---~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~--~-~~~~~~~~l~~~~~~  262 (400)
                      ++|..+++...+.-   ..    .-..+++.+...|...|++++|.+++++++...    .  . -....++.+...|.+
T Consensus       342 Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~  421 (508)
T KOG1840|consen  342 EEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEE  421 (508)
T ss_pred             hHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHH
Confidence            99999988765420   11    123567777778888888888888887776541    1  1 113455666777777


Q ss_pred             cCCHHHHHHHHHHHHh----cC--CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040367          263 TGRVNRAKELFVSMES----MG--CTHTVFSYSILINGYCKNKEIEGALSLYGEML  312 (400)
Q Consensus       263 ~~~~~~a~~~~~~~~~----~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  312 (400)
                      .+++.+|..+|.+...    .|  .+....+|..|...|...|+++.|.++.....
T Consensus       422 ~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  422 LKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             hcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            7777777776665432    11  11223456666667777777777776665554

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

Probab=99.52  E-value=3.2e-09  Score=91.05  Aligned_cols=72  Identities=15%  Similarity=0.219  Sum_probs=41.0

Q ss_pred             hHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 040367            4 FDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRIL   79 (400)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   79 (400)
                      |+..+..-|...-...|...+......+-++.++.++++-.+.    ++..-...+..+...+++++|.+.+..++
T Consensus       125 fdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L~~~d~~~eaa~~la~vl  196 (835)
T KOG2047|consen  125 FDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYLAKSDRLDEAAQRLATVL  196 (835)
T ss_pred             HHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHHHhccchHHHHHHHHHhc
Confidence            4444444444233445666666666666666666666666553    23335555666666666666666665554

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.51  E-value=2.9e-11  Score=104.22  Aligned_cols=245  Identities=19%  Similarity=0.172  Sum_probs=158.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----C-CCCCHHH-HHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCccc
Q 040367           87 AVTFTSLIKGLCAESRIMEAAALFTKLRVF-----G-CEPNVFT-YNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEG  159 (400)
Q Consensus        87 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  159 (400)
                      ..+...+...|...|+++.|+.+++...+.     | ..|...+ .+.+...|...+++++|..+|              
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly--------------  264 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLY--------------  264 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHH--------------
Confidence            346667889999999999999999887654     2 1233333 344777888999999998885              


Q ss_pred             chHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CC-CCCH-HHHHHHHHHHHhCCChH
Q 040367          160 FVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ-----GV-QPNV-VTFNVIMDELCKNGKMD  232 (400)
Q Consensus       160 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~~~~~  232 (400)
                        ++|+.+++.......+.-..+++.|..+|.+.|++++|...++...+.     +. .|.. ..++.+...+...++++
T Consensus       265 --~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~E  342 (508)
T KOG1840|consen  265 --EEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYE  342 (508)
T ss_pred             --HHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchh
Confidence              456667777766654555667888888999999999999888877542     11 1121 23455556677777888


Q ss_pred             HHHHHHHHHHHcC---CCC----CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcC----C---CCChhhHHHHHHHHHhc
Q 040367          233 EASRLLDLMIQIG---VRP----NAFVYNTLMDGFCLTGRVNRAKELFVSMESMG----C---THTVFSYSILINGYCKN  298 (400)
Q Consensus       233 ~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~---~~~~~~~~~l~~~~~~~  298 (400)
                      +|..+++...+.-   +.+    -..+++.|...|...|++++|.++++.+....    .   .-....++.|...|.+.
T Consensus       343 ea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~  422 (508)
T KOG1840|consen  343 EAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEEL  422 (508)
T ss_pred             HHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHh
Confidence            8877777655430   111    13456667777777777777777777665421    1   11123455666667777


Q ss_pred             CCHHHHHHHHHHHHhC----CC--CCchhhHHHHHHHHHhhCcHHHHHHHHHHHH
Q 040367          299 KEIEGALSLYGEMLSK----GI--KPDVVIYNTLFVVLFEIHQVERAFKLFDEMQ  347 (400)
Q Consensus       299 ~~~~~a~~~~~~~~~~----~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  347 (400)
                      +.+++|.++|.+...-    |+  +....+|..|...|...|+++.|.++.+.+.
T Consensus       423 k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  423 KKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             cccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            7777666666554331    21  1123456666666777777777766666554

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

Probab=99.50  E-value=6.8e-12  Score=98.34  Aligned_cols=232  Identities=14%  Similarity=-0.005  Sum_probs=160.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHH
Q 040367           89 TFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELF  168 (400)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~  168 (400)
                      --+.+..+|.+.|.+.+|.+.++...+.  .|-+.||..|-.+|.+..++..|+.++.+..                   
T Consensus       225 Wk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gl-------------------  283 (478)
T KOG1129|consen  225 WKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGL-------------------  283 (478)
T ss_pred             HHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhh-------------------
Confidence            3356667777888888888777777665  5667777777778877777655555554432                   


Q ss_pred             HHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCC
Q 040367          169 LQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRP  248 (400)
Q Consensus       169 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  248 (400)
                          +. +|.+........+.+-..++.++|.++|+...+.. +.+......+...|.-.++++-|+.+++++++.|.. 
T Consensus       284 ----d~-fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-  356 (478)
T KOG1129|consen  284 ----DS-FPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-  356 (478)
T ss_pred             ----hc-CCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-
Confidence                22 23444444556667777777888888888777653 445555666666777777888888888888887765 


Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHH
Q 040367          249 NAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTH--TVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTL  326 (400)
Q Consensus       249 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  326 (400)
                      ++..|+.+.-+|.-.++++-++..|.+....--.|  -..+|..+.......|++..|.+.|+-...++.. +...++.|
T Consensus       357 speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNL  435 (478)
T KOG1129|consen  357 SPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNL  435 (478)
T ss_pred             ChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhH
Confidence            67777777777777778888877777776543223  2456777777777788888888888877766433 56777777


Q ss_pred             HHHHHhhCcHHHHHHHHHHHHHc
Q 040367          327 FVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       327 ~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      ...-.+.|+++.|..++..+...
T Consensus       436 avL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  436 AVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHHhhcCchHHHHHHHHHhhhh
Confidence            77777888888888888777654

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

Probab=99.50  E-value=1.3e-11  Score=108.87  Aligned_cols=332  Identities=13%  Similarity=0.085  Sum_probs=175.5

Q ss_pred             HHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCC
Q 040367            5 DYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFT   84 (400)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   84 (400)
                      -.+...|.. ||..||..+|.-|+..|+.+.|- +|..|.-...+.+...|+.++.+....++.+.+.           .
T Consensus        14 a~~e~~gi~-PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------e   80 (1088)
T KOG4318|consen   14 ALHEISGIL-PNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------E   80 (1088)
T ss_pred             HHHHHhcCC-CchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------C
Confidence            344444555 56666666666666666666665 6666655555555556666666666555555543           4


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc-------
Q 040367           85 PNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV-------  157 (400)
Q Consensus        85 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------  157 (400)
                      |...+|..|..+|...|++..    |+...+        ....+...+...|.-.....++..+...+.....       
T Consensus        81 p~aDtyt~Ll~ayr~hGDli~----fe~veq--------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~ill  148 (1088)
T KOG4318|consen   81 PLADTYTNLLKAYRIHGDLIL----FEVVEQ--------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILL  148 (1088)
T ss_pred             CchhHHHHHHHHHHhccchHH----HHHHHH--------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHH
Confidence            555666666666666666544    111111        1112223333333333333333222111111000       


Q ss_pred             ---ccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHH
Q 040367          158 ---EGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYAND-WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDE  233 (400)
Q Consensus       158 ---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  233 (400)
                         .|.++.+++++..+.-.... .  .+..+++-+..... +++-........+   .|++.+|..++.+....|+.+.
T Consensus       149 lv~eglwaqllkll~~~Pvsa~~-~--p~~vfLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~  222 (1088)
T KOG4318|consen  149 LVLEGLWAQLLKLLAKVPVSAWN-A--PFQVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDG  222 (1088)
T ss_pred             HHHHHHHHHHHHHHhhCCccccc-c--hHHHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhh
Confidence               33344444444333222100 0  11112333333222 2332222222222   4788888888888888888888


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          234 ASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       234 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  313 (400)
                      |..++..|.+.|++.+.+-|..|+-+   .++...++.+++-|...|+.|+..|+...+-.+...|....+.        
T Consensus       223 Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~--------  291 (1088)
T KOG4318|consen  223 AKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGE--------  291 (1088)
T ss_pred             HHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcc--------
Confidence            88888888888888888877777755   7778888888888888888888888887777777654422221        


Q ss_pred             CCCCCchhhHHHHHHHHHhhCcHHHHHHHH------------HHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 040367          314 KGIKPDVVIYNTLFVVLFEIHQVERAFKLF------------DEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTL  381 (400)
Q Consensus       314 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~------------~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  381 (400)
                      .|.+ ....+++-...-+-.|  ..|.+.+            .+..-.|+.....+|.. ..-...+|+-++..++...|
T Consensus       292 e~sq-~~hg~tAavrsaa~rg--~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~-c~~l~hQgk~e~veqlvg~l  367 (1088)
T KOG4318|consen  292 EGSQ-LAHGFTAAVRSAACRG--LLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSM-CEKLRHQGKGEEVEQLVGQL  367 (1088)
T ss_pred             cccc-hhhhhhHHHHHHHhcc--cHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHH-HHHHHHcCCCchHHHHHhhh
Confidence            1222 2222222222222223  2222222            22222244434444443 34455678888888888888


Q ss_pred             H
Q 040367          382 R  382 (400)
Q Consensus       382 ~  382 (400)
                      .
T Consensus       368 ~  368 (1088)
T KOG4318|consen  368 L  368 (1088)
T ss_pred             c
Confidence            6

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

Probab=99.49  E-value=5.1e-11  Score=105.35  Aligned_cols=280  Identities=16%  Similarity=0.230  Sum_probs=204.4

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 040367           38 SLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFG  117 (400)
Q Consensus        38 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  117 (400)
                      .++-.+...|+.|+..+|..+|.-|+..|+.+.|- +|.-|.-...+.+...|+.++......++.+.+.          
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            45667888899999999999999999999999998 8998887777778889999999988888877766          


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHH-HHcCCCCCCcccchHHHHHHHHHHHh-CCCCCChHhHHHHHHHHHhcCC
Q 040367          118 CEPNVFTYNTLINGLYRTGHTIVALNLFEE-MASGNGEFGVEGFVDKAKELFLQMKD-ENINPDVVTYTSVIRGFCYAND  195 (400)
Q Consensus       118 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~  195 (400)
                       .|...+|..|..+|...|+... ++..++ +..........|.......++..+.- .+.-||..   ..+....-.|-
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n~illlv~egl  154 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAILLLVLEGL  154 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---HHHHHHHHHHH
Confidence             6889999999999999999766 333333 44444444444545555555554322 23445543   33444566777


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHH
Q 040367          196 WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVS  275 (400)
Q Consensus       196 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  275 (400)
                      |+.+++++..+...... .+...  +++-+...  .....+++.......-.|++.++..++.+-...|+.+.|..++.+
T Consensus       155 waqllkll~~~Pvsa~~-~p~~v--fLrqnv~~--ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~e  229 (1088)
T KOG4318|consen  155 WAQLLKLLAKVPVSAWN-APFQV--FLRQNVVD--NTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYE  229 (1088)
T ss_pred             HHHHHHHHhhCCccccc-chHHH--HHHHhccC--CchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHH
Confidence            88888888766433211 11111  23333322  233334444433322268999999999999999999999999999


Q ss_pred             HHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHH
Q 040367          276 MESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFK  341 (400)
Q Consensus       276 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  341 (400)
                      |.+.|.+.+..-|-.|+-+   .++...+..+++-|.+.|+.|+..|+...+..+..+|....+.+
T Consensus       230 mke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e  292 (1088)
T KOG4318|consen  230 MKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEE  292 (1088)
T ss_pred             HHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhccc
Confidence            9999988888877777755   78889999999999999999999999988888887666544433

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

Probab=99.49  E-value=3.4e-11  Score=94.55  Aligned_cols=234  Identities=14%  Similarity=0.098  Sum_probs=191.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHH
Q 040367          126 NTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIE  205 (400)
Q Consensus       126 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  205 (400)
                      +.+..+|.+.|-+.+|.+.|+.                       ..+.  .|-+.||..|-++|.+..++..|+.++.+
T Consensus       227 ~Q~gkCylrLgm~r~Aekqlqs-----------------------sL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~  281 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQS-----------------------SLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGE  281 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHH-----------------------Hhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhh
Confidence            5678888888885555555444                       4443  45667999999999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCh
Q 040367          206 MMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTV  285 (400)
Q Consensus       206 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  285 (400)
                      -.+. .+.+.....-+...+...++.++|.++++...+.. +.+.....++...|.-.++++-|...|+++.+.| ..++
T Consensus       282 gld~-fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG-~~sp  358 (478)
T KOG1129|consen  282 GLDS-FPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMG-AQSP  358 (478)
T ss_pred             hhhc-CCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhc-CCCh
Confidence            8876 34455445567778888999999999999999874 4467777788888999999999999999999999 5689


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc--hhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 040367          286 FSYSILINGYCKNKEIEGALSLYGEMLSKGIKPD--VVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFID  363 (400)
Q Consensus       286 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  363 (400)
                      ..|+.+.-+|.-.++++-++..|++....--.|+  ...|-.+.......|++..|.+.|+-.+..+ ..+...++.|.-
T Consensus       359 eLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLav  437 (478)
T KOG1129|consen  359 ELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAV  437 (478)
T ss_pred             HHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHH
Confidence            9999999999999999999999999887533333  4578888888889999999999999988763 346788999998


Q ss_pred             HHHhcCcHHHHHHHHHHHHHhcccchh
Q 040367          364 GLCKNSYIVEAVELFRTLRILKCELDI  390 (400)
Q Consensus       364 ~~~~~g~~~~a~~~~~~~~~~~~~p~~  390 (400)
                      .-.+.|+.+.|..++.....  +.|+.
T Consensus       438 L~~r~G~i~~Arsll~~A~s--~~P~m  462 (478)
T KOG1129|consen  438 LAARSGDILGARSLLNAAKS--VMPDM  462 (478)
T ss_pred             HHhhcCchHHHHHHHHHhhh--hCccc
Confidence            88999999999999999886  34554

>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=99.46  E-value=3.4e-09  Score=92.78  Aligned_cols=281  Identities=12%  Similarity=0.098  Sum_probs=187.8

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-----CChhhHHHHHHHHHhcCCCCChhhH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKM-----GRVSHGFVVLGRILRSCFTPNAVTF   90 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~   90 (400)
                      ...........+.+.|+.++|..++..+...+ |.|..-|..+..+..-.     .+.+...++|+.+...-  |.....
T Consensus        37 k~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~y--p~s~~~  113 (517)
T PF12569_consen   37 KLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKY--PRSDAP  113 (517)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhC--ccccch
Confidence            34556777889999999999999999999986 33555556666665322     25677788999887763  444444


Q ss_pred             HHHHHHHHhcCCHH-HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHH
Q 040367           91 TSLIKGLCAESRIM-EAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFL  169 (400)
Q Consensus        91 ~~l~~~~~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~  169 (400)
                      ..+.-.+.....+. .+...+..+...|+|   .+|..|-..|.......-..+++................+       
T Consensus       114 ~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~-------  183 (517)
T PF12569_consen  114 RRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGD-------  183 (517)
T ss_pred             hHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCcc-------
Confidence            44443344433444 455667777777754   3445555555544333333333333222110000000000       


Q ss_pred             HHHhCCCCCCh--HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC
Q 040367          170 QMKDENINPDV--VTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVR  247 (400)
Q Consensus       170 ~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  247 (400)
                        ....-+|+.  .++..+...|...|++++|++++++.+++. |..+..|..-...+-+.|++.+|.+.++.+......
T Consensus       184 --~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht-Pt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~  260 (517)
T PF12569_consen  184 --DEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT-PTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA  260 (517)
T ss_pred             --ccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh
Confidence              001123444  355667788889999999999999999974 334778888899999999999999999999987533


Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhh--------HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          248 PNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFS--------YSILINGYCKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--------~~~l~~~~~~~~~~~~a~~~~~~~~~  313 (400)
                       |..+-+..+..+.+.|+.++|..++....+.+..|....        ......+|.+.|++..|++.|....+
T Consensus       261 -DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  261 -DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             -hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence             777777788889999999999999999987664332222        24567889999999999887776655

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 [], [].

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=99.45  E-value=3.1e-08  Score=83.55  Aligned_cols=86  Identities=12%  Similarity=0.065  Sum_probs=70.2

Q ss_pred             HHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCC
Q 040367            5 DYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFT   84 (400)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   84 (400)
                      ++-++.+|.  |+.+|+.|++-+..+ .++++.+.++++... .+-....|...+..-...++++....+|.+.+..  .
T Consensus        10 ~~rie~nP~--di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvk--v   83 (656)
T KOG1914|consen   10 RERIEENPY--DIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVK--V   83 (656)
T ss_pred             HHHHhcCCc--cHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--H
Confidence            344566666  999999999987766 999999999999876 3556788999999999999999999999998876  4


Q ss_pred             CChhhHHHHHHH
Q 040367           85 PNAVTFTSLIKG   96 (400)
Q Consensus        85 ~~~~~~~~l~~~   96 (400)
                      .+...|..-++-
T Consensus        84 LnlDLW~lYl~Y   95 (656)
T KOG1914|consen   84 LNLDLWKLYLSY   95 (656)
T ss_pred             hhHhHHHHHHHH
Confidence            466667666653

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

Probab=99.44  E-value=1.1e-08  Score=83.42  Aligned_cols=281  Identities=13%  Similarity=0.023  Sum_probs=205.8

Q ss_pred             cCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCC-----------cccchHHHHHH
Q 040367          100 ESRIMEAAALFTKLRVF-GCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFG-----------VEGFVDKAKEL  167 (400)
Q Consensus       100 ~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----------~~~~~~~a~~~  167 (400)
                      .++...|.+.+-.+... -++.|+.....+..++...|+.+.|+..|++....++..-           ..|+.++...+
T Consensus       209 ~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L  288 (564)
T KOG1174|consen  209 NFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSAL  288 (564)
T ss_pred             hcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHH
Confidence            44444444444333333 2466888899999999999999999999999887765422           26666776666


Q ss_pred             HHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC
Q 040367          168 FLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVR  247 (400)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  247 (400)
                      ...+.... .-+...|-.-+......++++.|+.+-++.++.+ +.+...+..-...+...|+.++|.-.|+...... +
T Consensus       289 ~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p  365 (564)
T KOG1174|consen  289 MDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-P  365 (564)
T ss_pred             HHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc-h
Confidence            66665432 1233445444555667788999999999888764 2344455555567788899999999999887752 3


Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHH-HHHH-hcCCHHHHHHHHHHHHhCCCCCc-hhhHH
Q 040367          248 PNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILI-NGYC-KNKEIEGALSLYGEMLSKGIKPD-VVIYN  324 (400)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~~~~~~a~~~~~~~~~~~~~~~-~~~~~  324 (400)
                      -+...|.-|+..|...|++.+|...-+...+.- +.+..+...+. ..+. ....-++|.++++...+.  .|+ ....+
T Consensus       366 ~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~-~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~  442 (564)
T KOG1174|consen  366 YRLEIYRGLFHSYLAQKRFKEANALANWTIRLF-QNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVN  442 (564)
T ss_pred             hhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHh-hcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHH
Confidence            467899999999999999999998887766542 45666666553 3332 334467899998888775  343 33557


Q ss_pred             HHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchh
Q 040367          325 TLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDI  390 (400)
Q Consensus       325 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  390 (400)
                      .+...+...|..+.++.++++....  .||....+.|.+.+...+.+++|.+.|...+.  +.|+.
T Consensus       443 ~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr--~dP~~  504 (564)
T KOG1174|consen  443 LIAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR--QDPKS  504 (564)
T ss_pred             HHHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCccc
Confidence            7788899999999999999998874  78999999999999999999999999999886  34543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.43  E-value=8.1e-09  Score=90.49  Aligned_cols=366  Identities=14%  Similarity=0.073  Sum_probs=256.7

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLI   94 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (400)
                      -++..|..+.-++...|++..+.+.|++....- .-..+.|..+...+...|.-..|..+++........|+..+-..++
T Consensus       321 nd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lma  399 (799)
T KOG4162|consen  321 NDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMA  399 (799)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHH
Confidence            477889999999999999999999999987653 3367789999999999999999999998877654334433333333


Q ss_pred             -HHHH-hcCCHHHHHHHHHHHHHc--CC--CCCHHHHHHHHHHHHhc-----------CChHHHHHHHHHHHcCCCCCCc
Q 040367           95 -KGLC-AESRIMEAAALFTKLRVF--GC--EPNVFTYNTLINGLYRT-----------GHTIVALNLFEEMASGNGEFGV  157 (400)
Q Consensus        95 -~~~~-~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~  157 (400)
                       ..|. +.+..++++.+-.++...  +.  ......|..+.-+|...           ....++++.+++..+.++....
T Consensus       400 sklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp~  479 (799)
T KOG4162|consen  400 SKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTDPL  479 (799)
T ss_pred             HHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCch
Confidence             3343 456777777777776652  11  22445555555555432           2346778888888776654333


Q ss_pred             -----------ccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCC-------------
Q 040367          158 -----------EGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ-GVQ-------------  212 (400)
Q Consensus       158 -----------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~-------------  212 (400)
                                 .++++.|.+..++..+-+-..+...|..+.-.+...+++.+|+.+.+...+. |..             
T Consensus       480 ~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i~~~  559 (799)
T KOG4162|consen  480 VIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHIELT  559 (799)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhhhhh
Confidence                       7788999999999888765778889999999999999999999999887653 110             


Q ss_pred             -----CCHHHHHHHHHHHHh---------C--------------CChHHHHHHHHHHH--------HcC---------CC
Q 040367          213 -----PNVVTFNVIMDELCK---------N--------------GKMDEASRLLDLMI--------QIG---------VR  247 (400)
Q Consensus       213 -----~~~~~~~~l~~~~~~---------~--------------~~~~~a~~~~~~~~--------~~~---------~~  247 (400)
                           ....|...++..+-.         .              ++..++.+...++.        ..+         ..
T Consensus       560 ~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~  639 (799)
T KOG4162|consen  560 FNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSSTVL  639 (799)
T ss_pred             cccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCccccc
Confidence                 001122222222210         0              01111111111110        001         00


Q ss_pred             --CC------HHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc
Q 040367          248 --PN------AFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPD  319 (400)
Q Consensus       248 --~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  319 (400)
                        |+      ...+......+.+.+..++|...+.+..... +.....|......+...|.+++|.+.|......++. +
T Consensus       640 ~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~-h  717 (799)
T KOG4162|consen  640 PGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDPD-H  717 (799)
T ss_pred             CCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCC-C
Confidence              11      1123345566778888889888888887765 557778888888899999999999999998886432 5


Q ss_pred             hhhHHHHHHHHHhhCcHHHHHH--HHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Q 040367          320 VVIYNTLFVVLFEIHQVERAFK--LFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       320 ~~~~~~l~~~~~~~~~~~~a~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                      +.+..++..++.+.|+...|..  ++..+.+.+ +.+...|..+...+-+.|+.+.|.+.|....+.
T Consensus       718 v~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  718 VPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             cHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            6678899999999999888888  999999875 347999999999999999999999999998764

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

Probab=99.41  E-value=1.4e-08  Score=86.39  Aligned_cols=371  Identities=13%  Similarity=0.068  Sum_probs=194.5

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLC   98 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (400)
                      ..-+=++.+.++|++++|.+...++...+ +.+...+..-+-++++.+++++|+.+.+.-...  ..+...+--=+.+..
T Consensus        14 ~l~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   14 ALLTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEY   90 (652)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHH
Confidence            33444667788888999999988888876 556677777777888888888888555443211  111111111123334


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcc----cchHHHHHHHH-HHHh
Q 040367           99 AESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVE----GFVDKAKELFL-QMKD  173 (400)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~a~~~~~-~~~~  173 (400)
                      +.+..++|+..++...    +.+..+...-...+.+.|++++|+++|+.+.+.+......    +....+-..-- .+..
T Consensus        91 rlnk~Dealk~~~~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~  166 (652)
T KOG2376|consen   91 RLNKLDEALKTLKGLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQS  166 (652)
T ss_pred             HcccHHHHHHHHhccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHh
Confidence            6778888888777222    2344466666777788888888888888886554322110    00000000000 0111


Q ss_pred             CCCCCChHhHHHH---HHHHHhcCCHHHHHHHHHHHHhC-------C-CC-----CCHH-HHHHHHHHHHhCCChHHHHH
Q 040367          174 ENINPDVVTYTSV---IRGFCYANDWNEAKCLLIEMMDQ-------G-VQ-----PNVV-TFNVIMDELCKNGKMDEASR  236 (400)
Q Consensus       174 ~~~~~~~~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~-------~-~~-----~~~~-~~~~l~~~~~~~~~~~~a~~  236 (400)
                      ....| ..+|..+   ...+...|++.+|+++++...+.       + ..     .+.. +-..+.-.+-..|+..+|..
T Consensus       167 v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~  245 (652)
T KOG2376|consen  167 VPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASS  245 (652)
T ss_pred             ccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence            11111 1122222   12233445555555555444110       0 00     0000 11112223334444444444


Q ss_pred             HHHHHHHcCCCC--------------------------------------------------------------------
Q 040367          237 LLDLMIQIGVRP--------------------------------------------------------------------  248 (400)
Q Consensus       237 ~~~~~~~~~~~~--------------------------------------------------------------------  248 (400)
                      ++..+++.....                                                                    
T Consensus       246 iy~~~i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q  325 (652)
T KOG2376|consen  246 IYVDIIKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQ  325 (652)
T ss_pred             HHHHHHHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence            444444332110                                                                    


Q ss_pred             ------------CHHhHHHHHHHHHh--cCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHH-----
Q 040367          249 ------------NAFVYNTLMDGFCL--TGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYG-----  309 (400)
Q Consensus       249 ------------~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-----  309 (400)
                                  ....+..++..+.+  ...+..+..++....+........+.-.+++.....|+++.|.+++.     
T Consensus       326 ~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~  405 (652)
T KOG2376|consen  326 VRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLES  405 (652)
T ss_pred             HHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh
Confidence                        01111222221111  11244555555555444322223455566777788999999999988     


Q ss_pred             ---HHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc--CCCCC----HHHHHHHHHHHHhcCcHHHHHHHHHH
Q 040367          310 ---EMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD--GVAAD----TWTYRTFIDGLCKNSYIVEAVELFRT  380 (400)
Q Consensus       310 ---~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~  380 (400)
                         .+.+.+..  +.+...+...+.+.++-+.|..++.++.+.  .-.+.    ..++..+...-.+.|+-++|..++++
T Consensus       406 ~~ss~~~~~~~--P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~lee  483 (652)
T KOG2376|consen  406 WKSSILEAKHL--PGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEE  483 (652)
T ss_pred             hhhhhhhhccC--hhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHH
Confidence               44444443  344566677777777777777777776542  00111    22334444445677999999999999


Q ss_pred             HHHhcccchhHHHHHHhhcC
Q 040367          381 LRILKCELDIRAYNCLIDGL  400 (400)
Q Consensus       381 ~~~~~~~p~~~~~~~ll~~~  400 (400)
                      +.+.. ++|..+...++.+|
T Consensus       484 l~k~n-~~d~~~l~~lV~a~  502 (652)
T KOG2376|consen  484 LVKFN-PNDTDLLVQLVTAY  502 (652)
T ss_pred             HHHhC-CchHHHHHHHHHHH
Confidence            98754 67777777776553

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.40  E-value=1.3e-09  Score=90.15  Aligned_cols=226  Identities=11%  Similarity=0.012  Sum_probs=159.2

Q ss_pred             cchHHHHHHHHHHHhCC-CCC--ChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHH
Q 040367          159 GFVDKAKELFLQMKDEN-INP--DVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEAS  235 (400)
Q Consensus       159 ~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  235 (400)
                      +..+.++..+.++.... ..|  ....|..+...+...|++++|...|++..+.. +.+...|+.+...+...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            34566777777776532 122  24567788888999999999999999999874 557889999999999999999999


Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040367          236 RLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG  315 (400)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  315 (400)
                      ..|++..+... .+..++..+..++...|++++|...++...+..  |+..........+...+++++|.+.+.+.....
T Consensus       119 ~~~~~Al~l~P-~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~  195 (296)
T PRK11189        119 EAFDSVLELDP-TYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEKL  195 (296)
T ss_pred             HHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC
Confidence            99999998642 246777888889999999999999999998874  333222222233445778999999997766432


Q ss_pred             CCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc---C--CC-CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccch
Q 040367          316 IKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD---G--VA-ADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELD  389 (400)
Q Consensus       316 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~--~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  389 (400)
                       .|+...+ .  ......|+...+ +.++.+.+.   .  .. .....|..+...+.+.|++++|+..|++..+.+ +||
T Consensus       196 -~~~~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~~  269 (296)
T PRK11189        196 -DKEQWGW-N--IVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-VYN  269 (296)
T ss_pred             -CccccHH-H--HHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-Cch
Confidence             2232222 2  222335555444 344444432   1  11 134678899999999999999999999999754 345


Q ss_pred             hHHHH
Q 040367          390 IRAYN  394 (400)
Q Consensus       390 ~~~~~  394 (400)
                      ...+.
T Consensus       270 ~~e~~  274 (296)
T PRK11189        270 FVEHR  274 (296)
T ss_pred             HHHHH
Confidence            55443

>PF13041 PPR_2: PPR repeat family

Probab=99.40  E-value=9.2e-13  Score=76.46  Aligned_cols=50  Identities=44%  Similarity=0.834  Sum_probs=41.1

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCK   64 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   64 (400)
                      ||+.+||.++.+|++.|++++|.++|++|.+.|++||..+|+.++++|++
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            67788888888888888888888888888888888888888888887763

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

Probab=99.39  E-value=2.2e-09  Score=87.23  Aligned_cols=278  Identities=14%  Similarity=0.040  Sum_probs=151.3

Q ss_pred             ccCChhHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHH
Q 040367           29 KNKHYDTVLSLFKRLNST-GLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAA  107 (400)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  107 (400)
                      -.++...|...+-.+... -++.|++....+..++...|+.++|...|+.....++ -+........-.+.+.|+++...
T Consensus       208 ~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dp-y~i~~MD~Ya~LL~~eg~~e~~~  286 (564)
T KOG1174|consen  208 FNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANP-DNVEAMDLYAVLLGQEGGCEQDS  286 (564)
T ss_pred             HhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCCh-hhhhhHHHHHHHHHhccCHhhHH
Confidence            344444554444433222 2455667777777777777777777777777665421 12222222233344566676666


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc-----------ccchHHHHHHHHHHHhCCC
Q 040367          108 ALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV-----------EGFVDKAKELFLQMKDENI  176 (400)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~~a~~~~~~~~~~~~  176 (400)
                      .+...+.... .-+...|..-+.......++..|+.+-++.+..++....           .++.++|.-.|+...... 
T Consensus       287 ~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-  364 (564)
T KOG1174|consen  287 ALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-  364 (564)
T ss_pred             HHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcc-
Confidence            6666655432 233444444455555666677777777766554332111           334444444444444332 


Q ss_pred             CCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHH-HhCCChHHHHHHHHHHHHcCCCCC-HHhH
Q 040367          177 NPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIM-DEL-CKNGKMDEASRLLDLMIQIGVRPN-AFVY  253 (400)
Q Consensus       177 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~-~~~~~~~~a~~~~~~~~~~~~~~~-~~~~  253 (400)
                      |-+..+|..|+.+|...|.+.+|...-+...+. .+.+..+...+. ..+ ....--++|.+++++.+..  .|+ ....
T Consensus       365 p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV  441 (564)
T KOG1174|consen  365 PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAV  441 (564)
T ss_pred             hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHH
Confidence            345566666666666666666666655554433 233444444331 122 2223345566666665553  232 2334


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          254 NTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       254 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      +.+...+...|..+.++.+++.....  .||....+.|.+.+...+.+++|++.|..+.+.
T Consensus       442 ~~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  442 NLIAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQ  500 (564)
T ss_pred             HHHHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            45555666666666666666666554  456666666666666666666666666666654

>PF13041 PPR_2: PPR repeat family

Probab=99.39  E-value=9e-13  Score=76.51  Aligned_cols=47  Identities=38%  Similarity=0.638  Sum_probs=24.3

Q ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHHHHhhc
Q 040367          353 ADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDG  399 (400)
Q Consensus       353 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~  399 (400)
                      ||..+|+.++.+|++.|++++|.++|++|.+.|+.||..||+.||++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~   47 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILING   47 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            44455555555555555555555555555555555555555555544

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

Probab=99.38  E-value=4.4e-08  Score=84.38  Aligned_cols=344  Identities=15%  Similarity=0.102  Sum_probs=179.7

Q ss_pred             HhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHH
Q 040367           27 LAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEA  106 (400)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  106 (400)
                      +..-|+-++|........+..+ -+..+|..+.-.+-..+++++|+..|..+...+ +.|...+.-+.-.-++.++++..
T Consensus        51 L~~lg~~~ea~~~vr~glr~d~-~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~  128 (700)
T KOG1156|consen   51 LNCLGKKEEAYELVRLGLRNDL-KSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGY  128 (700)
T ss_pred             hhcccchHHHHHHHHHHhccCc-ccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhH
Confidence            4445555666665555554332 245555555555555566666666666665553 33444555444444555555555


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc-------------------ccchHHHHHH
Q 040367          107 AALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV-------------------EGFVDKAKEL  167 (400)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------------------~~~~~~a~~~  167 (400)
                      ......+.+.. +.....|..+..++.-.|+...|..+++...+.......                   .|..+.|.+.
T Consensus       129 ~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~  207 (700)
T KOG1156|consen  129 LETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEH  207 (700)
T ss_pred             HHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHH
Confidence            54444444331 223444555555666666666666666665544321111                   3333333333


Q ss_pred             HHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH-HHHHHhCCChHH-------------
Q 040367          168 FLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVI-MDELCKNGKMDE-------------  233 (400)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~-------------  233 (400)
                      +...... +-.....-..-...+.+.++.++|..++..++...  ||..-|... ..++.+-.+.-+             
T Consensus       208 L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y  284 (700)
T KOG1156|consen  208 LLDNEKQ-IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKY  284 (700)
T ss_pred             HHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcC
Confidence            3332211 00011112223345556666666666666666542  444433332 223322212122             


Q ss_pred             ----------------------HHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh--------cC---
Q 040367          234 ----------------------ASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMES--------MG---  280 (400)
Q Consensus       234 ----------------------a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------~~---  280 (400)
                                            ...++....+.|++   .++..+...|-.-...+    +++++..        .+   
T Consensus       285 ~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p---~vf~dl~SLyk~p~k~~----~le~Lvt~y~~~L~~~~~f~  357 (700)
T KOG1156|consen  285 PRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVP---SVFKDLRSLYKDPEKVA----FLEKLVTSYQHSLSGTGMFN  357 (700)
T ss_pred             cccccchhccHHHhCcchhHHHHHHHHHHHhhcCCC---chhhhhHHHHhchhHhH----HHHHHHHHHHhhcccccCCC
Confidence                                  22233333333332   22333333332211111    2222211        00   


Q ss_pred             -------CCCChhhH--HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-hhhHHHHHHHHHhhCcHHHHHHHHHHHHHcC
Q 040367          281 -------CTHTVFSY--SILINGYCKNKEIEGALSLYGEMLSKGIKPD-VVIYNTLFVVLFEIHQVERAFKLFDEMQRDG  350 (400)
Q Consensus       281 -------~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  350 (400)
                             -+|....|  ..+++.+-..|+++.|..+++.++.+  .|+ ...|..-.+.+...|++++|..++++..+..
T Consensus       358 ~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD  435 (700)
T KOG1156|consen  358 FLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD  435 (700)
T ss_pred             cccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc
Confidence                   14444444  45677788899999999999999886  333 3345555677888999999999999988763


Q ss_pred             CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcc
Q 040367          351 VAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKC  386 (400)
Q Consensus       351 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  386 (400)
                       .+|...=..-+.-..++++.++|.++.....+.|.
T Consensus       436 -~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  436 -TADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             -chhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence             34554444556666788889999988888877664

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

Probab=99.37  E-value=3.6e-09  Score=79.37  Aligned_cols=210  Identities=15%  Similarity=0.037  Sum_probs=173.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHH
Q 040367          182 TYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFC  261 (400)
Q Consensus       182 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  261 (400)
                      +...+.-.|...|+...|..-+++.++++ +.+..++..+...|-+.|+.+.|.+.|++..+.. +-+..+.|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            45567778999999999999999999975 5567789999999999999999999999999874 336778889999999


Q ss_pred             hcCCHHHHHHHHHHHHhcCC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHH
Q 040367          262 LTGRVNRAKELFVSMESMGC-THTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAF  340 (400)
Q Consensus       262 ~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  340 (400)
                      ..|++++|...|++...... ..-..+|..+.-+..+.|+.+.|.+.|++.++.... ...+...+.......|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHH
Confidence            99999999999999887422 224567889999999999999999999999998533 4566778888889999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHHHHh
Q 040367          341 KLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLI  397 (400)
Q Consensus       341 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll  397 (400)
                      ..++.....+. ++..+....|+.--..|+-+.+-++=..+..  .-|....+..++
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r--~fP~s~e~q~f~  247 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR--LFPYSEEYQTFL  247 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCCcHHHHhHh
Confidence            99999988755 7888888888888889999888776666654  356666665543

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

Probab=99.36  E-value=3.8e-08  Score=84.62  Aligned_cols=310  Identities=8%  Similarity=-0.046  Sum_probs=171.7

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCC-CCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 040367           52 LYTYNILINCFCKMGRVSHGFVVLGRILRSCF-TPNA-VTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLI  129 (400)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  129 (400)
                      ...|..+...+...|+.+.+...+....+... .++. .........+...|++++|.+.+++..+.. |.+...+.. .
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~   83 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-H   83 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-h
Confidence            34455555666666666666555555544321 1121 112222334556777888888877777653 334434332 2


Q ss_pred             HHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          130 NGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ  209 (400)
Q Consensus       130 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  209 (400)
                      ..+...|+...+                   ...+.+.++. .....+........+...+...|++++|...+++..+.
T Consensus        84 ~~~~~~~~~~~~-------------------~~~~~~~l~~-~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~  143 (355)
T cd05804          84 LGAFGLGDFSGM-------------------RDHVARVLPL-WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALEL  143 (355)
T ss_pred             HHHHHhcccccC-------------------chhHHHHHhc-cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            233333322111                   2222222222 11112233344455666788889999999999998886


Q ss_pred             CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC-CCH--HhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCCh
Q 040367          210 GVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVR-PNA--FVYNTLMDGFCLTGRVNRAKELFVSMESMGC-THTV  285 (400)
Q Consensus       210 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~  285 (400)
                      . +.+...+..+...+...|++++|...+++....... ++.  ..+..+...+...|++++|..++++...... .+..
T Consensus       144 ~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~  222 (355)
T cd05804         144 N-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPA  222 (355)
T ss_pred             C-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChH
Confidence            4 445667777888888899999999998888775321 222  2345677788888999999999988764321 1111


Q ss_pred             hhH-H--HHHHHHHhcCCHHHHHHH--HHHHHhCCCC--CchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCC------
Q 040367          286 FSY-S--ILINGYCKNKEIEGALSL--YGEMLSKGIK--PDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVA------  352 (400)
Q Consensus       286 ~~~-~--~l~~~~~~~~~~~~a~~~--~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------  352 (400)
                      ... +  .++.-+...|....+.++  +........+  ...........++...|+.+.|..+++.+......      
T Consensus       223 ~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~  302 (355)
T cd05804         223 LDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQ  302 (355)
T ss_pred             HHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhh
Confidence            111 1  222233334433332222  1111111111  11122224566777889999999999888753211      


Q ss_pred             --CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Q 040367          353 --ADTWTYRTFIDGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       353 --~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                        ...........++...|++++|.+.+...+..
T Consensus       303 ~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         303 PARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             hHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence              01222223334566889999999999888754

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

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.36  E-value=4.9e-09  Score=86.77  Aligned_cols=227  Identities=11%  Similarity=-0.047  Sum_probs=144.3

Q ss_pred             CCHHHHHHHHHHHHHcC-CCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCC
Q 040367          101 SRIMEAAALFTKLRVFG-CEP--NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENIN  177 (400)
Q Consensus       101 ~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  177 (400)
                      +..+.++.-+.++.... ..|  ....|..+...+...|+.+.|...|++..                       +.. |
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al-----------------------~l~-P   95 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQAL-----------------------ALR-P   95 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHH-----------------------HcC-C
Confidence            45566666676666532 122  24557777778888888665555554443                       332 4


Q ss_pred             CChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 040367          178 PDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLM  257 (400)
Q Consensus       178 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  257 (400)
                      .+...|+.+...+...|++++|...|++..+.. +.+..++..+..++...|++++|.+.+++..+..  |+........
T Consensus        96 ~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~  172 (296)
T PRK11189         96 DMADAYNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWL  172 (296)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHH
Confidence            467788888889999999999999999988764 3356677778888888899999999999988763  3322122222


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCC---CchhhHHHHHHHHH
Q 040367          258 DGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK---GIK---PDVVIYNTLFVVLF  331 (400)
Q Consensus       258 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~---~~~~~~~~l~~~~~  331 (400)
                      ......+++++|...+.+..... .++...+ .+  .....|+...+ +.+..+.+.   .+.   .....|..+...+.
T Consensus       173 ~l~~~~~~~~~A~~~l~~~~~~~-~~~~~~~-~~--~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~  247 (296)
T PRK11189        173 YLAESKLDPKQAKENLKQRYEKL-DKEQWGW-NI--VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYL  247 (296)
T ss_pred             HHHHccCCHHHHHHHHHHHHhhC-CccccHH-HH--HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHH
Confidence            23445678899999887655432 2332222 22  22334555443 244444321   111   12357888888899


Q ss_pred             hhCcHHHHHHHHHHHHHcCCCCCHHHHHH
Q 040367          332 EIHQVERAFKLFDEMQRDGVAADTWTYRT  360 (400)
Q Consensus       332 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  360 (400)
                      ..|++++|+..|++..+.. +|+..-+..
T Consensus       248 ~~g~~~~A~~~~~~Al~~~-~~~~~e~~~  275 (296)
T PRK11189        248 SLGDLDEAAALFKLALANN-VYNFVEHRY  275 (296)
T ss_pred             HCCCHHHHHHHHHHHHHhC-CchHHHHHH
Confidence            9999999999999998763 335444443

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

Probab=99.36  E-value=4.5e-09  Score=78.82  Aligned_cols=200  Identities=13%  Similarity=-0.013  Sum_probs=119.3

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 040367           54 TYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLY  133 (400)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  133 (400)
                      +...+.-.|...|+...|..-+++.++.+ +.+..+|..+...|.+.|+.+.|.+.|++..... +-+..+.|.....++
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            34455556666777777777777776664 2345566666666667777777777777666553 345566666666666


Q ss_pred             hcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 040367          134 RTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQP  213 (400)
Q Consensus       134 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  213 (400)
                      ..|++++|...|++.....                      ...-...+|..+.-+..+.|+++.|...|++.++.+ +-
T Consensus       115 ~qg~~~eA~q~F~~Al~~P----------------------~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~  171 (250)
T COG3063         115 AQGRPEEAMQQFERALADP----------------------AYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQ  171 (250)
T ss_pred             hCCChHHHHHHHHHHHhCC----------------------CCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cC
Confidence            6666555555555543321                      112223456666666666677777777776666653 22


Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 040367          214 NVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESM  279 (400)
Q Consensus       214 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  279 (400)
                      ...+...+.....+.|++-.|...++.....+. ++..+....|..-...|+.+.+-+.=.++.+.
T Consensus       172 ~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         172 FPPALLELARLHYKAGDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL  236 (250)
T ss_pred             CChHHHHHHHHHHhcccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            334455556666666666666666666665543 56666666666666666666665555555443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.35  E-value=1.3e-08  Score=85.63  Aligned_cols=358  Identities=13%  Similarity=0.070  Sum_probs=220.1

Q ss_pred             HHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCH
Q 040367           25 GCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPN-AVTFTSLIKGLCAESRI  103 (400)
Q Consensus        25 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~  103 (400)
                      .+.+..|+++.|+..|.+..... ++|...|..-..+|...|++++|++=-.+..+.  .|+ ...|.-...++.-.|++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcccH
Confidence            45677888999999998888775 557778888888888889888888776666655  344 44677788888888899


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh------------------------HHHHH-HHHHHHcCCCCCCcc
Q 040367          104 MEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHT------------------------IVALN-LFEEMASGNGEFGVE  158 (400)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~------------------------~~a~~-~~~~~~~~~~~~~~~  158 (400)
                      ++|+.-|.+-++.. +.+...+..+..++......                        +.+.. +++.+..........
T Consensus        87 ~eA~~ay~~GL~~d-~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~  165 (539)
T KOG0548|consen   87 EEAILAYSEGLEKD-PSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLY  165 (539)
T ss_pred             HHHHHHHHHHhhcC-CchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcc
Confidence            99988888877663 33555666666655211000                        00000 011110000000000


Q ss_pred             cchHHHHHHHHHHHh---------------CCCCC----------------------ChHhHHHHHHHHHhcCCHHHHHH
Q 040367          159 GFVDKAKELFLQMKD---------------ENINP----------------------DVVTYTSVIRGFCYANDWNEAKC  201 (400)
Q Consensus       159 ~~~~~a~~~~~~~~~---------------~~~~~----------------------~~~~~~~l~~~~~~~~~~~~a~~  201 (400)
                      ...+...+..-.+..               .+..|                      -..-...+.++..+..+++.|++
T Consensus       166 l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q  245 (539)
T KOG0548|consen  166 LNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQ  245 (539)
T ss_pred             cccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHH
Confidence            000111000000000               00000                      01224556677777888888888


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhH-------HHHHHHHHhcCCHHHHHHHHH
Q 040367          202 LLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVY-------NTLMDGFCLTGRVNRAKELFV  274 (400)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------~~l~~~~~~~~~~~~a~~~~~  274 (400)
                      .+....+..  -+..-++....+|...|.+.++...-....+.|.. ...-|       ..+..+|.+.++++.++..|.
T Consensus       246 ~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~  322 (539)
T KOG0548|consen  246 HYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYYQ  322 (539)
T ss_pred             HHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHH
Confidence            888887764  34555566666777888877777776666665432 22222       223446666777888888777


Q ss_pred             HHHhcCCCCChhh-------------------------HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHH
Q 040367          275 SMESMGCTHTVFS-------------------------YSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVV  329 (400)
Q Consensus       275 ~~~~~~~~~~~~~-------------------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  329 (400)
                      +.......|+...                         ...=...+.+.|++..|+..|.+++... +.|...|....-+
T Consensus       323 kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac  401 (539)
T KOG0548|consen  323 KALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAAC  401 (539)
T ss_pred             HHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHH
Confidence            7654332332211                         1112455667889999999999988876 4478888888889


Q ss_pred             HHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHH
Q 040367          330 LFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAY  393 (400)
Q Consensus       330 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  393 (400)
                      |.+.|.+..|+.=.+..++. -++....|..=..++....++++|.+.|.+.++.  .|+..-+
T Consensus       402 ~~kL~~~~~aL~Da~~~ieL-~p~~~kgy~RKg~al~~mk~ydkAleay~eale~--dp~~~e~  462 (539)
T KOG0548|consen  402 YLKLGEYPEALKDAKKCIEL-DPNFIKAYLRKGAALRAMKEYDKALEAYQEALEL--DPSNAEA  462 (539)
T ss_pred             HHHHhhHHHHHHHHHHHHhc-CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CchhHHH
Confidence            99999999998888887776 2223445555555666777888888888888874  4555433

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

Probab=99.34  E-value=1.6e-07  Score=81.05  Aligned_cols=150  Identities=10%  Similarity=0.051  Sum_probs=104.0

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHhc-CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 040367           54 TYNILINCFCKMGRVSHGFVVLGRILRS-CFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGL  132 (400)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  132 (400)
                      .|...++.+...|+.......|++.+.. .+.....+|...+......+-++.+..+|++.++.    ++..-+-.+..+
T Consensus       104 Iwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L  179 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYL  179 (835)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHH
Confidence            4555556666778888888888877664 22334557888888888888888999999998854    455577788888


Q ss_pred             HhcCChHHHHHHHHHHHcCCCCCCcccch-----HH----------------HHHHHHHHHhCCCCCC--hHhHHHHHHH
Q 040367          133 YRTGHTIVALNLFEEMASGNGEFGVEGFV-----DK----------------AKELFLQMKDENINPD--VVTYTSVIRG  189 (400)
Q Consensus       133 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~~----------------a~~~~~~~~~~~~~~~--~~~~~~l~~~  189 (400)
                      .+.++.++|.+.+..+...+...+..|..     .+                ...+++.+...  -+|  ...|.+|.+.
T Consensus       180 ~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAdY  257 (835)
T KOG2047|consen  180 AKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLADY  257 (835)
T ss_pred             HhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHHH
Confidence            99999999999999888766544442221     11                11222222221  122  3468899999


Q ss_pred             HHhcCCHHHHHHHHHHHHhC
Q 040367          190 FCYANDWNEAKCLLIEMMDQ  209 (400)
Q Consensus       190 ~~~~~~~~~a~~~~~~~~~~  209 (400)
                      |.+.|.+++|..+|++.+..
T Consensus       258 YIr~g~~ekarDvyeeai~~  277 (835)
T KOG2047|consen  258 YIRSGLFEKARDVYEEAIQT  277 (835)
T ss_pred             HHHhhhhHHHHHHHHHHHHh
Confidence            99999999999999887754

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.33  E-value=2e-09  Score=83.79  Aligned_cols=292  Identities=11%  Similarity=0.084  Sum_probs=169.7

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHH-HHHHH
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTS-LIKGL   97 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~   97 (400)
                      -+..++..+.+..++..|++++..-.++. +.+......+..+|....++..|-+.|+++...  .|...-|.. -.+.+
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSL   88 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSL   88 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHH
Confidence            36777777788888888888888877764 336777788888888888888888888888765  444444432 23556


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH--HHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCC
Q 040367           98 CAESRIMEAAALFTKLRVFGCEPNVFTYNTLIN--GLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDEN  175 (400)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  175 (400)
                      .+.+.+.+|+.+...|.+.   ++...-..-+.  .....+++..+..++++                       ....+
T Consensus        89 Y~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQ-----------------------lp~en  142 (459)
T KOG4340|consen   89 YKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQ-----------------------LPSEN  142 (459)
T ss_pred             HHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHh-----------------------ccCCC
Confidence            6778888888888777642   22211111111  22234454444444443                       33222


Q ss_pred             CCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCC-------
Q 040367          176 INPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRP-------  248 (400)
Q Consensus       176 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-------  248 (400)
                         +..+.+.......+.|+++.|.+-|+...+-+---....|+..+ +..+.|+++.|++...++++.|++.       
T Consensus       143 ---~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIG  218 (459)
T KOG4340|consen  143 ---EADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIG  218 (459)
T ss_pred             ---ccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCcc
Confidence               33344444444556677777777777666543222334455444 4455667777777766666654321       


Q ss_pred             ------CH---------------HhHHHHHHHHHhcCCHHHHHHHHHHHHhc-CCCCChhhHHHHHHHHHhcCCHHHHHH
Q 040367          249 ------NA---------------FVYNTLMDGFCLTGRVNRAKELFVSMESM-GCTHTVFSYSILINGYCKNKEIEGALS  306 (400)
Q Consensus       249 ------~~---------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~  306 (400)
                            |.               ..+|.-...+.+.++++.|.+.+..|... ....|+.|...+.-.- ..+++.+..+
T Consensus       219 m~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~  297 (459)
T KOG4340|consen  219 MTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFE  297 (459)
T ss_pred             ceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHH
Confidence                  10               11222223345667788887777777432 2234566655444322 2344555555


Q ss_pred             HHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHH
Q 040367          307 LYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDE  345 (400)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  345 (400)
                      -++-+...++- ...||..++-.|++..-++.|.+++-+
T Consensus       298 KLqFLL~~nPf-P~ETFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  298 KLQFLLQQNPF-PPETFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HHHHHHhcCCC-ChHHHHHHHHHHhhhHHHhHHHHHHhh
Confidence            55555555443 456777777777787777777777654

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

Probab=99.31  E-value=8.5e-08  Score=82.48  Aligned_cols=307  Identities=10%  Similarity=0.007  Sum_probs=187.3

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCC-CCCH-HHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGL-FPDL-YTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSL   93 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (400)
                      ....|..+...+...|+.+.+...+....+... .++. .........+...|++++|.+.+++..+.. +.+...+.. 
T Consensus         5 ~~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-   82 (355)
T cd05804           5 FALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-   82 (355)
T ss_pred             cHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-
Confidence            566788888888888889888777777655421 1222 223333455678899999999999998874 334444442 


Q ss_pred             HHHHH----hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHH
Q 040367           94 IKGLC----AESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFL  169 (400)
Q Consensus        94 ~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~  169 (400)
                      ...+.    ..+....+.+.++... ...+........+...+...|++++|...+++..                    
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al--------------------  141 (355)
T cd05804          83 HLGAFGLGDFSGMRDHVARVLPLWA-PENPDYWYLLGMLAFGLEEAGQYDRAEEAARRAL--------------------  141 (355)
T ss_pred             hHHHHHhcccccCchhHHHHHhccC-cCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH--------------------
Confidence            22222    2455555555555411 1112234455567778889999666666655554                    


Q ss_pred             HHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCH--HHHHHHHHHHHhCCChHHHHHHHHHHHHcCC
Q 040367          170 QMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGV-QPNV--VTFNVIMDELCKNGKMDEASRLLDLMIQIGV  246 (400)
Q Consensus       170 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  246 (400)
                         +.. +.+...+..+..++...|++++|...+++...... .++.  ..|..+...+...|++++|..++++......
T Consensus       142 ---~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~  217 (355)
T cd05804         142 ---ELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSA  217 (355)
T ss_pred             ---hhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhcccc
Confidence               332 44567788899999999999999999999887532 1232  3455778889999999999999999865432


Q ss_pred             -CCCHHhH-H--HHHHHHHhcCCHHHHHHH--H-HHHHhc-CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 040367          247 -RPNAFVY-N--TLMDGFCLTGRVNRAKEL--F-VSMESM-GCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKP  318 (400)
Q Consensus       247 -~~~~~~~-~--~l~~~~~~~~~~~~a~~~--~-~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  318 (400)
                       .+..... +  .++.-+...|....+.+.  + ...... ..............++...|+.+.|...+..+......+
T Consensus       218 ~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~  297 (355)
T cd05804         218 ESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSA  297 (355)
T ss_pred             CCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcc
Confidence             1122111 1  223333344433333322  1 111111 001111222356667788999999999998887632110


Q ss_pred             --c------hhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          319 --D------VVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       319 --~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                        .      .........++...|++++|.+.+......
T Consensus       298 ~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         298 DDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             CchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence              1      111122234456899999999999988754

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.

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

Probab=99.28  E-value=1.3e-07  Score=80.68  Aligned_cols=363  Identities=15%  Similarity=0.132  Sum_probs=217.0

Q ss_pred             HHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCC
Q 040367            5 DYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFT   84 (400)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   84 (400)
                      +.++..+|.  +..++..-+.++.+.+.+++|+.+.+.-...  ..+...+..-..+..+.+..++|+..++-..    +
T Consensus        36 ~Kil~~~pd--d~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~Dealk~~~~~~----~  107 (652)
T KOG2376|consen   36 NKILSIVPD--DEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKLDEALKTLKGLD----R  107 (652)
T ss_pred             HHHHhcCCC--cHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccHHHHHHHHhccc----c
Confidence            445555544  7778888888999999999999766543321  1111111223344557889999998888322    2


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC---------------------------CHHHHH---HHHHHHHh
Q 040367           85 PNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEP---------------------------NVFTYN---TLINGLYR  134 (400)
Q Consensus        85 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------------------------~~~~~~---~l~~~~~~  134 (400)
                      .+..+...-.+.+.+.+++++|.++|+.+.+.+.+.                           ...+|.   ...-.++.
T Consensus       108 ~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~syel~yN~Ac~~i~  187 (652)
T KOG2376|consen  108 LDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSYELLYNTACILIE  187 (652)
T ss_pred             cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchHHHHHHHHHHHHh
Confidence            244466667788889999999999998885443110                           011222   23345667


Q ss_pred             cCChHHHHHHHHHHHcCC------CCCC--------------------cccchHHHHHHHHHHHhCCCCCChHhH----H
Q 040367          135 TGHTIVALNLFEEMASGN------GEFG--------------------VEGFVDKAKELFLQMKDENINPDVVTY----T  184 (400)
Q Consensus       135 ~~~~~~a~~~~~~~~~~~------~~~~--------------------~~~~~~~a~~~~~~~~~~~~~~~~~~~----~  184 (400)
                      .|++.+|+++++.....+      .+..                    ..|+.++|..++...++.+ ++|....    |
T Consensus       188 ~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~-~~D~~~~Av~~N  266 (652)
T KOG2376|consen  188 NGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRN-PADEPSLAVAVN  266 (652)
T ss_pred             cccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CCCchHHHHHhc
Confidence            899999999998883211      1111                    1888899999888888775 3443221    2


Q ss_pred             HHHHHHHhcCCH-H-------------HHHHHHHHHHhC---------------------------CCCCC--HHHHHHH
Q 040367          185 SVIRGFCYANDW-N-------------EAKCLLIEMMDQ---------------------------GVQPN--VVTFNVI  221 (400)
Q Consensus       185 ~l~~~~~~~~~~-~-------------~a~~~~~~~~~~---------------------------~~~~~--~~~~~~l  221 (400)
                      .++. .....++ +             -+......+...                           ..++.  .+.+..+
T Consensus       267 NLva-~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~~a~lp~~~p~~~~~~l  345 (652)
T KOG2376|consen  267 NLVA-LSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRELSASLPGMSPESLFPIL  345 (652)
T ss_pred             chhh-hccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhCCccCchHHHHHH
Confidence            2221 1111110 0             000000000000                           01111  1233333


Q ss_pred             HHHHHh--CCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHH--------HHHhcCCCCChhhHHHH
Q 040367          222 MDELCK--NGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFV--------SMESMGCTHTVFSYSIL  291 (400)
Q Consensus       222 ~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~~~~~l  291 (400)
                      +..+.+  ...+..+..++...-+....-...+.-.++......|+++.|.+++.        .+.+.+.  .+.+...+
T Consensus       346 l~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~--~P~~V~ai  423 (652)
T KOG2376|consen  346 LQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKH--LPGTVGAI  423 (652)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhcc--ChhHHHHH
Confidence            333322  12456666666666554333234556667778889999999999999        5555543  44556677


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC------CCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 040367          292 INGYCKNKEIEGALSLYGEMLSK------GIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGL  365 (400)
Q Consensus       292 ~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  365 (400)
                      ...+.+.++-+.|..++.+.+..      +-..-..++..+...-.+.|+.++|..+++++.+. .++|..+...++.+|
T Consensus       424 v~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~-n~~d~~~l~~lV~a~  502 (652)
T KOG2376|consen  424 VALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKF-NPNDTDLLVQLVTAY  502 (652)
T ss_pred             HHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHh-CCchHHHHHHHHHHH
Confidence            77788888877777777666542      11111223334444455789999999999999986 467899999999998


Q ss_pred             HhcCcHHHHHHHHHHH
Q 040367          366 CKNSYIVEAVELFRTL  381 (400)
Q Consensus       366 ~~~g~~~~a~~~~~~~  381 (400)
                      ++. +.++|..+-+.+
T Consensus       503 ~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  503 ARL-DPEKAESLSKKL  517 (652)
T ss_pred             Hhc-CHHHHHHHhhcC
Confidence            765 566677665554

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.24  E-value=4.5e-07  Score=72.46  Aligned_cols=190  Identities=9%  Similarity=0.023  Sum_probs=85.9

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHH
Q 040367          189 GFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNR  268 (400)
Q Consensus       189 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  268 (400)
                      .+.-.|+...|+.....+++.. +.|...+..-..+|...|++..|+.=++...+.. ..+...+..+-..+...|+.+.
T Consensus       164 s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~  241 (504)
T KOG0624|consen  164 SASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAEN  241 (504)
T ss_pred             HHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHH
Confidence            3344555555555555555432 3344455555555555555555555554444432 2233334444444555555555


Q ss_pred             HHHHHHHHHhcCCCCChhh-HH---H---H------HHHHHhcCCHHHHHHHHHHHHhCCCCCchhhH---HHHHHHHHh
Q 040367          269 AKELFVSMESMGCTHTVFS-YS---I---L------INGYCKNKEIEGALSLYGEMLSKGIKPDVVIY---NTLFVVLFE  332 (400)
Q Consensus       269 a~~~~~~~~~~~~~~~~~~-~~---~---l------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~  332 (400)
                      ++...++-.+.+  |+... |.   .   +      +......++|.++.+-.+...+.........+   ..+-.++..
T Consensus       242 sL~~iRECLKld--pdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~  319 (504)
T KOG0624|consen  242 SLKEIRECLKLD--PDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYRE  319 (504)
T ss_pred             HHHHHHHHHccC--cchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccc
Confidence            555554444432  22211 10   0   0      11122334444455444444443222111112   223334445


Q ss_pred             hCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          333 IHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       333 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      .|++.+|++...+.++. .+.|..++.--..+|.-...++.|+.-|+...+
T Consensus       320 d~~~~eAiqqC~evL~~-d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  320 DEQFGEAIQQCKEVLDI-DPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALE  369 (504)
T ss_pred             cCCHHHHHHHHHHHHhc-CchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh
Confidence            55555665555555543 122355555555555555555555555555554

>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=99.23  E-value=2.1e-09  Score=87.65  Aligned_cols=149  Identities=19%  Similarity=0.147  Sum_probs=64.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHh----cC
Q 040367          189 GFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCL----TG  264 (400)
Q Consensus       189 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~  264 (400)
                      ++...|++++|++++...      .+.......+.++.+.++++.|.+.++.|.+.  ..| .+...+..++..    .+
T Consensus       111 i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD-~~l~qLa~awv~l~~g~e  181 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DED-SILTQLAEAWVNLATGGE  181 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCC-HHHHHHHHHHHHHHHTTT
T ss_pred             HHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc-HHHHHHHHHHHHHHhCch
Confidence            344445555555544321      23344444455555555555555555555442  112 222223333222    12


Q ss_pred             CHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcH-HHHHHHH
Q 040367          265 RVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQV-ERAFKLF  343 (400)
Q Consensus       265 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~  343 (400)
                      .+.+|..+|+++.+. .++++.+.+.+..++...|++++|.+++.+..+.+.. ++.+...++.+....|+. +.+.+++
T Consensus       182 ~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~-~~d~LaNliv~~~~~gk~~~~~~~~l  259 (290)
T PF04733_consen  182 KYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN-DPDTLANLIVCSLHLGKPTEAAERYL  259 (290)
T ss_dssp             CCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-HHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-CHHHHHHHHHHHHHhCCChhHHHHHH
Confidence            355555555554433 1344445555555555555555555555555443322 344444444444444444 3444444


Q ss_pred             HHHHH
Q 040367          344 DEMQR  348 (400)
Q Consensus       344 ~~~~~  348 (400)
                      .++..
T Consensus       260 ~qL~~  264 (290)
T PF04733_consen  260 SQLKQ  264 (290)
T ss_dssp             HHCHH
T ss_pred             HHHHH
Confidence            44443

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.

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

Probab=99.22  E-value=6.7e-07  Score=77.37  Aligned_cols=352  Identities=14%  Similarity=0.127  Sum_probs=235.0

Q ss_pred             hhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 040367           17 VCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKG   96 (400)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   96 (400)
                      ...|..++..| ..+++...+.+.+.+.+. .+....+.....-.+...|+.++|....+...+.++ .+...|+.+.-.
T Consensus         8 ~~lF~~~lk~y-E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~-~S~vCwHv~gl~   84 (700)
T KOG1156|consen    8 NALFRRALKCY-ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDL-KSHVCWHVLGLL   84 (700)
T ss_pred             HHHHHHHHHHH-HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCc-ccchhHHHHHHH
Confidence            33455555544 568899999988888874 344566666666667788999999999999888764 478899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc-----------ccchHHHH
Q 040367           97 LCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV-----------EGFVDKAK  165 (400)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~~a~  165 (400)
                      +....++++|++.|......+ +.|...|.-+.-.-++.|+++.....-..+.+..+....           .|....|.
T Consensus        85 ~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~  163 (700)
T KOG1156|consen   85 QRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMAL  163 (700)
T ss_pred             HhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999886 667888888888888888888777776666655443322           67788888


Q ss_pred             HHHHHHHhCC-CCCChHhHHHHH------HHHHhcCCHHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHhCCChHHHHHH
Q 040367          166 ELFLQMKDEN-INPDVVTYTSVI------RGFCYANDWNEAKCLLIEMMDQGVQPNVVT-FNVIMDELCKNGKMDEASRL  237 (400)
Q Consensus       166 ~~~~~~~~~~-~~~~~~~~~~l~------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~  237 (400)
                      .+++...+.. -.|+...+.-..      ......|..+.|.+.+..-... + .|... -..-...+.+.+++++|..+
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~~~  241 (700)
T KOG1156|consen  164 EILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-I-VDKLAFEETKADLLMKLGQLEEAVKV  241 (700)
T ss_pred             HHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-H-HHHHHHhhhHHHHHHHHhhHHhHHHH
Confidence            8888887654 245555544332      2345678888888877665443 1 22222 23445677889999999999


Q ss_pred             HHHHHHcCCCCCHHhHHH-HHHHHHhcCCHHHHH-HHHHHHHhc----------------------------------CC
Q 040367          238 LDLMIQIGVRPNAFVYNT-LMDGFCLTGRVNRAK-ELFVSMESM----------------------------------GC  281 (400)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~-~~~~~~~~~----------------------------------~~  281 (400)
                      +..++..  .||..-|.. +..++.+-.+..++. .+|....+.                                  |+
T Consensus       242 y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~  319 (700)
T KOG1156|consen  242 YRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGV  319 (700)
T ss_pred             HHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCC
Confidence            9999986  355554444 444443233333333 555544322                                  21


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHH----h----CC----------CCCchhhHH--HHHHHHHhhCcHHHHHH
Q 040367          282 THTVFSYSILINGYCKNKEIEGALSLYGEML----S----KG----------IKPDVVIYN--TLFVVLFEIHQVERAFK  341 (400)
Q Consensus       282 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~----~~----------~~~~~~~~~--~l~~~~~~~~~~~~a~~  341 (400)
                      ++   ++..+...|-.   +.++- +++++.    .    .|          -+|....|.  .++..+-..|+++.|..
T Consensus       320 p~---vf~dl~SLyk~---p~k~~-~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~  392 (700)
T KOG1156|consen  320 PS---VFKDLRSLYKD---PEKVA-FLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALE  392 (700)
T ss_pred             Cc---hhhhhHHHHhc---hhHhH-HHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHH
Confidence            11   12222222221   11111 222222    1    11          145555454  45677889999999999


Q ss_pred             HHHHHHHcCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHHhc
Q 040367          342 LFDEMQRDGVAAD-TWTYRTFIDGLCKNSYIVEAVELFRTLRILK  385 (400)
Q Consensus       342 ~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  385 (400)
                      +++.++..  .|+ ...|..-.+.+.+.|++++|..++++..+..
T Consensus       393 yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD  435 (700)
T KOG1156|consen  393 YIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD  435 (700)
T ss_pred             HHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc
Confidence            99999986  555 4556666788999999999999999998643

>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=99.19  E-value=2.6e-09  Score=87.10  Aligned_cols=149  Identities=17%  Similarity=0.171  Sum_probs=78.2

Q ss_pred             HHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cC
Q 040367          224 ELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCK----NK  299 (400)
Q Consensus       224 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~  299 (400)
                      .+...|++++|++++...      .+.......+.+|.+.++++.|.+.++.|.+.+  .| .+...+..++..    ..
T Consensus       111 i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~e  181 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGGE  181 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTTT
T ss_pred             HHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCch
Confidence            444556666666665432      244455555666666666666666666666542  22 223333333332    22


Q ss_pred             CHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcH-HHHHHHH
Q 040367          300 EIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYI-VEAVELF  378 (400)
Q Consensus       300 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~  378 (400)
                      .+.+|..+|+++.+. +.+++.+.+.+..++...|++++|.+++++..... +-+..+...++-+....|+. +.+.+.+
T Consensus       182 ~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l  259 (290)
T PF04733_consen  182 KYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYL  259 (290)
T ss_dssp             CCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHH
Confidence            466666666665543 34555666666666666666666666666655432 22455555566555566655 4455555


Q ss_pred             HHHHH
Q 040367          379 RTLRI  383 (400)
Q Consensus       379 ~~~~~  383 (400)
                      .++..
T Consensus       260 ~qL~~  264 (290)
T PF04733_consen  260 SQLKQ  264 (290)
T ss_dssp             HHCHH
T ss_pred             HHHHH
Confidence            55554

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.19  E-value=3.3e-07  Score=71.74  Aligned_cols=153  Identities=14%  Similarity=0.141  Sum_probs=104.9

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHH-HHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNI-LINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLI   94 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (400)
                      +....+.+..+|-...++..|-+.++.+...  .|...-|.. -.+.+.+.+.+..|+++...|...   ++...-..-+
T Consensus        43 ~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqL  117 (459)
T KOG4340|consen   43 SRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQL  117 (459)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHH
Confidence            7888899999999999999999999999876  456555543 356777889999999999888653   2222222222


Q ss_pred             --HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc-----------ccch
Q 040367           95 --KGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV-----------EGFV  161 (400)
Q Consensus        95 --~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~  161 (400)
                        ......+++..+..+.++....   -+..+.+...-...+.|+++.|.+-|+...+.++-.+.           .+++
T Consensus       118 qaAIkYse~Dl~g~rsLveQlp~e---n~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALaHy~~~qy  194 (459)
T KOG4340|consen  118 QAAIKYSEGDLPGSRSLVEQLPSE---NEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHYSSRQY  194 (459)
T ss_pred             HHHHhcccccCcchHHHHHhccCC---CccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHHhhhhH
Confidence              2234678888888888887643   35556666666777889988888888777665432211           4555


Q ss_pred             HHHHHHHHHHHhCCC
Q 040367          162 DKAKELFLQMKDENI  176 (400)
Q Consensus       162 ~~a~~~~~~~~~~~~  176 (400)
                      ..|++...+++.+|+
T Consensus       195 asALk~iSEIieRG~  209 (459)
T KOG4340|consen  195 ASALKHISEIIERGI  209 (459)
T ss_pred             HHHHHHHHHHHHhhh
Confidence            555555555555543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.16  E-value=1.6e-06  Score=76.67  Aligned_cols=347  Identities=12%  Similarity=0.013  Sum_probs=231.3

Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHH
Q 040367           45 STGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEP-NVF  123 (400)
Q Consensus        45 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~  123 (400)
                      ...+..+...|..+.-+....|+++.+.+.|++....-+ -..+.|..+...+...|.-..|..+++.-....-.| +..
T Consensus       316 ~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~-~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s  394 (799)
T KOG4162|consen  316 LKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF-GEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDIS  394 (799)
T ss_pred             HhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh-hhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcch
Confidence            334556888899999999999999999999999886533 367788889999999999999999998776543223 344


Q ss_pred             HHHHHHHHHH-hcCChHHHHHHHHHHHcCCCCC---------------------------CcccchHHHHHHHHHHHhCC
Q 040367          124 TYNTLINGLY-RTGHTIVALNLFEEMASGNGEF---------------------------GVEGFVDKAKELFLQMKDEN  175 (400)
Q Consensus       124 ~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~---------------------------~~~~~~~~a~~~~~~~~~~~  175 (400)
                      .+...-..|. +.+..++++.+-.++.......                           .......++++.+++..+.+
T Consensus       395 ~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d  474 (799)
T KOG4162|consen  395 VLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD  474 (799)
T ss_pred             HHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC
Confidence            4444444444 4467777777777776522100                           00334567788888887765


Q ss_pred             CCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHc-CCC-------
Q 040367          176 INPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQI-GVR-------  247 (400)
Q Consensus       176 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~-------  247 (400)
                       +.|+....-+.--|+..++.+.|.+..++..+.+-..+...|..+.-.+...+++.+|+.+.+..... |..       
T Consensus       475 -~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~  553 (799)
T KOG4162|consen  475 -PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGK  553 (799)
T ss_pred             -CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhh
Confidence             22333333344467888999999999999998866778899999999999999999999998877654 110       


Q ss_pred             -----------CCHHhHHHHHHHHHhc-----------------------CCHHHHHHHHHHHH--------hcC-----
Q 040367          248 -----------PNAFVYNTLMDGFCLT-----------------------GRVNRAKELFVSME--------SMG-----  280 (400)
Q Consensus       248 -----------~~~~~~~~l~~~~~~~-----------------------~~~~~a~~~~~~~~--------~~~-----  280 (400)
                                 ....+...++..+...                       ++..++....+.+.        ..+     
T Consensus       554 ~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~L  633 (799)
T KOG4162|consen  554 IHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKL  633 (799)
T ss_pred             hhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhccccccc
Confidence                       0011222222222200                       11111211111110        000     


Q ss_pred             ----CCC--C------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHH
Q 040367          281 ----CTH--T------VFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       281 ----~~~--~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  348 (400)
                          ..|  +      ...|......+...++.++|...+.++.... +.....|......+...|+..+|.+.|.....
T Consensus       634 p~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~  712 (799)
T KOG4162|consen  634 PSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALA  712 (799)
T ss_pred             CcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh
Confidence                011  1      1234556677788888899988888887653 33556677777888889999999999999887


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCcHHHHHH--HHHHHHHhcccchhHHHHHH
Q 040367          349 DGVAADTWTYRTFIDGLCKNSYIVEAVE--LFRTLRILKCELDIRAYNCL  396 (400)
Q Consensus       349 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~--~~~~~~~~~~~p~~~~~~~l  396 (400)
                      .. +.++....++...+.+.|+..-|..  ++..+.+.+ +.+.+.|..|
T Consensus       713 ld-P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~L  760 (799)
T KOG4162|consen  713 LD-PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYL  760 (799)
T ss_pred             cC-CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHH
Confidence            52 2356778899999999998887777  888888754 3345666544

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

Probab=99.16  E-value=2.5e-08  Score=84.71  Aligned_cols=252  Identities=15%  Similarity=0.092  Sum_probs=182.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhC
Q 040367           95 KGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDE  174 (400)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  174 (400)
                      .-+.+.|++.+|.-.|+..+... |-+...|..|.......++-..|+..++++                       .+.
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rc-----------------------l~L  348 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRC-----------------------LEL  348 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHH-----------------------Hhc
Confidence            34567888999998998888775 557888888888888888755555554444                       443


Q ss_pred             CCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH---------HHHHhCCChHHHHHHHHHH-HHc
Q 040367          175 NINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIM---------DELCKNGKMDEASRLLDLM-IQI  244 (400)
Q Consensus       175 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~---------~~~~~~~~~~~a~~~~~~~-~~~  244 (400)
                      . |.+......|.-.|...|.-..|.+.++..+....+ -.  |....         +.+.....+....++|-++ .+.
T Consensus       349 d-P~NleaLmaLAVSytNeg~q~~Al~~L~~Wi~~~p~-y~--~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~  424 (579)
T KOG1125|consen  349 D-PTNLEALMALAVSYTNEGLQNQALKMLDKWIRNKPK-YV--HLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQL  424 (579)
T ss_pred             C-CccHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcc-ch--hccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhC
Confidence            3 447778888888999999999999999988764311 00  00000         1111112233344444444 444


Q ss_pred             CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-hhhH
Q 040367          245 GVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPD-VVIY  323 (400)
Q Consensus       245 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~  323 (400)
                      +..+|+.+...|.-.|.-.|++++|.+.|+.+.... |.|...||.|...++...+.++|+.-|+++++.  .|+ +.+.
T Consensus       425 ~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~R  501 (579)
T KOG1125|consen  425 PTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVR  501 (579)
T ss_pred             CCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeee
Confidence            545788889999999999999999999999999886 668889999999999999999999999999986  444 3466


Q ss_pred             HHHHHHHHhhCcHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHHHhcCcHHHHHHH
Q 040367          324 NTLFVVLFEIHQVERAFKLFDEMQRD---------GVAADTWTYRTFIDGLCKNSYIVEAVEL  377 (400)
Q Consensus       324 ~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~~~~~~~~~l~~~~~~~g~~~~a~~~  377 (400)
                      ..|..+|...|.+++|.+.|-.++..         +..++..+|..|=.++...++.|-+.+.
T Consensus       502 yNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  502 YNLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             hhhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            67888999999999999999776532         1122346788887777777877755444

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.15  E-value=1.1e-06  Score=85.55  Aligned_cols=364  Identities=9%  Similarity=-0.025  Sum_probs=198.2

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 040367           20 FNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCA   99 (400)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (400)
                      +......+...|++.+|..........  ..-..............|+++.+..+++.+.......+..........+..
T Consensus       344 h~raa~~~~~~g~~~~Al~~a~~a~d~--~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~  421 (903)
T PRK04841        344 HRAAAEAWLAQGFPSEAIHHALAAGDA--QLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQS  421 (903)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHCCCH--HHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHH
Confidence            344455566667766665544332111  000011112223334455555555555544211111122222233334445


Q ss_pred             cCCHHHHHHHHHHHHHcC--C----CCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCC---------------
Q 040367          100 ESRIMEAAALFTKLRVFG--C----EPN--VFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFG---------------  156 (400)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~--~----~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------  156 (400)
                      .|+++++..+++...+.-  .    .+.  ......+...+...|+++.|...+++.........               
T Consensus       422 ~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~  501 (903)
T PRK04841        422 QHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVH  501 (903)
T ss_pred             CCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHH
Confidence            566666666665543320  0    011  11122223344556666666666666544211100               


Q ss_pred             -cccchHHHHHHHHHHHhC----CC-CCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC--C-CHHHHHHHHH
Q 040367          157 -VEGFVDKAKELFLQMKDE----NI-NPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ----GVQ--P-NVVTFNVIMD  223 (400)
Q Consensus       157 -~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~  223 (400)
                       ..|++++|...+.+....    +. .....++..+...+...|+++.|...+++....    +..  + ....+..+..
T Consensus       502 ~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~  581 (903)
T PRK04841        502 HCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQ  581 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHH
Confidence             155566666666555431    10 111234556667788899999999998886642    211  1 2233445556


Q ss_pred             HHHhCCChHHHHHHHHHHHHcC--CCC--CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-ChhhH-----HHHHH
Q 040367          224 ELCKNGKMDEASRLLDLMIQIG--VRP--NAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTH-TVFSY-----SILIN  293 (400)
Q Consensus       224 ~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~-----~~l~~  293 (400)
                      .+...|++++|...+.+.....  ..+  ....+..+...+...|+++.|...+.......... ....+     ...+.
T Consensus       582 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~  661 (903)
T PRK04841        582 LLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLI  661 (903)
T ss_pred             HHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHH
Confidence            6777899999999988876531  111  23344446667788899999999988875431111 11111     11224


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCch---hhHHHHHHHHHhhCcHHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHH
Q 040367          294 GYCKNKEIEGALSLYGEMLSKGIKPDV---VIYNTLFVVLFEIHQVERAFKLFDEMQRD----GVAAD-TWTYRTFIDGL  365 (400)
Q Consensus       294 ~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~  365 (400)
                      .+...|+.+.|.+.+............   ..+..+..++...|++++|...++++...    |..++ ..+...+..++
T Consensus       662 ~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~  741 (903)
T PRK04841        662 YWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLY  741 (903)
T ss_pred             HHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHH
Confidence            445678899999887765542211111   11345667788899999999999887753    22222 34566677788


Q ss_pred             HhcCcHHHHHHHHHHHHHhc
Q 040367          366 CKNSYIVEAVELFRTLRILK  385 (400)
Q Consensus       366 ~~~g~~~~a~~~~~~~~~~~  385 (400)
                      .+.|+.++|...+.+..+..
T Consensus       742 ~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        742 WQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHh
Confidence            89999999999999997643

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.14  E-value=1.4e-06  Score=69.72  Aligned_cols=318  Identities=13%  Similarity=0.079  Sum_probs=216.5

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhH-HHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTF-TSL   93 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l   93 (400)
                      .++.-..-+...+..+|++..|+.-|....+.. +.+-.++-.-...|...|+..-|+.=+.+.++.  +||-..- ..-
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            455556667788888999999999998888752 222234444456788899999999989888876  6664432 223


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHh
Q 040367           94 IKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKD  173 (400)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  173 (400)
                      ...+.+.|.++.|..-|+.+++..  |+..+   ...++.+.--.++-..+.+++.+    ....|+...|+.....+.+
T Consensus       113 g~vllK~Gele~A~~DF~~vl~~~--~s~~~---~~eaqskl~~~~e~~~l~~ql~s----~~~~GD~~~ai~~i~~llE  183 (504)
T KOG0624|consen  113 GVVLLKQGELEQAEADFDQVLQHE--PSNGL---VLEAQSKLALIQEHWVLVQQLKS----ASGSGDCQNAIEMITHLLE  183 (504)
T ss_pred             chhhhhcccHHHHHHHHHHHHhcC--CCcch---hHHHHHHHHhHHHHHHHHHHHHH----HhcCCchhhHHHHHHHHHh
Confidence            356778999999999999998773  32211   11222222222222222222222    1223556777777777776


Q ss_pred             CCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHh-
Q 040367          174 ENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFV-  252 (400)
Q Consensus       174 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-  252 (400)
                      .. +-|...+..-..+|...|++..|+.-++...+.. ..++.++.-+-..+...|+.+.++...++.++.  .|+... 
T Consensus       184 i~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~C  259 (504)
T KOG0624|consen  184 IQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLC  259 (504)
T ss_pred             cC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhH
Confidence            53 5577778888889999999999999888887754 446667777778888999999999999888875  455332 


Q ss_pred             ---HHHH---------HHHHHhcCCHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 040367          253 ---YNTL---------MDGFCLTGRVNRAKELFVSMESMGCTHT---VFSYSILINGYCKNKEIEGALSLYGEMLSKGIK  317 (400)
Q Consensus       253 ---~~~l---------~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  317 (400)
                         |..+         +......++|.++.+..+...+......   ...+..+-.++...+++.+|++.-.+.++.. +
T Consensus       260 f~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d-~  338 (504)
T KOG0624|consen  260 FPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDID-P  338 (504)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcC-c
Confidence               1111         1223455778888888888877642212   2334566677788889999999888888753 2


Q ss_pred             CchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          318 PDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       318 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      .|..++.--..+|.-...++.|+.-|+.+.+.
T Consensus       339 ~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  339 DDVQVLCDRAEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             hHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc
Confidence            24778888888888888999999988888765

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.13  E-value=1.6e-07  Score=75.27  Aligned_cols=344  Identities=12%  Similarity=0.116  Sum_probs=202.7

Q ss_pred             HHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH
Q 040367           24 FGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRI  103 (400)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  103 (400)
                      +.-+..++++..|+.+++.-...+-.....+-..+..++.+.|++++|...|..+.+.. .++...+..|..++.-.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHH
Confidence            66778889999999999987765433223344556678889999999999999988754 67788888888888889999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCC-------CCcccchHHHHHHHHHHHhCCC
Q 040367          104 MEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGE-------FGVEGFVDKAKELFLQMKDENI  176 (400)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-------~~~~~~~~~a~~~~~~~~~~~~  176 (400)
                      .+|.++-.+.     +.++-....+.....+.++-++-..+.+.+.....+       .-..-.+++|++++.++...+ 
T Consensus       108 ~eA~~~~~ka-----~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn-  181 (557)
T KOG3785|consen  108 IEAKSIAEKA-----PKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTLEDQLSLASVHYMRMHYQEAIDVYKRVLQDN-  181 (557)
T ss_pred             HHHHHHHhhC-----CCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcC-
Confidence            9999887653     334455555666667777776666665555332211       001345789999999998763 


Q ss_pred             CCChHhHHHHHH-HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--CCChHHHH--H----------HHHHH
Q 040367          177 NPDVVTYTSVIR-GFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCK--NGKMDEAS--R----------LLDLM  241 (400)
Q Consensus       177 ~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~--~----------~~~~~  241 (400)
                       |+....|..+. +|.+..-++-+.++++-.... ++.++...+.......+  +|+..+.+  +          ..+.+
T Consensus       182 -~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l  259 (557)
T KOG3785|consen  182 -PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYL  259 (557)
T ss_pred             -hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHH
Confidence             55555555444 556777778888888877764 34444444443333222  22221111  0          11112


Q ss_pred             HHcCC------------CC-----CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHH--------------
Q 040367          242 IQIGV------------RP-----NAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSI--------------  290 (400)
Q Consensus       242 ~~~~~------------~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--------------  290 (400)
                      .++++            -|     -+..-..|+-.|.++++..+|..+.+++.    |.++.-|-.              
T Consensus       260 ~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~----PttP~EyilKgvv~aalGQe~gS  335 (557)
T KOG3785|consen  260 CRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLD----PTTPYEYILKGVVFAALGQETGS  335 (557)
T ss_pred             HHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcC----CCChHHHHHHHHHHHHhhhhcCc
Confidence            22110            00     01122234455778888888888777664    222222211              


Q ss_pred             -----------------------------HHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHH
Q 040367          291 -----------------------------LINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFK  341 (400)
Q Consensus       291 -----------------------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  341 (400)
                                                   +..++.-..++++++..+..+...-.. |....-.+.++.+..|++.+|.+
T Consensus       336 reHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~N-dD~Fn~N~AQAk~atgny~eaEe  414 (557)
T KOG3785|consen  336 REHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTN-DDDFNLNLAQAKLATGNYVEAEE  414 (557)
T ss_pred             HHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-cchhhhHHHHHHHHhcChHHHHH
Confidence                                         111112222233333333333222111 11222345677777888888888


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 040367          342 LFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTL  381 (400)
Q Consensus       342 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  381 (400)
                      +|-+.....+..+..--..|.++|.+++.++.|..++-++
T Consensus       415 lf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~  454 (557)
T KOG3785|consen  415 LFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKT  454 (557)
T ss_pred             HHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhc
Confidence            8877765444433333345667788888888886664443

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

Probab=99.12  E-value=7.9e-08  Score=81.82  Aligned_cols=262  Identities=12%  Similarity=0.070  Sum_probs=166.8

Q ss_pred             HHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChH
Q 040367           60 NCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTI  139 (400)
Q Consensus        60 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  139 (400)
                      .-+.+.|++.+|.-.|+..++.+ +.+...|..|......+++-..|+..+++..+.. +-+..+...|.-.|...|.-.
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHH
Confidence            34567788888988999888875 4478889999999899998889999998888775 557788888888999988888


Q ss_pred             HHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHH-hCCCCCCHHHH
Q 040367          140 VALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMM-DQGVQPNVVTF  218 (400)
Q Consensus       140 ~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~  218 (400)
                      .|++.++.=+...+.+.....-        .-... ..+.        ..+.....+....++|-++. ..+..+|+.+.
T Consensus       371 ~Al~~L~~Wi~~~p~y~~l~~a--------~~~~~-~~~~--------~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ  433 (579)
T KOG1125|consen  371 QALKMLDKWIRNKPKYVHLVSA--------GENED-FENT--------KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQ  433 (579)
T ss_pred             HHHHHHHHHHHhCccchhcccc--------Ccccc-ccCC--------cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHH
Confidence            8887777654443322110000        00000 0000        01111112233334444433 33334666677


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 040367          219 NVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKN  298 (400)
Q Consensus       219 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  298 (400)
                      ..|.-.|.-.|++++|...|+.++... +-|..+||.|...+....+..+|+..|.+..+.. |--+.+...|.-+|...
T Consensus       434 ~~LGVLy~ls~efdraiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLq-P~yVR~RyNlgIS~mNl  511 (579)
T KOG1125|consen  434 SGLGVLYNLSGEFDRAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQLQ-PGYVRVRYNLGISCMNL  511 (579)
T ss_pred             hhhHHHHhcchHHHHHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcC-CCeeeeehhhhhhhhhh
Confidence            777777777778888888888777753 2356777777777777777888888888777763 22344555666677788


Q ss_pred             CCHHHHHHHHHHHHhC---------CCCCchhhHHHHHHHHHhhCcHHHHHHH
Q 040367          299 KEIEGALSLYGEMLSK---------GIKPDVVIYNTLFVVLFEIHQVERAFKL  342 (400)
Q Consensus       299 ~~~~~a~~~~~~~~~~---------~~~~~~~~~~~l~~~~~~~~~~~~a~~~  342 (400)
                      |.+++|.+.|-.++..         +..++...|..|=.++.-.++.|.+.+.
T Consensus       512 G~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  512 GAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             hhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            8888877776655431         1122345666666666666666654443

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

Probab=99.10  E-value=8.5e-08  Score=83.87  Aligned_cols=191  Identities=10%  Similarity=0.099  Sum_probs=155.4

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 040367          181 VTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGF  260 (400)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  260 (400)
                      ..|..++.+|...|+..+|..+..+..++  +||+..|..+.+......-+++|.++.+.....       .-..+....
T Consensus       425 emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~  495 (777)
T KOG1128|consen  425 EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLI  495 (777)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhcccc
Confidence            35777888999999999999999888873  688888888888877777788888888765432       222333334


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHH
Q 040367          261 CLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAF  340 (400)
Q Consensus       261 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  340 (400)
                      .+.++++++.+.|+.-.+.+ +....+|-.+..+..+.++++.|.+.|....... +.+...||.+-.+|.+.++..+|.
T Consensus       496 ~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~  573 (777)
T KOG1128|consen  496 LSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAF  573 (777)
T ss_pred             ccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHH
Confidence            45789999999999888776 5677888888888899999999999999888753 336789999999999999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          341 KLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       341 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      ..+.++.+.+ .-+...|...+....+-|.+++|++.+.++..
T Consensus       574 ~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  574 RKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            9999999876 44667788888888899999999999998863

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

Probab=99.09  E-value=1e-07  Score=73.43  Aligned_cols=154  Identities=10%  Similarity=0.126  Sum_probs=100.8

Q ss_pred             HHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040367          131 GLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQG  210 (400)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  210 (400)
                      .|...|+++......+.+......+...+..+++...++.....+ +.+...|..+...|...|++++|...|++..+..
T Consensus        25 ~Y~~~g~~~~v~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~  103 (198)
T PRK10370         25 SYLLSPKWQAVRAEYQRLADPLHQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR  103 (198)
T ss_pred             HHHHcchHHHHHHHHHHHhCccccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            455555555544443333222222223444566666666666554 5677788888888888888888888888887764


Q ss_pred             CCCCHHHHHHHHHHH-HhCCC--hHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhh
Q 040367          211 VQPNVVTFNVIMDEL-CKNGK--MDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFS  287 (400)
Q Consensus       211 ~~~~~~~~~~l~~~~-~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  287 (400)
                       +.+...+..+..++ ...|+  .++|.+++++..+.+. .+...+..+...+...|++++|...|+++.+.. +|+..-
T Consensus       104 -P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP-~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~-~~~~~r  180 (198)
T PRK10370        104 -GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDA-NEVTALMLLASDAFMQADYAQAIELWQKVLDLN-SPRVNR  180 (198)
T ss_pred             -CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCC-CChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCccH
Confidence             44666777776653 56666  4788888888887643 356677777778888888888888888887765 444443


Q ss_pred             H
Q 040367          288 Y  288 (400)
Q Consensus       288 ~  288 (400)
                      +
T Consensus       181 ~  181 (198)
T PRK10370        181 T  181 (198)
T ss_pred             H
Confidence            3

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

Probab=99.07  E-value=1.1e-07  Score=88.87  Aligned_cols=209  Identities=15%  Similarity=0.113  Sum_probs=172.3

Q ss_pred             CCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-----CHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHH
Q 040367          177 NPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQP-----NVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAF  251 (400)
Q Consensus       177 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  251 (400)
                      |.+...|-..|......++.++|.++.++++.. +.+     -...|.++++.-..-|.-+...++|+++.+..  ....
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            556778999999999999999999999998864 222     22467777777777788899999999998852  2456


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CchhhHHHHHHHH
Q 040367          252 VYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIK-PDVVIYNTLFVVL  330 (400)
Q Consensus       252 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~  330 (400)
                      +|..|...|.+.+.+++|.++++.|.+.- ......|...+..+.+..+-+.|..++.++.+.-++ -........+..-
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            78899999999999999999999998864 367888999999999999999999999998875222 1344555666677


Q ss_pred             HhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchh
Q 040367          331 FEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDI  390 (400)
Q Consensus       331 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  390 (400)
                      .+.|+.+++..+|+..... .+-....|+.+++.-.++|+.+.+..+|++....++.|..
T Consensus      1611 Fk~GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kk 1669 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKK 1669 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhH
Confidence            7899999999999999876 3446889999999999999999999999999998887753

>PLN02789 farnesyltranstransferase

Probab=99.04  E-value=1.3e-06  Score=72.37  Aligned_cols=241  Identities=9%  Similarity=0.006  Sum_probs=168.0

Q ss_pred             CChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCC
Q 040367          136 GHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYAN-DWNEAKCLLIEMMDQGVQPN  214 (400)
Q Consensus       136 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~  214 (400)
                      +++.+|..+|+.+...+.      ..++|+.+..+++..+ |-+..+|+.-..++...| ++++++..++++.+.+ +.+
T Consensus        34 ~~~~~a~~~~ra~l~~~e------~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pkn  105 (320)
T PLN02789         34 PEFREAMDYFRAVYASDE------RSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKN  105 (320)
T ss_pred             HHHHHHHHHHHHHHHcCC------CCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-Ccc
Confidence            344555555555544332      2667777777777654 445556666666666777 6799999999998864 345


Q ss_pred             HHHHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 040367          215 VVTFNVIMDELCKNGKM--DEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILI  292 (400)
Q Consensus       215 ~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  292 (400)
                      ..+|+.-...+.+.|..  +++..+++++++... -+..+|+....++...|+++++++.+.++.+.+ +.|...|+...
T Consensus       106 yqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~  183 (320)
T PLN02789        106 YQIWHHRRWLAEKLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRY  183 (320)
T ss_pred             hHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHH
Confidence            55666555555566653  678888888888753 478888888888889999999999999999887 55777787776


Q ss_pred             HHHHhc---CC----HHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh----hCcHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 040367          293 NGYCKN---KE----IEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE----IHQVERAFKLFDEMQRDGVAADTWTYRTF  361 (400)
Q Consensus       293 ~~~~~~---~~----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  361 (400)
                      ..+.+.   |.    .++.+++..+++...+ -|...|+.+...+..    .++..+|.+.+.+..+.+ +.+......|
T Consensus       184 ~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P-~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l  261 (320)
T PLN02789        184 FVITRSPLLGGLEAMRDSELKYTIDAILANP-RNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDL  261 (320)
T ss_pred             HHHHhccccccccccHHHHHHHHHHHHHhCC-CCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHH
Confidence            665554   22    2467777778887654 377888888877766    244567888888877653 3367778888


Q ss_pred             HHHHHhcC------------------cHHHHHHHHHHHHHhcccchh
Q 040367          362 IDGLCKNS------------------YIVEAVELFRTLRILKCELDI  390 (400)
Q Consensus       362 ~~~~~~~g------------------~~~~a~~~~~~~~~~~~~p~~  390 (400)
                      ++.|+...                  ..++|.++++.+.  ...|=.
T Consensus       262 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~--~~d~ir  306 (320)
T PLN02789        262 LDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELE--VADPMR  306 (320)
T ss_pred             HHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHHH--hhCcHH
Confidence            88887632                  3477888888884  344533

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.03  E-value=4.2e-06  Score=81.55  Aligned_cols=310  Identities=11%  Similarity=0.007  Sum_probs=172.4

Q ss_pred             HHHHhccCChhHHHHHHHHHHhCC--C----CCC--HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCCh----hhHH
Q 040367           24 FGCLAKNKHYDTVLSLFKRLNSTG--L----FPD--LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNA----VTFT   91 (400)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~--~----~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~   91 (400)
                      ...+...|++++|..+++.....-  .    .+.  ......+...+...|++++|...++.........+.    ...+
T Consensus       416 a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~  495 (903)
T PRK04841        416 AWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATS  495 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHH
Confidence            334445566666666666553320  0    011  111122223344566666666666665542111111    1233


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCC---CC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHH
Q 040367           92 SLIKGLCAESRIMEAAALFTKLRVFGC---EP--NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKE  166 (400)
Q Consensus        92 ~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~  166 (400)
                      .+...+...|++++|...+++.....-   .+  ...++..+...+...|+++.|...+++.                ..
T Consensus       496 ~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~a----------------l~  559 (903)
T PRK04841        496 VLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKA----------------FQ  559 (903)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH----------------HH
Confidence            444455566666666666665543210   11  1223344455566666666666554443                22


Q ss_pred             HHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCC--CHHHHHHHHHHHHhCCChHHHHHHHHHHH
Q 040367          167 LFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQG--VQP--NVVTFNVIMDELCKNGKMDEASRLLDLMI  242 (400)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  242 (400)
                      +.+.............+..+...+...|++++|...+.+.....  ..+  ....+..+...+...|+++.|...+.++.
T Consensus       560 ~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~  639 (903)
T PRK04841        560 LIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLE  639 (903)
T ss_pred             HHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            22111100001122334555667778899999999998876431  112  23344456667788999999999998886


Q ss_pred             HcCCCCC-HHhH-----HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCh---hhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          243 QIGVRPN-AFVY-----NTLMDGFCLTGRVNRAKELFVSMESMGCTHTV---FSYSILINGYCKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       243 ~~~~~~~-~~~~-----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~  313 (400)
                      ....... ...+     ...+..+...|+.+.|...+............   ..+..+..++...|++++|...++++..
T Consensus       640 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~  719 (903)
T PRK04841        640 NLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNE  719 (903)
T ss_pred             HHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5311111 1111     11224455678999999988776542211111   1134567778889999999999988775


Q ss_pred             C----CCCCc-hhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          314 K----GIKPD-VVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       314 ~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      .    |..++ ..+...+..++...|+.++|...+.++.+.
T Consensus       720 ~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        720 NARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3    32221 235566678888999999999999998875

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

Probab=99.02  E-value=6.8e-07  Score=83.86  Aligned_cols=235  Identities=9%  Similarity=0.052  Sum_probs=139.5

Q ss_pred             CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc-CCCC---ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHH
Q 040367           49 FPDLYTYNILINCFCKMGRVSHGFVVLGRILRS-CFTP---NAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFT  124 (400)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  124 (400)
                      |.+...|-..|......++.+.|+++.++++.. ++.-   -...|.+++..-..-|.-+...++|+++.+.  .-....
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHH
Confidence            334456666677777777777777777776653 1111   1224555555555556666666777776654  223445


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHH
Q 040367          125 YNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLI  204 (400)
Q Consensus       125 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  204 (400)
                      |..|...|.+.+.+++|.++++.|.+.-                        ......|..++..+.+.++-++|..++.
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF------------------------~q~~~vW~~y~~fLl~~ne~~aa~~lL~ 1588 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKF------------------------GQTRKVWIMYADFLLRQNEAEAARELLK 1588 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHh------------------------cchhhHHHHHHHHHhcccHHHHHHHHHH
Confidence            6667777777777777777777774421                        1234566667777777777777777777


Q ss_pred             HHHhCCCCC--CHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 040367          205 EMMDQGVQP--NVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCT  282 (400)
Q Consensus       205 ~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  282 (400)
                      ++++. .+-  ........+..-.+.|+.+.+..+|+-.+... +-....|+..++.-.+.|+.+.++.+|+++...++.
T Consensus      1589 rAL~~-lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~ 1666 (1710)
T KOG1070|consen 1589 RALKS-LPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLS 1666 (1710)
T ss_pred             HHHhh-cchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCC
Confidence            76654 111  12233344445556677777777777666652 234556777777777777777777777777766554


Q ss_pred             CC--hhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 040367          283 HT--VFSYSILINGYCKNKEIEGALSLYGEM  311 (400)
Q Consensus       283 ~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~  311 (400)
                      |.  ...|...+..--+.|+-+.+..+=.++
T Consensus      1667 ~kkmKfffKkwLeyEk~~Gde~~vE~VKarA 1697 (1710)
T KOG1070|consen 1667 IKKMKFFFKKWLEYEKSHGDEKNVEYVKARA 1697 (1710)
T ss_pred             hhHhHHHHHHHHHHHHhcCchhhHHHHHHHH
Confidence            43  234555555555556655444443333

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

Probab=98.99  E-value=2.3e-07  Score=71.51  Aligned_cols=119  Identities=11%  Similarity=0.067  Sum_probs=72.4

Q ss_pred             CCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHH-HhcCC--HHHH
Q 040367          228 NGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGY-CKNKE--IEGA  304 (400)
Q Consensus       228 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~--~~~a  304 (400)
                      .++.+++...++...+.+ +.+...|..+...|...|++++|...|++..+.. +.+...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            455556666666655543 3356666666666666666666666666666654 44555666666543 45454  3666


Q ss_pred             HHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          305 LSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      .+++++..+.+.. +...+..+...+...|++++|+..|+++.+.
T Consensus       130 ~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        130 REMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            6666666665433 5556666666666666666666666666665

>PLN02789 farnesyltranstransferase

Probab=98.98  E-value=3.8e-06  Score=69.69  Aligned_cols=126  Identities=8%  Similarity=-0.014  Sum_probs=66.9

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-ChhhHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 040367           20 FNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMG-RVSHGFVVLGRILRSCFTPNAVTFTSLIKGLC   98 (400)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (400)
                      +..+-..+...+..++|+.+.+++.+.. +-+..+|+....++...| ++++++..++.+.+.+. .+..+|+.....+.
T Consensus        40 ~~~~ra~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np-knyqaW~~R~~~l~  117 (320)
T PLN02789         40 MDYFRAVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP-KNYQIWHHRRWLAE  117 (320)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC-cchHHhHHHHHHHH
Confidence            3444445555666666666666666653 223344555545555555 45666666666665542 24445554444444


Q ss_pred             hcCCH--HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 040367           99 AESRI--MEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEM  148 (400)
Q Consensus        99 ~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  148 (400)
                      +.|+.  ++++.+++++.+.. +-+..+|+....++...|+++++++.++++
T Consensus       118 ~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~  168 (320)
T PLN02789        118 KLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQL  168 (320)
T ss_pred             HcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            44442  45566666665554 345566666665555555544444443333

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

Probab=98.98  E-value=4.7e-07  Score=69.71  Aligned_cols=164  Identities=13%  Similarity=0.050  Sum_probs=128.2

Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367          214 NVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILIN  293 (400)
Q Consensus       214 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  293 (400)
                      |... ..+-..+...|+-+....+....... .+.+.......+....+.|++..|...+++..... ++|...|+.+.-
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lga  142 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHH
Confidence            4444 66667777788888888887776543 23466667778888888999999999999988876 788889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHH
Q 040367          294 GYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVE  373 (400)
Q Consensus       294 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  373 (400)
                      +|.+.|+.+.|..-|.+..+... -++..++.+...+.-.|+++.|..++......+ .-|..+-..+.......|++++
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 ALDQLGRFDEARRAYRQALELAP-NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFRE  220 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHhcc-CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHH
Confidence            99999999999998888888632 256677888888888899999999998888763 2367777888888888999998


Q ss_pred             HHHHHHHHH
Q 040367          374 AVELFRTLR  382 (400)
Q Consensus       374 a~~~~~~~~  382 (400)
                      |..+...-+
T Consensus       221 A~~i~~~e~  229 (257)
T COG5010         221 AEDIAVQEL  229 (257)
T ss_pred             HHhhccccc
Confidence            888766554

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

Probab=98.97  E-value=2.4e-06  Score=75.12  Aligned_cols=235  Identities=12%  Similarity=0.016  Sum_probs=184.0

Q ss_pred             CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 040367           48 LFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNT  127 (400)
Q Consensus        48 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  127 (400)
                      ++|--..-..+...+...|-...|..+++++.         .|.-.+.+|...|+..+|..+..+..+.  +||+..|..
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~  462 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCL  462 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHH
Confidence            34444455667788888899999999998865         3556788899999999999999888874  899999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHcC-----CCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHH
Q 040367          128 LINGLYRTGHTIVALNLFEEMASG-----NGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCL  202 (400)
Q Consensus       128 l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  202 (400)
                      +++......-+++|.++.+....+     +...-..++++++.+.|+.-...+ +....+|..+..+..+.++++.|.+.
T Consensus       463 LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~a  541 (777)
T KOG1128|consen  463 LGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKA  541 (777)
T ss_pred             hhhhccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHH
Confidence            999988888899999998877554     222334688999999998877664 55677888888889999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-
Q 040367          203 LIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGC-  281 (400)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-  281 (400)
                      |....... +.+...|+++-.+|.+.++..+|...+.+..+.+ ..+...+...+....+.|.+++|++.+.++..... 
T Consensus       542 F~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~  619 (777)
T KOG1128|consen  542 FHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKK  619 (777)
T ss_pred             HHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhh
Confidence            99988753 4456789999999999999999999999999886 44566677777778899999999999998865321 


Q ss_pred             CCChhhHHHHHHHHH
Q 040367          282 THTVFSYSILINGYC  296 (400)
Q Consensus       282 ~~~~~~~~~l~~~~~  296 (400)
                      ..|..+...++..-.
T Consensus       620 ~~d~~vl~~iv~~~~  634 (777)
T KOG1128|consen  620 YKDDEVLLIIVRTVL  634 (777)
T ss_pred             cccchhhHHHHHHHH
Confidence            224455555554443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.96  E-value=1.3e-05  Score=68.22  Aligned_cols=331  Identities=14%  Similarity=0.090  Sum_probs=198.5

Q ss_pred             chhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 040367            2 CIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRS   81 (400)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (400)
                      ..|-+.+...|.  |...|..=..++.+.|++++|++=-.+..+.. |.-...|.....++.-.|++++|+..|.+-++.
T Consensus        23 ~~~t~ai~l~p~--nhvlySnrsaa~a~~~~~~~al~da~k~~~l~-p~w~kgy~r~Gaa~~~lg~~~eA~~ay~~GL~~   99 (539)
T KOG0548|consen   23 RLFTEAIMLSPT--NHVLYSNRSAAYASLGSYEKALKDATKTRRLN-PDWAKGYSRKGAALFGLGDYEEAILAYSEGLEK   99 (539)
T ss_pred             HHHHHHHccCCC--ccchhcchHHHHHHHhhHHHHHHHHHHHHhcC-CchhhHHHHhHHHHHhcccHHHHHHHHHHHhhc
Confidence            345555555554  88888888999999999999988777777653 223668999999999999999999999887766


Q ss_pred             CCCCChhhHHHHHHHHHhc---------------------------------------------------CCHHHHHHHH
Q 040367           82 CFTPNAVTFTSLIKGLCAE---------------------------------------------------SRIMEAAALF  110 (400)
Q Consensus        82 ~~~~~~~~~~~l~~~~~~~---------------------------------------------------~~~~~a~~~~  110 (400)
                      . +.+...++.+.+++...                                                   .++..+.-.+
T Consensus       100 d-~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~d~r~m~a~~~l  178 (539)
T KOG0548|consen  100 D-PSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLNDPRLMKADGQL  178 (539)
T ss_pred             C-CchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcccccHHHHHHHHHH
Confidence            3 22333444444433111                                                   0001111110


Q ss_pred             HHH-----HHc-------CCCC----------------------CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCC
Q 040367          111 TKL-----RVF-------GCEP----------------------NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFG  156 (400)
Q Consensus       111 ~~~-----~~~-------~~~~----------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  156 (400)
                      ...     ...       +..|                      -..-...+.++..+..+++.|++.+..........+
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~~~it  258 (539)
T KOG0548|consen  179 KGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQHYAKALELATDIT  258 (539)
T ss_pred             hcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHhhhhH
Confidence            000     000       0011                      124566777788888888888888877766542111


Q ss_pred             c----------ccchHHHHHHHHHHHhCCCCCChHhH-------HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 040367          157 V----------EGFVDKAKELFLQMKDENINPDVVTY-------TSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFN  219 (400)
Q Consensus       157 ~----------~~~~~~a~~~~~~~~~~~~~~~~~~~-------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  219 (400)
                      .          .|.+.+....-....+.|- -....|       ..+..++.+.++++.++..|.+.......|+.    
T Consensus       259 ~~~n~aA~~~e~~~~~~c~~~c~~a~E~gr-e~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~----  333 (539)
T KOG0548|consen  259 YLNNIAAVYLERGKYAECIELCEKAVEVGR-ELRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDL----  333 (539)
T ss_pred             HHHHHHHHHHhccHHHHhhcchHHHHHHhH-HHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHH----
Confidence            1          2222222222222222220 011122       22344666678888999999887665433322    


Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC
Q 040367          220 VIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNK  299 (400)
Q Consensus       220 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  299 (400)
                           ..+....+++....+...-.+... ..-...-...+.+.|++..|...|.+++..+ |.|...|....-+|.+.|
T Consensus       334 -----ls~lk~~Ek~~k~~e~~a~~~pe~-A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~  406 (539)
T KOG0548|consen  334 -----LSKLKEAEKALKEAERKAYINPEK-AEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLG  406 (539)
T ss_pred             -----HHHHHHHHHHHHHHHHHHhhChhH-HHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHh
Confidence                 223334444444444433322221 1122223566778889999999998888876 668888888888888999


Q ss_pred             CHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          300 EIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       300 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      .+..|++--+..++.+ ++....|..-..++....+++.|.+.|.+.++.
T Consensus       407 ~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale~  455 (539)
T KOG0548|consen  407 EYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALEL  455 (539)
T ss_pred             hHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            9888888877777763 223444555555666677888888888888876

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.94  E-value=6.7e-07  Score=71.93  Aligned_cols=188  Identities=10%  Similarity=-0.039  Sum_probs=126.8

Q ss_pred             CCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH--H
Q 040367          177 NPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNV---VTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNA--F  251 (400)
Q Consensus       177 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~  251 (400)
                      +.....+..+...+...|+++.|...++++.... +.+.   ..+..+..++...|++++|...++++.+.......  .
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~  108 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADY  108 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHH
Confidence            3456677778888889999999999999887753 2222   45677778888899999999999999876332111  1


Q ss_pred             hHHHHHHHHHhc--------CCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhH
Q 040367          252 VYNTLMDGFCLT--------GRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIY  323 (400)
Q Consensus       252 ~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  323 (400)
                      .+..+..++...        |++++|...++.+.... +.+...+..+.....    ....      .        ....
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~~~~----~~~~------~--------~~~~  169 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY-PNSEYAPDAKKRMDY----LRNR------L--------AGKE  169 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC-CCChhHHHHHHHHHH----HHHH------H--------HHHH
Confidence            344555556554        67888888888887763 222223322221111    0000      0        0011


Q ss_pred             HHHHHHHHhhCcHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Q 040367          324 NTLFVVLFEIHQVERAFKLFDEMQRDGV--AADTWTYRTFIDGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       324 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                      ..+...+.+.|++++|...++++.+...  +.....+..+..++.+.|++++|..+++.+...
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            2456678889999999999999987621  223578889999999999999999999888753

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).

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.92  E-value=7e-07  Score=71.80  Aligned_cols=173  Identities=9%  Similarity=0.009  Sum_probs=118.8

Q ss_pred             cccchHHHHHHHHHHHhCCCCCCh---HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC-HHHHHHHHHHHHhC---
Q 040367          157 VEGFVDKAKELFLQMKDENINPDV---VTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQ-PN-VVTFNVIMDELCKN---  228 (400)
Q Consensus       157 ~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-~~~~~~l~~~~~~~---  228 (400)
                      ..|+++.|...++++.... +.+.   ..+..+..++...|++++|+..++++.+.... +. ..++..+..++...   
T Consensus        45 ~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~  123 (235)
T TIGR03302        45 DSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDR  123 (235)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhccc
Confidence            3788999999999998764 2222   46677888999999999999999999876421 11 12455555566654   


Q ss_pred             -----CChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHH
Q 040367          229 -----GKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEG  303 (400)
Q Consensus       229 -----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  303 (400)
                           |++++|.+.++.+...... +......+.....    ...      ...        .....+...+.+.|++++
T Consensus       124 ~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~~----~~~------~~~--------~~~~~~a~~~~~~g~~~~  184 (235)
T TIGR03302       124 VDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMDY----LRN------RLA--------GKELYVARFYLKRGAYVA  184 (235)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHH----HHH------HHH--------HHHHHHHHHHHHcCChHH
Confidence                 7889999999999886322 2222222211110    000      000        112256677889999999


Q ss_pred             HHHHHHHHHhCCC--CCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          304 ALSLYGEMLSKGI--KPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       304 a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      |...++.+.+...  +.....+..+..++...|++++|..+++.+...
T Consensus       185 A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       185 AINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            9999999887632  123567888899999999999999998888764

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).

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.90  E-value=2.6e-05  Score=71.47  Aligned_cols=325  Identities=14%  Similarity=0.134  Sum_probs=182.1

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcC--CCCChhhH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLF--PDLYTYNILINCFCKMGRVSHGFVVLGRILRSC--FTPNAVTF   90 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~   90 (400)
                      .|...|+.++.-   .  -.--.++++...+.+++  .|+.-....+.++...+-+.+-+++++++.-.+  +.-+...-
T Consensus       950 ~D~~LW~~VL~e---~--n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQ 1024 (1666)
T KOG0985|consen  950 SDPDLWAKVLNE---E--NPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQ 1024 (1666)
T ss_pred             cChHHHHHHHhc---c--ChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhh
Confidence            355566666531   1  11112344444443332  345555666677777777777777777766432  11222333


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCC----CcccchHHHHH
Q 040367           91 TSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEF----GVEGFVDKAKE  166 (400)
Q Consensus        91 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~~a~~  166 (400)
                      |.|+-...+. +..++.+..+++.... .|+      +...+...+-+++|+.+|++..-.....    ..-+..++|.+
T Consensus      1025 nLLiLtAika-d~trVm~YI~rLdnyD-a~~------ia~iai~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA~e 1096 (1666)
T KOG0985|consen 1025 NLLILTAIKA-DRTRVMEYINRLDNYD-APD------IAEIAIENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRAYE 1096 (1666)
T ss_pred             hhHHHHHhhc-ChHHHHHHHHHhccCC-chh------HHHHHhhhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHH
Confidence            4444443333 3445555555555433 222      2233344445555555555432210000    00112344444


Q ss_pred             HHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCC
Q 040367          167 LFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV  246 (400)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  246 (400)
                      .-++..      .+..|..+..+-.+.|...+|++-|-+.      .|+..|..++....+.|.+++..+++....+..-
T Consensus      1097 fAe~~n------~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~ 1164 (1666)
T KOG0985|consen 1097 FAERCN------EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVR 1164 (1666)
T ss_pred             HHHhhC------ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhc
Confidence            333332      3457888888888888888888777442      3677888888999999999998888888777655


Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHH
Q 040367          247 RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTL  326 (400)
Q Consensus       247 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  326 (400)
                      .|..  -..|+-+|.+.++..+.+++..       .||......+.+-|...|.++.|.-+|..         ...|..|
T Consensus      1165 E~~i--d~eLi~AyAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~L 1226 (1666)
T KOG0985|consen 1165 EPYI--DSELIFAYAKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKL 1226 (1666)
T ss_pred             Cccc--hHHHHHHHHHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHH
Confidence            5443  3467888888888777555431       35555556666666666666666554432         2234444


Q ss_pred             HHHHHhhCcHHHHHHHHHH------------------------HHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          327 FVVLFEIHQVERAFKLFDE------------------------MQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       327 ~~~~~~~~~~~~a~~~~~~------------------------~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                      ...+...|++..|.+.-++                        |....+.....-...++.-|-..|.+++.+.+++.-+
T Consensus      1227 a~TLV~LgeyQ~AVD~aRKAns~ktWK~VcfaCvd~~EFrlAQiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~L 1306 (1666)
T KOG0985|consen 1227 ASTLVYLGEYQGAVDAARKANSTKTWKEVCFACVDKEEFRLAQICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGL 1306 (1666)
T ss_pred             HHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHhchhhhhHHHhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhh
Confidence            4444444554444433222                        2222333455566778888888888888888777654

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.90  E-value=2e-06  Score=78.21  Aligned_cols=358  Identities=11%  Similarity=-0.023  Sum_probs=200.6

Q ss_pred             hhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCC-CCChhhHHHHHH
Q 040367           17 VCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCF-TPNAVTFTSLIK   95 (400)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~   95 (400)
                      ...|..|...|+...+..+|...|+.+.+.. ..+..........|....+++.|..+.-..-+... ..-...|....-
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            4578888888988889999999999998875 44677888889999999999999888444333211 011223334445


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc-----------ccchHHH
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV-----------EGFVDKA  164 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~~a  164 (400)
                      .|.+.+++..|..-|+...+.. |.|...|..++.+|.+.|++..|+++|.++....+....           .|.+.++
T Consensus       571 yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkea  649 (1238)
T KOG1127|consen  571 YYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEA  649 (1238)
T ss_pred             cccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHH
Confidence            6778888888888888887764 558888999999999999999999999887766544221           6667777


Q ss_pred             HHHHHHHHhCC------CCCChHhHHHHHHHHHhcCCHHH-------HHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCh
Q 040367          165 KELFLQMKDEN------INPDVVTYTSVIRGFCYANDWNE-------AKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKM  231 (400)
Q Consensus       165 ~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~-------a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  231 (400)
                      +..+.......      ...-..++..+...+...|=..+       +++.|.-...+....+...|..+-.+|.-.-..
T Consensus       650 ld~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~  729 (1238)
T KOG1127|consen  650 LDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQE  729 (1238)
T ss_pred             HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHh
Confidence            77776664421      00111222222222222232233       333332222222122333333222222110000


Q ss_pred             H------HHHHHH-HHHHHcCCC--------------------CCHHhHHHHHHHHHh--------cCCHHHHHHHHHHH
Q 040367          232 D------EASRLL-DLMIQIGVR--------------------PNAFVYNTLMDGFCL--------TGRVNRAKELFVSM  276 (400)
Q Consensus       232 ~------~a~~~~-~~~~~~~~~--------------------~~~~~~~~l~~~~~~--------~~~~~~a~~~~~~~  276 (400)
                      +      ....++ .+....+.-                    .+..+|..++..|.+        ..+...|...+.+.
T Consensus       730 e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~Kka  809 (1238)
T KOG1127|consen  730 EPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKA  809 (1238)
T ss_pred             cccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHH
Confidence            0      000011 111111111                    112223333333322        12234566667666


Q ss_pred             HhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHH
Q 040367          277 ESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTW  356 (400)
Q Consensus       277 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  356 (400)
                      ++.. ..+...|+.|.-. ...|++.-+...|-+.+... +.+..+|..+...+....+++-|...|...+... +.+..
T Consensus       810 V~L~-ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLd-P~nl~  885 (1238)
T KOG1127|consen  810 VSLC-ANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLD-PLNLV  885 (1238)
T ss_pred             HHHh-hccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcC-chhhH
Confidence            6654 3456666666654 55566777776666655543 2255667777777777777777777777766542 22444


Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHH
Q 040367          357 TYRTFIDGLCKNSYIVEAVELFRT  380 (400)
Q Consensus       357 ~~~~l~~~~~~~g~~~~a~~~~~~  380 (400)
                      .|-.....-...|+.-++..+|..
T Consensus       886 ~WlG~Ali~eavG~ii~~~~lfaH  909 (1238)
T KOG1127|consen  886 QWLGEALIPEAVGRIIERLILFAH  909 (1238)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHh
Confidence            444443344445555555555544

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

Probab=98.90  E-value=3.6e-06  Score=78.02  Aligned_cols=84  Identities=10%  Similarity=0.132  Sum_probs=63.1

Q ss_pred             ChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 040367          179 DVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMD  258 (400)
Q Consensus       179 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  258 (400)
                      +...+..+..+|-+.|+.++|..+|+++++.+ +-++.+.|.+...|... ++++|.+++.++...              
T Consensus       115 ~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~--------------  178 (906)
T PRK14720        115 NKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR--------------  178 (906)
T ss_pred             hhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH--------------
Confidence            45577778888888888888888888888876 56778888888888888 888888888877654              


Q ss_pred             HHHhcCCHHHHHHHHHHHHhc
Q 040367          259 GFCLTGRVNRAKELFVSMESM  279 (400)
Q Consensus       259 ~~~~~~~~~~a~~~~~~~~~~  279 (400)
                       +...+++..+.++|.++...
T Consensus       179 -~i~~kq~~~~~e~W~k~~~~  198 (906)
T PRK14720        179 -FIKKKQYVGIEEIWSKLVHY  198 (906)
T ss_pred             -HHhhhcchHHHHHHHHHHhc
Confidence             44455666666666666654

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

Probab=98.89  E-value=6.9e-06  Score=73.47  Aligned_cols=317  Identities=16%  Similarity=0.132  Sum_probs=183.0

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhC-C-------C-CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNST-G-------L-FPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPN   86 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-------~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   86 (400)
                      +-..|..+...|.+..+.+-|.-.+-.|... |       . .|+ ..=..........|..++|+.+|++..+.     
T Consensus       756 S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~-----  829 (1416)
T KOG3617|consen  756 SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKRY-----  829 (1416)
T ss_pred             hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHHH-----
Confidence            4456777777888777777776666655432 1       0 121 22223333445677888888888877653     


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHH
Q 040367           87 AVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKE  166 (400)
Q Consensus        87 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~  166 (400)
                          ..|=..|-..|.+++|.++-+.=.+..   =..||......+...++.+.|+++|++...            .|.+
T Consensus       830 ----DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~AleyyEK~~~------------hafe  890 (1416)
T KOG3617|consen  830 ----DLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEAALEYYEKAGV------------HAFE  890 (1416)
T ss_pred             ----HHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHHHHHHHHhcCC------------hHHH
Confidence                233455667788888887766433221   234566667777777888888888877522            2233


Q ss_pred             HHHHHHhCC--------CCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHH
Q 040367          167 LFLQMKDEN--------INPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLL  238 (400)
Q Consensus       167 ~~~~~~~~~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  238 (400)
                      +++.+.+.-        -..|...|.-.....-..|+.+.|+.+|....+         |-.+++..+-.|+.++|-++-
T Consensus       891 v~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA  961 (1416)
T KOG3617|consen  891 VFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIA  961 (1416)
T ss_pred             HHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHH
Confidence            333222210        012445566666666778888888888877654         455666777788889888876


Q ss_pred             HHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcC------CCCChhhHHHHHHHHHhcC--CHHHHHHHHHH
Q 040367          239 DLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMG------CTHTVFSYSILINGYCKNK--EIEGALSLYGE  310 (400)
Q Consensus       239 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~  310 (400)
                      ++-      -|......+.+.|...|++.+|..+|.+.....      .+.+.  -..|...+...|  +.-.|-++|++
T Consensus       962 ~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAqafsnAIRlcKEnd~--~d~L~nlal~s~~~d~v~aArYyEe 1033 (1416)
T KOG3617|consen  962 EES------GDKAACYHLARMYENDGDVVKAVKFFTRAQAFSNAIRLCKENDM--KDRLANLALMSGGSDLVSAARYYEE 1033 (1416)
T ss_pred             Hhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCH--HHHHHHHHhhcCchhHHHHHHHHHH
Confidence            652      255666678889999999999998887765311      00000  011111111111  22233333332


Q ss_pred             HHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHH--------HHH--cCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHH
Q 040367          311 MLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDE--------MQR--DGVAADTWTYRTFIDGLCKNSYIVEAVELFRT  380 (400)
Q Consensus       311 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~--------~~~--~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  380 (400)
                      .   |.     .....+..|-+.|.+.+|+++-=+        ++.  .....|+...+.-.+.++...++++|..++-.
T Consensus      1034 ~---g~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ 1105 (1416)
T KOG3617|consen 1034 L---GG-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCL 1105 (1416)
T ss_pred             c---ch-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            2   11     112234455566666666654321        111  12334666777777777777777777777655


Q ss_pred             HH
Q 040367          381 LR  382 (400)
Q Consensus       381 ~~  382 (400)
                      .+
T Consensus      1106 ar 1107 (1416)
T KOG3617|consen 1106 AR 1107 (1416)
T ss_pred             HH
Confidence            54

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.89  E-value=1.1e-05  Score=62.34  Aligned_cols=156  Identities=19%  Similarity=0.113  Sum_probs=98.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHh
Q 040367          183 YTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCL  262 (400)
Q Consensus       183 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  262 (400)
                      ...-...|+..|++++|++......      +......=+..+.+..+.+-|.+.+++|.+.   .+..+.+.|..+|.+
T Consensus       111 ~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~  181 (299)
T KOG3081|consen  111 LLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVK  181 (299)
T ss_pred             HHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHH
Confidence            3334456777788888877776521      2223333344556677777888888887763   245566666666554


Q ss_pred             ----cCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcH-H
Q 040367          263 ----TGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQV-E  337 (400)
Q Consensus       263 ----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~  337 (400)
                          .+...+|..+|+++.+.- +|++.+.+....++...|++++|..+++.+..+... ++.+...++.+-...|.. +
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 LATGGEKIQDAFYIFEELSEKT-PPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAE  259 (299)
T ss_pred             HhccchhhhhHHHHHHHHhccc-CCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChH
Confidence                345777888888887643 677777777777778888888888888887776443 555555555555555554 3


Q ss_pred             HHHHHHHHHHHc
Q 040367          338 RAFKLFDEMQRD  349 (400)
Q Consensus       338 ~a~~~~~~~~~~  349 (400)
                      ...+.+.++...
T Consensus       260 ~~~r~l~QLk~~  271 (299)
T KOG3081|consen  260 VTERNLSQLKLS  271 (299)
T ss_pred             HHHHHHHHHHhc
Confidence            344455555543

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.87  E-value=6.3e-06  Score=63.73  Aligned_cols=249  Identities=14%  Similarity=0.115  Sum_probs=160.9

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhC
Q 040367           95 KGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDE  174 (400)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  174 (400)
                      +-+.-.|.+..++..-+.....  +.+...-..+-++|...|++...+                          .++...
T Consensus        16 Rn~fY~Gnyq~~ine~~~~~~~--~~~~e~d~y~~raylAlg~~~~~~--------------------------~eI~~~   67 (299)
T KOG3081|consen   16 RNYFYLGNYQQCINEAEKFSSS--KTDVELDVYMYRAYLALGQYQIVI--------------------------SEIKEG   67 (299)
T ss_pred             HHHHHhhHHHHHHHHHHhhccc--cchhHHHHHHHHHHHHcccccccc--------------------------cccccc
Confidence            3344567777776665554433  234444445566777766632111                          111111


Q ss_pred             CCCCChHhHHHHHHHHHhcCCHHHHHHH-HHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhH
Q 040367          175 NINPDVVTYTSVIRGFCYANDWNEAKCL-LIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVY  253 (400)
Q Consensus       175 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  253 (400)
                      . .|.......+......-++.+.-+.- .+.+.......+......-...|...|++++|++.+....      +....
T Consensus        68 ~-~~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~  140 (299)
T KOG3081|consen   68 K-ATPLQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAA  140 (299)
T ss_pred             c-CChHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHH
Confidence            1 23333343344444444444444433 3444444333343444444567899999999999988722      33334


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCchhhHHHHHHH
Q 040367          254 NTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCK----NKEIEGALSLYGEMLSKGIKPDVVIYNTLFVV  329 (400)
Q Consensus       254 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  329 (400)
                      ..=+..+.+..+++-|...+++|.+.+   +..+.+.|.+++.+    .+.+..|.-+|++|.++ .+|+..+.+....+
T Consensus       141 Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~  216 (299)
T KOG3081|consen  141 ALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVC  216 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHH
Confidence            444556778889999999999999753   56677777777764    35689999999999875 67899999999999


Q ss_pred             HHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHH-HHHHHHHHHH
Q 040367          330 LFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVE-AVELFRTLRI  383 (400)
Q Consensus       330 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~  383 (400)
                      +...|++++|..+++.++.+. ..++.+...++-+-...|...+ ..+.+.++..
T Consensus       217 ~l~~~~~eeAe~lL~eaL~kd-~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  217 HLQLGRYEEAESLLEEALDKD-AKDPETLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             HHHhcCHHHHHHHHHHHHhcc-CCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            999999999999999999874 3467777777777777776644 4455666654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.87  E-value=2e-07  Score=67.95  Aligned_cols=104  Identities=9%  Similarity=-0.115  Sum_probs=70.8

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 040367           20 FNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCA   99 (400)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (400)
                      +......+.+.|++++|...|+...... +.+...+..+..++...|++++|...|++....+ +.+...+..+..++..
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-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            4455666777777777777777777664 4466677777777777777777777777777654 3466677777777777


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 040367          100 ESRIMEAAALFTKLRVFGCEPNVFTYN  126 (400)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~~~~~~~~~~  126 (400)
                      .|++++|...|+...+.. +.+...+.
T Consensus       105 ~g~~~eAi~~~~~Al~~~-p~~~~~~~  130 (144)
T PRK15359        105 MGEPGLAREAFQTAIKMS-YADASWSE  130 (144)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHH
Confidence            777777777777776653 22344443

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

Probab=98.86  E-value=2.4e-05  Score=65.94  Aligned_cols=211  Identities=16%  Similarity=0.105  Sum_probs=134.1

Q ss_pred             ccchHHHHHHHHHHHhCC--CCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHH
Q 040367          158 EGFVDKAKELFLQMKDEN--INPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEAS  235 (400)
Q Consensus       158 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  235 (400)
                      ..++.++...-+++...+  -.|+...+...+.+......-..+...+.+..+.  .-...-|.. ...+...|++++|+
T Consensus       250 ~~RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~--~~~aa~YG~-A~~~~~~~~~d~A~  326 (484)
T COG4783         250 EERIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSKR--GGLAAQYGR-ALQTYLAGQYDEAL  326 (484)
T ss_pred             hhHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhCc--cchHHHHHH-HHHHHHhcccchHH
Confidence            445555555555554432  1334444444444333332222222222222221  112222333 33556788899999


Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040367          236 RLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG  315 (400)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  315 (400)
                      ..+..+... .+.|+.........+.+.++..+|.+.++.+.... +......-.+.+++.+.|++.+|+.+++......
T Consensus       327 ~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~-P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~  404 (484)
T COG4783         327 KLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALALD-PNSPLLQLNLAQALLKGGKPQEAIRILNRYLFND  404 (484)
T ss_pred             HHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcC
Confidence            999988775 34466666677788889999999999999998874 3336667778888999999999999998888764


Q ss_pred             CCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHH
Q 040367          316 IKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAY  393 (400)
Q Consensus       316 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  393 (400)
                       +.|+..|..|.++|...|+..++.....+                  .+...|+++.|...+....+. .+++..+|
T Consensus       405 -p~dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A~~~l~~A~~~-~~~~~~~~  462 (484)
T COG4783         405 -PEDPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQAIIFLMRASQQ-VKLGFPDW  462 (484)
T ss_pred             -CCCchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHHHHHHHHHHHh-ccCCcHHH
Confidence             44788899999999988887776654433                  355567777777777766654 24444444

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

Probab=98.85  E-value=2.6e-06  Score=65.75  Aligned_cols=129  Identities=15%  Similarity=0.108  Sum_probs=80.6

Q ss_pred             ChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 040367          179 DVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMD  258 (400)
Q Consensus       179 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  258 (400)
                      |.......+....+.|++..|+..+++..... ++|...|+.+.-+|.+.|+.+.|..-|.+..+.. .-++...+.+..
T Consensus        99 d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgm  176 (257)
T COG5010          99 DRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLGRFDEARRAYRQALELA-PNEPSIANNLGM  176 (257)
T ss_pred             cHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHH
Confidence            44445556666666777777777776666543 5666667766666777777777776666666642 224455666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 040367          259 GFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGE  310 (400)
Q Consensus       259 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  310 (400)
                      .+.-.|+++.|..++......+ .-+..+-..+.......|++++|..+...
T Consensus       177 s~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i~~~  227 (257)
T COG5010         177 SLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDIAVQ  227 (257)
T ss_pred             HHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhhccc
Confidence            6666677777776666666553 33555556666666666666666665543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.85  E-value=7.3e-07  Score=65.04  Aligned_cols=93  Identities=16%  Similarity=0.009  Sum_probs=51.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhC
Q 040367          255 TLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIH  334 (400)
Q Consensus       255 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  334 (400)
                      .+..++...|++++|...|+.+.... +.+...|..+..++...|++++|...|+++...+. .+...+..+..++...|
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p-~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDA-SHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHHcC
Confidence            34455555566666666665555554 34555555555555556666666666665555432 24455555555555556


Q ss_pred             cHHHHHHHHHHHHHc
Q 040367          335 QVERAFKLFDEMQRD  349 (400)
Q Consensus       335 ~~~~a~~~~~~~~~~  349 (400)
                      ++++|...|+..++.
T Consensus       107 ~~~eAi~~~~~Al~~  121 (144)
T PRK15359        107 EPGLAREAFQTAIKM  121 (144)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            666666666555553

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

Probab=98.83  E-value=5.7e-06  Score=76.77  Aligned_cols=131  Identities=8%  Similarity=0.033  Sum_probs=76.0

Q ss_pred             CCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC----
Q 040367           11 RPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPN----   86 (400)
Q Consensus        11 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----   86 (400)
                      ...|.+...|..|+..+...+++++|.++.+...+.. +.....|-.+...+.+.++..++..+  .+...- ..+    
T Consensus        25 ~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~-P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~-~~~~~~~  100 (906)
T PRK14720         25 NYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEH-KKSISALYISGILSLSRRPLNDSNLL--NLIDSF-SQNLKWA  100 (906)
T ss_pred             cCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CcceehHHHHHHHHHhhcchhhhhhh--hhhhhc-ccccchh
Confidence            3345688899999999999999999999999877763 22334444455567777776665554  222221 111    


Q ss_pred             ---------------hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 040367           87 ---------------AVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEE  147 (400)
Q Consensus        87 ---------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  147 (400)
                                     ...+-.+..+|-+.|+.++|..+|+++.+.. +-|+.+.|.+...|... +.++|.+++.+
T Consensus       101 ~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~K  174 (906)
T PRK14720        101 IVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKK  174 (906)
T ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHH
Confidence                           1233344444555555555555555555544 33455555555555555 54444444433

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.82  E-value=5.9e-06  Score=75.75  Aligned_cols=148  Identities=9%  Similarity=-0.032  Sum_probs=109.7

Q ss_pred             CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHH
Q 040367          211 VQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSI  290 (400)
Q Consensus       211 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  290 (400)
                      .+.+...+..|.....+.|.+++|..+++.+.+.. +.+......++.++.+.+++++|....++..... +.+......
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            45567778888888888888888888888888752 2245566677778888888888888888888775 556667777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 040367          291 LINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFI  362 (400)
Q Consensus       291 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  362 (400)
                      +..++.+.|++++|..+|+++...+ +.+..++..+..++...|+.++|...|++..+. ..|....|+.++
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~~~  229 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA-IGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-hCcchHHHHHHH
Confidence            7788888888888888888888743 234677777788888888888888888888776 344455555443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.81  E-value=5.9e-05  Score=64.46  Aligned_cols=375  Identities=15%  Similarity=0.183  Sum_probs=223.2

Q ss_pred             hhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCChhh----HHHHHHH
Q 040367            3 IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCK-MGRVSH----GFVVLGR   77 (400)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~----a~~~~~~   77 (400)
                      .++++...-|.  ++..|..-+....+.++++....+|.+....  ..+...|...++.-.+ .|+...    ..+.|+-
T Consensus        41 ~YEq~~~~FP~--s~r~W~~yi~~El~skdfe~VEkLF~RCLvk--vLnlDLW~lYl~YVR~~~~~~~~~r~~m~qAy~f  116 (656)
T KOG1914|consen   41 TYEQLVNVFPS--SPRAWKLYIERELASKDFESVEKLFSRCLVK--VLNLDLWKLYLSYVRETKGKLFGYREKMVQAYDF  116 (656)
T ss_pred             HHHHHhccCCC--CcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--HhhHhHHHHHHHHHHHHccCcchHHHHHHHHHHH
Confidence            45566655555  7889999999999999999999999999876  3467777777765443 233333    2233333


Q ss_pred             HHh-cCCCC-ChhhHHHHHHH---------HHhcCCHHHHHHHHHHHHHcCCCCCHHHH------HHHHHHH-------H
Q 040367           78 ILR-SCFTP-NAVTFTSLIKG---------LCAESRIMEAAALFTKLRVFGCEPNVFTY------NTLINGL-------Y  133 (400)
Q Consensus        78 ~~~-~~~~~-~~~~~~~l~~~---------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~------~~l~~~~-------~  133 (400)
                      ... .|..+ +...|+..+..         +..+.+++...++|+++....+.-=...|      ..=|+..       -
T Consensus       117 ~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEkLW~DY~~fE~~IN~~tarK~i~e  196 (656)
T KOG1914|consen  117 ALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEKLWKDYEAFEQEINIITARKFIGE  196 (656)
T ss_pred             HHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            332 23322 33445555443         34455777788888888754211111122      1111111       1


Q ss_pred             hcCChHHHHHHHHHHHcC-------CCCCCcccchHH--HHHHHHHHHh---CC-CC-CC--------hHhHHHHH----
Q 040367          134 RTGHTIVALNLFEEMASG-------NGEFGVEGFVDK--AKELFLQMKD---EN-IN-PD--------VVTYTSVI----  187 (400)
Q Consensus       134 ~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~~--a~~~~~~~~~---~~-~~-~~--------~~~~~~l~----  187 (400)
                      +...+-.|.++++++...       .+.....|--++  ..+++...++   .+ +. .+        ..+|...+    
T Consensus       197 ~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL~t~~~~~~~~Rv~yayeQ~ll~l~  276 (656)
T KOG1914|consen  197 RSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPLRTLDGTMLTRRVMYAYEQCLLYLG  276 (656)
T ss_pred             hCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCcccccccHHHHHHHHHHHHHHHHHh
Confidence            223455666666665432       122222222222  2233322222   11 11 00        00111111    


Q ss_pred             -----------------HHHHhcCC-------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC---CChHHHHHHHHH
Q 040367          188 -----------------RGFCYAND-------WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKN---GKMDEASRLLDL  240 (400)
Q Consensus       188 -----------------~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~  240 (400)
                                       +.+...|+       .+++..+++..+..-...+..+|..+...--..   ...+....++++
T Consensus       277 ~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~  356 (656)
T KOG1914|consen  277 YHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNK  356 (656)
T ss_pred             cCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHH
Confidence                             11222232       345555555544332222333333333211111   135566667777


Q ss_pred             HHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc
Q 040367          241 MIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTH-TVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPD  319 (400)
Q Consensus       241 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  319 (400)
                      .+......-..+|..+++.-.+....+.|..+|.++.+.+..+ ++.+.++++..|+ .++.+-|.++|+--.++ +..+
T Consensus       357 ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk-f~d~  434 (656)
T KOG1914|consen  357 LLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK-FGDS  434 (656)
T ss_pred             HHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh-cCCC
Confidence            6665333334577788888889999999999999999877666 7778888888766 57889999999977665 2334


Q ss_pred             hhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          320 VVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAAD--TWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       320 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      +......+..+...++-..+..+|++....++.|+  ...|..++.--..-|+...++++-+++..
T Consensus       435 p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  435 PEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             hHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            55556778888899999999999999998866655  57899999988899999999998888763

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.81  E-value=7.5e-06  Score=74.67  Aligned_cols=370  Identities=13%  Similarity=0.091  Sum_probs=219.0

Q ss_pred             hhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 040367            3 IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGL-FPDLYTYNILINCFCKMGRVSHGFVVLGRILRS   81 (400)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (400)
                      .|+...+-++.  +..++....+.|++..+++.|..+.-...+... ..-..-|....-.|...++...|..-|+...+.
T Consensus       514 Cf~KAFeLDat--daeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~  591 (1238)
T KOG1127|consen  514 CFDKAFELDAT--DAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRT  591 (1238)
T ss_pred             HHHHHhcCCch--hhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcC
Confidence            56667777766  888999999999999999999988443333210 001122333455667788899999999998887


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc---
Q 040367           82 CFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPN-VFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV---  157 (400)
Q Consensus        82 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---  157 (400)
                      . +.|...|..++.+|.+.|++..|.++|.+....  .|+ ...-.......+..|.+.+|+..+..+...-..+..   
T Consensus       592 d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~  668 (1238)
T KOG1127|consen  592 D-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQN  668 (1238)
T ss_pred             C-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhh
Confidence            6 347888999999999999999999999887765  343 333333344456678888888877776543211110   


Q ss_pred             ---------------cc-------chHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHH--H----HHHHH-HHHHh
Q 040367          158 ---------------EG-------FVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWN--E----AKCLL-IEMMD  208 (400)
Q Consensus       158 ---------------~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~----a~~~~-~~~~~  208 (400)
                                     .|       .++.+++.|.-........+...|-.+..+|.-.-..+  .    ...++ .+...
T Consensus       669 gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~  748 (1238)
T KOG1127|consen  669 GLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEK  748 (1238)
T ss_pred             hHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHh
Confidence                           22       23333333333333322223333433333322111111  0    00011 11111


Q ss_pred             CCC--------------------CCCHHHHHHHHHHHHh----CC----ChHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 040367          209 QGV--------------------QPNVVTFNVIMDELCK----NG----KMDEASRLLDLMIQIGVRPNAFVYNTLMDGF  260 (400)
Q Consensus       209 ~~~--------------------~~~~~~~~~l~~~~~~----~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  260 (400)
                      .+.                    ..+..+|..+...|.+    .+    +...|...+.+.++.. ..+..+++.|.-+ 
T Consensus       749 ~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~-ann~~~WnaLGVl-  826 (1238)
T KOG1127|consen  749 TGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLC-ANNEGLWNALGVL-  826 (1238)
T ss_pred             cccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHh-hccHHHHHHHHHh-
Confidence            111                    1123344444444433    11    2346777777776652 2245566655544 


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHH
Q 040367          261 CLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAF  340 (400)
Q Consensus       261 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  340 (400)
                      ...|++.-|.-.|-+-.... +....+|..+...+.+..+++-|...|.......+ .|...|-.........|+.-++.
T Consensus       827 sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLdP-~nl~~WlG~Ali~eavG~ii~~~  904 (1238)
T KOG1127|consen  827 SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLDP-LNLVQWLGEALIPEAVGRIIERL  904 (1238)
T ss_pred             hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcCc-hhhHHHHHHHHhHHHHHHHHHHH
Confidence            66688888888887776654 55677888888889999999999999998887643 35666665555556778888888


Q ss_pred             HHHHHHH----HcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 040367          341 KLFDEMQ----RDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTL  381 (400)
Q Consensus       341 ~~~~~~~----~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  381 (400)
                      .+|..-.    ..|-.|+..-|-....-...+|+.++-+...+.+
T Consensus       905 ~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki  949 (1238)
T KOG1127|consen  905 ILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKI  949 (1238)
T ss_pred             HHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhh
Confidence            8886622    1233444444444444445566665555444443

>PF12854 PPR_1: PPR repeat

Probab=98.80  E-value=9.4e-09  Score=53.40  Aligned_cols=32  Identities=47%  Similarity=0.788  Sum_probs=21.6

Q ss_pred             CCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 040367          350 GVAADTWTYRTFIDGLCKNSYIVEAVELFRTL  381 (400)
Q Consensus       350 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  381 (400)
                      |+.||..+|+.|+.+|++.|++++|.++|++|
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            55666666666666666666666666666665

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

Probab=98.78  E-value=4.4e-07  Score=65.93  Aligned_cols=110  Identities=13%  Similarity=0.052  Sum_probs=77.0

Q ss_pred             hhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcC
Q 040367            3 IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSC   82 (400)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   82 (400)
                      .|+.++...|.  +......+...+.+.|++++|...|+.+...+ +.+...+..+...+...|++++|...++...+.+
T Consensus         5 ~~~~~l~~~p~--~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~   81 (135)
T TIGR02552         5 TLKDLLGLDSE--QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD   81 (135)
T ss_pred             hHHHHHcCChh--hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            45566666555  55556666777777777888887777776654 4466777777777777777777777777776654


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 040367           83 FTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        83 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (400)
                       +.+...+..+..++...|++++|...|+...+.
T Consensus        82 -p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        82 -PDDPRPYFHAAECLLALGEPESALKALDLAIEI  114 (135)
T ss_pred             -CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             345666666777777777777777777777765

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

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.78  E-value=6.6e-05  Score=69.01  Aligned_cols=338  Identities=14%  Similarity=0.116  Sum_probs=191.6

Q ss_pred             hhHHHHhcCCC-CCChhhHHHHHHHHhccCChhHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 040367            3 IFDYMLNMRPS-PPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTG--LFPDLYTYNILINCFCKMGRVSHGFVVLGRIL   79 (400)
Q Consensus         3 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   79 (400)
                      +.|.+++.... ..|+..-+..+.++...+-+.+-+++++++.-.+  +..+...-+.++-...+ -+..+..+..+++.
T Consensus       969 LiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAik-ad~trVm~YI~rLd 1047 (1666)
T KOG0985|consen  969 LIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIK-ADRTRVMEYINRLD 1047 (1666)
T ss_pred             HHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhh-cChHHHHHHHHHhc
Confidence            34455544332 3466777888999999999999999999987542  12233334444444333 34556666666665


Q ss_pred             hcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCC-----
Q 040367           80 RSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGE-----  154 (400)
Q Consensus        80 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----  154 (400)
                      ..+ .|+      +...+..++-+++|..+|++..     .+....+.|+.   ..+..+.|.++-++..+....     
T Consensus      1048 nyD-a~~------ia~iai~~~LyEEAF~ifkkf~-----~n~~A~~VLie---~i~~ldRA~efAe~~n~p~vWsqlak 1112 (1666)
T KOG0985|consen 1048 NYD-APD------IAEIAIENQLYEEAFAIFKKFD-----MNVSAIQVLIE---NIGSLDRAYEFAERCNEPAVWSQLAK 1112 (1666)
T ss_pred             cCC-chh------HHHHHhhhhHHHHHHHHHHHhc-----ccHHHHHHHHH---HhhhHHHHHHHHHhhCChHHHHHHHH
Confidence            443 222      2333445556666666665532     23333333332   122223333222222110000     


Q ss_pred             -CCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHH
Q 040367          155 -FGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDE  233 (400)
Q Consensus       155 -~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  233 (400)
                       .-..|...+|++.|-+      ..|+..|..++....+.|.|++-.+++....+....|..  =+.++-+|++.++..+
T Consensus      1113 AQL~~~~v~dAieSyik------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyAkt~rl~e 1184 (1666)
T KOG0985|consen 1113 AQLQGGLVKDAIESYIK------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYAKTNRLTE 1184 (1666)
T ss_pred             HHHhcCchHHHHHHHHh------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHHHhchHHH
Confidence             0001223344433322      126678999999999999999999998888776544443  3567788999888887


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH--
Q 040367          234 ASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEM--  311 (400)
Q Consensus       234 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--  311 (400)
                      .++.+.       -|+......+.+-|...+.++.|.-+|..+.         .|..|...+...|+++.|...-+++  
T Consensus      1185 lE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vS---------N~a~La~TLV~LgeyQ~AVD~aRKAns 1248 (1666)
T KOG0985|consen 1185 LEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSNVS---------NFAKLASTLVYLGEYQGAVDAARKANS 1248 (1666)
T ss_pred             HHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHHhh---------hHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence            666542       4566666667777777777777766665432         2455555555555555554433322  


Q ss_pred             ----------------------HhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 040367          312 ----------------------LSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNS  369 (400)
Q Consensus       312 ----------------------~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  369 (400)
                                            ...++.....-..-++..|-..|-+++.+.+++..... -.-..-.|+.|.-.|.+- 
T Consensus      1249 ~ktWK~VcfaCvd~~EFrlAQiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGL-ERAHMgmfTELaiLYsky- 1326 (1666)
T KOG0985|consen 1249 TKTWKEVCFACVDKEEFRLAQICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGL-ERAHMGMFTELAILYSKY- 1326 (1666)
T ss_pred             hhHHHHHHHHHhchhhhhHHHhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhch-hHHHHHHHHHHHHHHHhc-
Confidence                                  11122223344456677777778888888777776543 122455677777666554 


Q ss_pred             cHHHHHHHHHHHH
Q 040367          370 YIVEAVELFRTLR  382 (400)
Q Consensus       370 ~~~~a~~~~~~~~  382 (400)
                      ++++..+.++..-
T Consensus      1327 kp~km~EHl~LFw 1339 (1666)
T KOG0985|consen 1327 KPEKMMEHLKLFW 1339 (1666)
T ss_pred             CHHHHHHHHHHHH
Confidence            4566666665554

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.78  E-value=3.7e-06  Score=77.01  Aligned_cols=182  Identities=8%  Similarity=0.053  Sum_probs=139.2

Q ss_pred             CCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHH
Q 040367          176 INPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNT  255 (400)
Q Consensus       176 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  255 (400)
                      ++.+...+..|..+..+.|.+++|..+++...+.. +.+......+...+.+.+++++|+...++..... +.+......
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            45678899999999999999999999999999863 4455677788889999999999999999999874 336777888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCc
Q 040367          256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQ  335 (400)
Q Consensus       256 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  335 (400)
                      +..++.+.|++++|..+|+++...+ +.+...+..+..++...|+.++|...|++..+.. .+....|+.++      ++
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~------~~  231 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRL------VD  231 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHH------HH
Confidence            8889999999999999999999843 4568889999999999999999999999998862 33344444433      34


Q ss_pred             HHHHHHHHHHHHHc----CCCCCHHHHHHHHHHHHh
Q 040367          336 VERAFKLFDEMQRD----GVAADTWTYRTFIDGLCK  367 (400)
Q Consensus       336 ~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~  367 (400)
                      ...-...++++.-.    |...........+..|.+
T Consensus       232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  267 (694)
T PRK15179        232 LNADLAALRRLGVEGDGRDVPVSILVLEKMLQEIGR  267 (694)
T ss_pred             HHHHHHHHHHcCcccccCCCceeeeeHHHHHHHHhh
Confidence            44445555555433    233334445555555543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.75  E-value=1.7e-05  Score=70.30  Aligned_cols=54  Identities=15%  Similarity=0.040  Sum_probs=32.0

Q ss_pred             HHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          327 FVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       327 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      +..|-+.|..+..+++.++-...   .-..|...+..-+...|+.+.|...|-+.-+
T Consensus       857 iqmydk~~~~ddmirlv~k~h~d---~l~dt~~~f~~e~e~~g~lkaae~~flea~d  910 (1636)
T KOG3616|consen  857 IQMYDKHGLDDDMIRLVEKHHGD---HLHDTHKHFAKELEAEGDLKAAEEHFLEAGD  910 (1636)
T ss_pred             HHHHHhhCcchHHHHHHHHhChh---hhhHHHHHHHHHHHhccChhHHHHHHHhhhh
Confidence            34444444444444444332211   1245566777888889999999888776654

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

Probab=98.75  E-value=6.4e-07  Score=65.05  Aligned_cols=94  Identities=20%  Similarity=0.141  Sum_probs=44.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE  332 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  332 (400)
                      ...+...+...|++++|...++.+...+ +.+...+..+...+...|++++|...++...+.+ +.+...+..+..++..
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~   97 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLA   97 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHH
Confidence            3344444444555555555555544433 3344444444445555555555555555444432 2233344444444445


Q ss_pred             hCcHHHHHHHHHHHHH
Q 040367          333 IHQVERAFKLFDEMQR  348 (400)
Q Consensus       333 ~~~~~~a~~~~~~~~~  348 (400)
                      .|++++|...|+...+
T Consensus        98 ~g~~~~A~~~~~~al~  113 (135)
T TIGR02552        98 LGEPESALKALDLAIE  113 (135)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555544444

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

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.75  E-value=1.5e-05  Score=70.70  Aligned_cols=162  Identities=17%  Similarity=0.165  Sum_probs=101.5

Q ss_pred             chHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHH
Q 040367          160 FVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLD  239 (400)
Q Consensus       160 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  239 (400)
                      .+.+|+.+++.+.+.+  .-..-|..+..-|+..|+++.|.++|-+.-         .++..+.+|.+.|+++.|.++-.
T Consensus       747 ew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~  815 (1636)
T KOG3616|consen  747 EWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAE  815 (1636)
T ss_pred             hhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHH
Confidence            3667777777776653  223356667778888888888888875432         34556778888888888887766


Q ss_pred             HHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc
Q 040367          240 LMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPD  319 (400)
Q Consensus       240 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  319 (400)
                      +..  |.......|-.-..-.-..|++.+|.++|-.+.    .|+     ..|++|-+.|..+..+++..+-.-..   -
T Consensus       816 e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k~h~d~---l  881 (1636)
T KOG3616|consen  816 ECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEKHHGDH---L  881 (1636)
T ss_pred             Hhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHHhChhh---h
Confidence            653  334445555555555667778888777765543    343     34667777777777776655432211   1


Q ss_pred             hhhHHHHHHHHHhhCcHHHHHHHHHHH
Q 040367          320 VVIYNTLFVVLFEIHQVERAFKLFDEM  346 (400)
Q Consensus       320 ~~~~~~l~~~~~~~~~~~~a~~~~~~~  346 (400)
                      ..|...+..-+-..|+...|.+.|-++
T Consensus       882 ~dt~~~f~~e~e~~g~lkaae~~flea  908 (1636)
T KOG3616|consen  882 HDTHKHFAKELEAEGDLKAAEEHFLEA  908 (1636)
T ss_pred             hHHHHHHHHHHHhccChhHHHHHHHhh
Confidence            234445555666667777776665443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.72  E-value=4.9e-05  Score=58.53  Aligned_cols=188  Identities=13%  Similarity=0.126  Sum_probs=126.3

Q ss_pred             CCHHHHHHHHHHHHHc---C-CCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCC
Q 040367          101 SRIMEAAALFTKLRVF---G-CEPNVF-TYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDEN  175 (400)
Q Consensus       101 ~~~~~a~~~~~~~~~~---~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  175 (400)
                      .+.++..+++.++...   | ..++.. .|..++-+....|+.+.|..+++++.                       +. 
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~-----------------------~~-   81 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLR-----------------------DR-   81 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHH-----------------------Hh-
Confidence            4566777777666543   2 344443 34556666667777555555554443                       32 


Q ss_pred             CCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHH
Q 040367          176 INPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNT  255 (400)
Q Consensus       176 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  255 (400)
                      +|.+...-..-.-.+-..|++++|+++++.+++.+ +.|..++..-+...-..|+.-+|++-+....+. +..|...|.-
T Consensus        82 fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~e  159 (289)
T KOG3060|consen   82 FPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHE  159 (289)
T ss_pred             CCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHH
Confidence            22233322222233556788999999999988875 556777776666666777777888888877776 5668889999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC---CHHHHHHHHHHHHhCC
Q 040367          256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNK---EIEGALSLYGEMLSKG  315 (400)
Q Consensus       256 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~  315 (400)
                      +...|...|++++|.-.++++.-.. |.++..+..+...+.-.|   +.+.+.++|.+.++..
T Consensus       160 LaeiY~~~~~f~kA~fClEE~ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  160 LAEIYLSEGDFEKAAFCLEELLLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHHHHHhHhHHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999999888665 556666666666554443   5667888888888764

>PF12854 PPR_1: PPR repeat

Probab=98.69  E-value=3.1e-08  Score=51.44  Aligned_cols=32  Identities=47%  Similarity=0.730  Sum_probs=17.7

Q ss_pred             CCCCChHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 040367          175 NINPDVVTYTSVIRGFCYANDWNEAKCLLIEM  206 (400)
Q Consensus       175 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  206 (400)
                      |++||..+|+.++.+|++.|++++|.++|++|
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            34555555555555555555555555555554

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.69  E-value=6.6e-05  Score=57.84  Aligned_cols=187  Identities=13%  Similarity=0.078  Sum_probs=136.9

Q ss_pred             cchHHHHHHHHHHHhC---C-CCCChHh-HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHH
Q 040367          159 GFVDKAKELFLQMKDE---N-INPDVVT-YTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDE  233 (400)
Q Consensus       159 ~~~~~a~~~~~~~~~~---~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  233 (400)
                      .+.++.++++.++...   | ..++..+ |..++-+....|+.+.|...++++.+. ++-+..+-..-.--+-..|++++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchhh
Confidence            5578888888877543   3 4455443 455666777889999999999998876 34344443333334566899999


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          234 ASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       234 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  313 (400)
                      |.++++.+++.+ +.|..++..=+...-..|+.-+|++-+....+.- ..|...|..+...|...|++++|.-.+++++-
T Consensus       105 A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F-~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  105 AIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKF-MNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHh-cCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            999999998875 4466667666666777888888888888887764 67899999999999999999999999999987


Q ss_pred             CCCCCchhhHHHHHHHHHh---hCcHHHHHHHHHHHHHc
Q 040367          314 KGIKPDVVIYNTLFVVLFE---IHQVERAFKLFDEMQRD  349 (400)
Q Consensus       314 ~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~  349 (400)
                      .. |.++..+..+...+.-   ..+...+.+++.+..+.
T Consensus       183 ~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  183 IQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             cC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            64 2355555666655443   44567789999998875

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

Probab=98.65  E-value=1.3e-05  Score=71.75  Aligned_cols=84  Identities=18%  Similarity=0.190  Sum_probs=53.8

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 040367          284 TVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFID  363 (400)
Q Consensus       284 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  363 (400)
                      +...|....+.....|+.+.|+.+|..+.+         |-.+++..+-.|+.++|.++-++-      -|...-..|.+
T Consensus       911 d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~es------gd~AAcYhlaR  975 (1416)
T KOG3617|consen  911 DESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEES------GDKAACYHLAR  975 (1416)
T ss_pred             chHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhc------ccHHHHHHHHH
Confidence            445666667666777888888887776654         334555555667777777665442      14444455667


Q ss_pred             HHHhcCcHHHHHHHHHHHH
Q 040367          364 GLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       364 ~~~~~g~~~~a~~~~~~~~  382 (400)
                      .|...|++.+|+..|-+..
T Consensus       976 ~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  976 MYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             HhhhhHHHHHHHHHHHHHH
Confidence            7777777777777766654

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=98.61  E-value=0.00023  Score=59.69  Aligned_cols=362  Identities=13%  Similarity=0.114  Sum_probs=206.4

Q ss_pred             hcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChh
Q 040367            9 NMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAV   88 (400)
Q Consensus         9 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   88 (400)
                      +.+|  .|..+|..|+..+..+|.+++..+++++|..- ++-=..+|...+.+-...+++.....+|.+.+..  ..+..
T Consensus        36 kdNP--tnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k--~l~ld  110 (660)
T COG5107          36 KDNP--TNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKK--SLNLD  110 (660)
T ss_pred             hcCc--hhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhh--hccHh
Confidence            4444  49999999999999999999999999999864 2434667888888888888999999999988876  34566


Q ss_pred             hHHHHHHHHHhcCCH------HHHHHHHHHHHH-cCCCC-CHHHHHHHHHHHH---------hcCChHHHHHHHHHHHcC
Q 040367           89 TFTSLIKGLCAESRI------MEAAALFTKLRV-FGCEP-NVFTYNTLINGLY---------RTGHTIVALNLFEEMASG  151 (400)
Q Consensus        89 ~~~~l~~~~~~~~~~------~~a~~~~~~~~~-~~~~~-~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~~  151 (400)
                      .|...+.--.+.+..      ....+.|+-... .++.| +...|+..+..+.         .+.+.+.....+.+++..
T Consensus       111 LW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~ral~t  190 (660)
T COG5107         111 LWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMRALQT  190 (660)
T ss_pred             HHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHcC
Confidence            666655543332211      111222332222 23333 3334444333221         122334444455555433


Q ss_pred             CCCCCc-------------------------ccchHHHHHHHHHHHh--CCC----------------------------
Q 040367          152 NGEFGV-------------------------EGFVDKAKELFLQMKD--ENI----------------------------  176 (400)
Q Consensus       152 ~~~~~~-------------------------~~~~~~a~~~~~~~~~--~~~----------------------------  176 (400)
                      ....-.                         ..-+..|...++++..  .|+                            
T Consensus       191 P~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~WlNwIkw  270 (660)
T COG5107         191 PMGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNWLNWIKW  270 (660)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchhhhHhhH
Confidence            211000                         1112233333333221  111                            


Q ss_pred             ----------------------------CCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHHh
Q 040367          177 ----------------------------NPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIM-DELCK  227 (400)
Q Consensus       177 ----------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~~  227 (400)
                                                  +.....|--.-..+...++-+.|..........  .|+   ....+ ..|.-
T Consensus       271 E~en~l~L~~~~~~qRi~y~~~q~~~y~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~--sps---L~~~lse~yel  345 (660)
T COG5107         271 EMENGLKLGGRPHEQRIHYIHNQILDYFYYAEEVWFDYSEYLIGISDKQKALKTVERGIEM--SPS---LTMFLSEYYEL  345 (660)
T ss_pred             hhcCCcccCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccC--CCc---hheeHHHHHhh
Confidence                                        001111111111222334444444444433221  222   11111 22222


Q ss_pred             CCChHHHHHHHHHHHHc--------------CC---------------CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          228 NGKMDEASRLLDLMIQI--------------GV---------------RPNAFVYNTLMDGFCLTGRVNRAKELFVSMES  278 (400)
Q Consensus       228 ~~~~~~a~~~~~~~~~~--------------~~---------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  278 (400)
                      .++-+.....|+...+.              +.               ..-..+|...+++-.+....+.|..+|.+..+
T Consensus       346 ~nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk  425 (660)
T COG5107         346 VNDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAARKLFIKLRK  425 (660)
T ss_pred             cccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHHhc
Confidence            23333222222222110              11               01123566677777788889999999999988


Q ss_pred             cC-CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCC--H
Q 040367          279 MG-CTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAAD--T  355 (400)
Q Consensus       279 ~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~  355 (400)
                      .+ ..+++..+++++..++ .|++.-|..+|+--..+ ++.+....+..+..+...++-+.|..+|+..... +..+  .
T Consensus       426 ~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~-f~d~~~y~~kyl~fLi~inde~naraLFetsv~r-~~~~q~k  502 (660)
T COG5107         426 EGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK-FPDSTLYKEKYLLFLIRINDEENARALFETSVER-LEKTQLK  502 (660)
T ss_pred             cCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh-CCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHH-HHHhhhh
Confidence            87 5678888899888665 57888999999876665 2223333456677778899999999999976654 3323  5


Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          356 WTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       356 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      ..|..++.--..-|+...+..+=++|.+
T Consensus       503 ~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         503 RIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            6788888888888999888888888875

>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=98.59  E-value=4.3e-06  Score=70.85  Aligned_cols=125  Identities=18%  Similarity=0.157  Sum_probs=81.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHH
Q 040367          252 VYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLF  331 (400)
Q Consensus       252 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  331 (400)
                      ....|+..+...++++.|..+++++.+..  |+  ....+++.+...++-.+|.+++.+.++.. +.+...+......+.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            34455566666677777777777777553  33  34456666666677777777777777543 224555555566677


Q ss_pred             hhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          332 EIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       332 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                      +.++++.|+.+.+++.+. .+.+..+|..|..+|.+.|+++.|+-.++.+.
T Consensus       246 ~k~~~~lAL~iAk~av~l-sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVEL-SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHh-CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            777777777777777765 23345677777777777777777777777665

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

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

Probab=98.58  E-value=2.3e-05  Score=66.14  Aligned_cols=140  Identities=14%  Similarity=0.124  Sum_probs=100.0

Q ss_pred             HHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCh
Q 040367           60 NCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPN-VFTYNTLINGLYRTGHT  138 (400)
Q Consensus        60 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~  138 (400)
                      -.+...|+++.|+..++.++..- +.|...+....+.+.+.++..+|.+.++++...  .|+ ......+..++.+.|++
T Consensus       314 ~~~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~  390 (484)
T COG4783         314 LQTYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKP  390 (484)
T ss_pred             HHHHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCCh
Confidence            34456788888888888887763 345556666668888888888888888888876  444 66677788888888886


Q ss_pred             HHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 040367          139 IVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTF  218 (400)
Q Consensus       139 ~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  218 (400)
                      .+|+.+++....                       . .+.|+..|..|..+|...|+..++..-.-              
T Consensus       391 ~eai~~L~~~~~-----------------------~-~p~dp~~w~~LAqay~~~g~~~~a~~A~A--------------  432 (484)
T COG4783         391 QEAIRILNRYLF-----------------------N-DPEDPNGWDLLAQAYAELGNRAEALLARA--------------  432 (484)
T ss_pred             HHHHHHHHHHhh-----------------------c-CCCCchHHHHHHHHHHHhCchHHHHHHHH--------------
Confidence            666555555433                       2 25577788888888888888777654433              


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHc
Q 040367          219 NVIMDELCKNGKMDEASRLLDLMIQI  244 (400)
Q Consensus       219 ~~l~~~~~~~~~~~~a~~~~~~~~~~  244 (400)
                          ..+...|++++|...+....+.
T Consensus       433 ----E~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         433 ----EGYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             ----HHHHhCCCHHHHHHHHHHHHHh
Confidence                3455677788887777777665

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.55  E-value=1e-05  Score=59.31  Aligned_cols=126  Identities=12%  Similarity=0.144  Sum_probs=78.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCch--hhHHHH
Q 040367          252 VYNTLMDGFCLTGRVNRAKELFVSMESMGCTHT---VFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDV--VIYNTL  326 (400)
Q Consensus       252 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l  326 (400)
                      .|..++..+ ..++...+...++.+.+.. +.+   ....-.+...+...|++++|...|+........|+.  .....+
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            344444444 3677777777777777653 222   122333456667778888888888877776533322  233445


Q ss_pred             HHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 040367          327 FVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTL  381 (400)
Q Consensus       327 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  381 (400)
                      ...+...|++++|+..++.....  ......+....+.+.+.|++++|...|+..
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            66777778888888877664332  223455666777788888888888877654

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.48  E-value=2.2e-05  Score=57.50  Aligned_cols=124  Identities=14%  Similarity=0.181  Sum_probs=63.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC--HHhHHHHH
Q 040367          183 YTSVIRGFCYANDWNEAKCLLIEMMDQGVQPN---VVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPN--AFVYNTLM  257 (400)
Q Consensus       183 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~  257 (400)
                      |..++..+ ..++...+...++.+.+.. +.+   ....-.+...+...|++++|...|+.+......++  ......+.
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            33344333 3566666666666665542 222   12222344455666666666666666666542221  12233345


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 040367          258 DGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGE  310 (400)
Q Consensus       258 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  310 (400)
                      ..+...|++++|...++.....  ......+......+...|++++|...|+.
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            5566666666666666553322  22334455555666666666666666654

>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=98.45  E-value=1.5e-05  Score=67.70  Aligned_cols=125  Identities=14%  Similarity=0.135  Sum_probs=80.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHh
Q 040367          183 YTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCL  262 (400)
Q Consensus       183 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  262 (400)
                      ...++..+...++++.|+.+++++.+..  |+  ....++..+...++..+|.+++++.++.. +.+......-...+.+
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHh
Confidence            3445556666677777777777777653  33  33345666666667777777777776542 3345555555666677


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          263 TGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       263 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  313 (400)
                      .++++.|..+.+++.... |.+..+|..|..+|...|+++.|+..+..+..
T Consensus       247 k~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             cCCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            777777777777777664 44555777777777777777777776665554

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=98.41  E-value=1.3e-05  Score=65.98  Aligned_cols=283  Identities=15%  Similarity=0.071  Sum_probs=176.1

Q ss_pred             HHHHhccCChhHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChhhHHHHHHHHHh----cCCC-CChhhHHHHH
Q 040367           24 FGCLAKNKHYDTVLSLFKRLNSTGLFPDL----YTYNILINCFCKMGRVSHGFVVLGRILR----SCFT-PNAVTFTSLI   94 (400)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~-~~~~~~~~l~   94 (400)
                      ..-+++.|+....+.+|+...+.|-. |.    .+|..|.++|.-.+++++|++....=+-    .|-+ -...+...|.
T Consensus        24 GERLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLG  102 (639)
T KOG1130|consen   24 GERLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLG  102 (639)
T ss_pred             HHHHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhcccccccccc
Confidence            34689999999999999999998833 43    4577888889999999999887643211    1111 1122333455


Q ss_pred             HHHHhcCCHHHHHHHHHHH----HHcCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCC-CCCcccchHHHHHHH
Q 040367           95 KGLCAESRIMEAAALFTKL----RVFGC-EPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNG-EFGVEGFVDKAKELF  168 (400)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~----~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~a~~~~  168 (400)
                      ..+--.|.+++|...-.+-    .+.|- ......+..+...|...|..-....-    ...+. .-.....++.|.+.|
T Consensus       103 NtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~p----ee~g~f~~ev~~al~~Av~fy  178 (639)
T KOG1130|consen  103 NTLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAP----EEKGAFNAEVTSALENAVKFY  178 (639)
T ss_pred             chhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCCh----hhcccccHHHHHHHHHHHHHH
Confidence            5566677888877654332    22221 12445667777777776642100000    00000 000011234444444


Q ss_pred             HH-------HHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHH----hCCC-CCCHHHHHHHHHHHHhCCChHHHHH
Q 040367          169 LQ-------MKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMM----DQGV-QPNVVTFNVIMDELCKNGKMDEASR  236 (400)
Q Consensus       169 ~~-------~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~  236 (400)
                      ..       +.+..  .-..+|..|...|.-.|+++.|+...+.-+    +-|- ......+..+.+++.-.|+++.|.+
T Consensus       179 ~eNL~l~~~lgDr~--aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~e  256 (639)
T KOG1130|consen  179 MENLELSEKLGDRL--AQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIE  256 (639)
T ss_pred             HHHHHHHHHhhhHH--hhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHH
Confidence            33       22221  224567778888888899999988776533    2231 2234578888999999999999999


Q ss_pred             HHHHHHHc----CC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhc-----CCCCChhhHHHHHHHHHhcCCHHHHHH
Q 040367          237 LLDLMIQI----GV-RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESM-----GCTHTVFSYSILINGYCKNKEIEGALS  306 (400)
Q Consensus       237 ~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~  306 (400)
                      .|+.....    |- ........+|.++|.-..++++|+..+.+-...     +.--....+-+|..+|...|..++|+.
T Consensus       257 hYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~  336 (639)
T KOG1130|consen  257 HYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALY  336 (639)
T ss_pred             HHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHH
Confidence            88765432    21 223456678889998888999999888764321     112245667789999999999999988


Q ss_pred             HHHHHHh
Q 040367          307 LYGEMLS  313 (400)
Q Consensus       307 ~~~~~~~  313 (400)
                      +...-++
T Consensus       337 fae~hl~  343 (639)
T KOG1130|consen  337 FAELHLR  343 (639)
T ss_pred             HHHHHHH
Confidence            8776554

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.36  E-value=2.2e-05  Score=64.36  Aligned_cols=129  Identities=12%  Similarity=0.080  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHh-cCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 040367          217 TFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCL-TGRVNRAKELFVSMESMGCTHTVFSYSILINGY  295 (400)
Q Consensus       217 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  295 (400)
                      +|..++...-+.+..+.|..+|.++.+.+ ..+..+|......-.. .++.+.|..+|+...+.- +.+...|...+..+
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-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF-PSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH-TT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
Confidence            44455555555555555555555555321 1223333333333222 344444555555555432 33444555555555


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCch---hhHHHHHHHHHhhCcHHHHHHHHHHHHH
Q 040367          296 CKNKEIEGALSLYGEMLSKGIKPDV---VIYNTLFVVLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       296 ~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~  348 (400)
                      ...++.+.|..+|++.+.. +.++.   ..|...+..-.+.|+.+.+.++.+++.+
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            5555555555555555543 22221   2455555555555555555555555544

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.33  E-value=9.4e-07  Score=46.72  Aligned_cols=33  Identities=48%  Similarity=0.738  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHhcccch
Q 040367          357 TYRTFIDGLCKNSYIVEAVELFRTLRILKCELD  389 (400)
Q Consensus       357 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  389 (400)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            466666666666666666666666666666665

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.32  E-value=1.2e-06  Score=46.28  Aligned_cols=33  Identities=33%  Similarity=0.584  Sum_probs=27.2

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhCCCCCC
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPD   51 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   51 (400)
                      +||.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            688888888888888888888888888888776

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.32  E-value=1.2e-06  Score=45.96  Aligned_cols=33  Identities=30%  Similarity=0.524  Sum_probs=26.5

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHhCCCCC
Q 040367           18 CSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFP   50 (400)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   50 (400)
                      .+|+.++.++.+.|+++.|.++|+.|.+.|++|
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            578888888888888888888888888877766

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.31  E-value=1.5e-06  Score=45.53  Aligned_cols=33  Identities=18%  Similarity=0.253  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccc
Q 040367          356 WTYRTFIDGLCKNSYIVEAVELFRTLRILKCEL  388 (400)
Q Consensus       356 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  388 (400)
                      .+|+.++.+|.+.|+++.|.++|+.|.+.|++|
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            356777777777777777777777777766665

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.28  E-value=1.8e-05  Score=67.54  Aligned_cols=124  Identities=13%  Similarity=0.082  Sum_probs=99.0

Q ss_pred             CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhh
Q 040367          245 GVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESM--GCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVI  322 (400)
Q Consensus       245 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  322 (400)
                      +.+.+......+++.+....+.+.+..++.+....  ....-..+..++++.|...|..+.++++++.=...|+-||..+
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            44557777788888888888888898888888764  2223345567899999999999999999998888899999999


Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 040367          323 YNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKN  368 (400)
Q Consensus       323 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  368 (400)
                      ++.|+..+.+.|++..|.++...|...+...+..++..-+.+|.+-
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            9999999999999999999998888776666667766666666655

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.27  E-value=3.1e-05  Score=66.08  Aligned_cols=125  Identities=12%  Similarity=0.133  Sum_probs=106.4

Q ss_pred             CCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHc--CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChh
Q 040367          209 QGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQI--GVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVF  286 (400)
Q Consensus       209 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  286 (400)
                      .+.+.+......+++.+....+.+.+..++.+....  ....-+.+..++++.|...|..+.+..+++.=...|+-||..
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            345677888888999998889999999999998876  222334566799999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhh
Q 040367          287 SYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEI  333 (400)
Q Consensus       287 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  333 (400)
                      +++.|+..+.+.|++..|.++...|...+...+..|+...+.+|.+.
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            99999999999999999999999998877777777777766666655

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 [].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.24  E-value=0.00079  Score=55.93  Aligned_cols=262  Identities=15%  Similarity=0.068  Sum_probs=136.8

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC
Q 040367           22 ILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAES  101 (400)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (400)
                      .....+.+..++..|+..+....+.. +.+...|..-...+...|++++|.--.+.-.+.... ......-.-+++...+
T Consensus        54 ~~gn~~yk~k~Y~nal~~yt~Ai~~~-pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~-~~k~~~r~~~c~~a~~  131 (486)
T KOG0550|consen   54 EEGNAFYKQKTYGNALKNYTFAIDMC-PDNASYYSNRAATLMMLGRFEEALGDARQSVRLKDG-FSKGQLREGQCHLALS  131 (486)
T ss_pred             hhcchHHHHhhHHHHHHHHHHHHHhC-ccchhhhchhHHHHHHHHhHhhcccchhhheecCCC-ccccccchhhhhhhhH
Confidence            33445566677777888887777765 335556666666777777777776666555443211 1112222333333444


Q ss_pred             CHHHHHHHHHHHH---------------HcCC-CCCHHHHHHHH-HHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHH
Q 040367          102 RIMEAAALFTKLR---------------VFGC-EPNVFTYNTLI-NGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKA  164 (400)
Q Consensus       102 ~~~~a~~~~~~~~---------------~~~~-~~~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a  164 (400)
                      +..+|.+.++.-.               .... +|.-..+..+- .++...|+                       .++|
T Consensus       132 ~~i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~-----------------------~~~a  188 (486)
T KOG0550|consen  132 DLIEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGD-----------------------YDEA  188 (486)
T ss_pred             HHHHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhccc-----------------------chhH
Confidence            4444443333111               0000 11112222211 12333344                       4444


Q ss_pred             HHHHHHHHhCCCCCChHhHHHHHH--HHHhcCCHHHHHHHHHHHHhCCCCCCHHH-------------HHHHHHHHHhCC
Q 040367          165 KELFLQMKDENINPDVVTYTSVIR--GFCYANDWNEAKCLLIEMMDQGVQPNVVT-------------FNVIMDELCKNG  229 (400)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------------~~~l~~~~~~~~  229 (400)
                      .+.--.+.+.. +.+  .+..+++  ++.-.++.+.|+..|++.+..+  |+-..             +..=.+-..+.|
T Consensus       189 ~~ea~~ilkld-~~n--~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G  263 (486)
T KOG0550|consen  189 QSEAIDILKLD-ATN--AEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNG  263 (486)
T ss_pred             HHHHHHHHhcc-cch--hHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhcc
Confidence            44433333332 112  2222222  3445566777777777776543  33211             111122345677


Q ss_pred             ChHHHHHHHHHHHHc---CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 040367          230 KMDEASRLLDLMIQI---GVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALS  306 (400)
Q Consensus       230 ~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  306 (400)
                      .+..|.+.+.+.+..   +..++...|.....+..+.|+.++|+.--+...+.+ +.-...+..-..++...++|++|.+
T Consensus       264 ~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD-~syikall~ra~c~l~le~~e~AV~  342 (486)
T KOG0550|consen  264 NYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID-SSYIKALLRRANCHLALEKWEEAVE  342 (486)
T ss_pred             chhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888887764   334555666666677777888888887777777543 1112223333445666777888888


Q ss_pred             HHHHHHhC
Q 040367          307 LYGEMLSK  314 (400)
Q Consensus       307 ~~~~~~~~  314 (400)
                      -+++..+.
T Consensus       343 d~~~a~q~  350 (486)
T KOG0550|consen  343 DYEKAMQL  350 (486)
T ss_pred             HHHHHHhh
Confidence            87777664

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.24  E-value=4.6e-05  Score=54.86  Aligned_cols=95  Identities=14%  Similarity=0.001  Sum_probs=61.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE  332 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  332 (400)
                      ...+...+...|++++|..+|+.+...+ +.+..-|-.|..++...|++++|+..|..+...++ .|+..+-.+..++..
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            3344555556677777777777766655 44556666666666777777777777777666653 356666666677777


Q ss_pred             hCcHHHHHHHHHHHHHc
Q 040367          333 IHQVERAFKLFDEMQRD  349 (400)
Q Consensus       333 ~~~~~~a~~~~~~~~~~  349 (400)
                      .|+.+.|.+.|+..+..
T Consensus       116 lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        116 CDNVCYAIKALKAVVRI  132 (157)
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            77777777777666553

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.24  E-value=6.9e-05  Score=52.89  Aligned_cols=100  Identities=9%  Similarity=-0.041  Sum_probs=72.9

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCC--CChhhHHHH
Q 040367           18 CSFNILFGCLAKNKHYDTVLSLFKRLNSTGLF--PDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFT--PNAVTFTSL   93 (400)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l   93 (400)
                      .++..+...+.+.|++++|.+.|+.+.+....  .....+..+..++.+.|+++.|...++.+......  .....+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            35666777788888888888888888765311  11346667788888888888888888888765322  124556777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcC
Q 040367           94 IKGLCAESRIMEAAALFTKLRVFG  117 (400)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~  117 (400)
                      ..++.+.|++++|...++++.+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHC
Confidence            778888888888888888888764

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.

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

Probab=98.23  E-value=0.004  Score=57.04  Aligned_cols=180  Identities=14%  Similarity=0.198  Sum_probs=108.8

Q ss_pred             HhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHH
Q 040367           27 LAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEA  106 (400)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  106 (400)
                      +.+.|..++|..+++.....+.. |..+...+-.+|...++.++|..+|++..+.  .|+......+..+|.+.+.+.+-
T Consensus        53 l~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~q  129 (932)
T KOG2053|consen   53 LFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQ  129 (932)
T ss_pred             HHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHH
Confidence            56778888888887777666533 7777888888888888888888888888776  45666666777777777766543


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-C---------hHHHHHHHHHHHcCCCCCCc-------------ccchHH
Q 040367          107 AALFTKLRVFGCEPNVFTYNTLINGLYRTG-H---------TIVALNLFEEMASGNGEFGV-------------EGFVDK  163 (400)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~---------~~~a~~~~~~~~~~~~~~~~-------------~~~~~~  163 (400)
                      .+.--++-+ ..+-+...+=++++.....- .         ..-|.+.++.+...++....             .+.+++
T Consensus       130 Qkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~e  208 (932)
T KOG2053|consen  130 QKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQE  208 (932)
T ss_pred             HHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHH
Confidence            322222222 12334444444444443321 1         12344455555555422111             667788


Q ss_pred             HHHHHHH-HHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040367          164 AKELFLQ-MKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQG  210 (400)
Q Consensus       164 a~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  210 (400)
                      |..++.. ..+.-.+.+...-+.-+..+...++|.+..++-.++...|
T Consensus       209 al~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  209 ALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            8887743 3333223344444556667777788888888877777765

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.23  E-value=0.0011  Score=53.16  Aligned_cols=183  Identities=10%  Similarity=0.012  Sum_probs=111.3

Q ss_pred             hHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH---HHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHH
Q 040367          180 VVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTF---NVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTL  256 (400)
Q Consensus       180 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  256 (400)
                      ...+-.....+...|++++|++.|+++.... +-+....   -.+..++.+.+++++|...+++..+........-+...
T Consensus        32 ~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~y-P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y  110 (243)
T PRK10866         32 PSEIYATAQQKLQDGNWKQAITQLEALDNRY-PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLY  110 (243)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHH
Confidence            3334345556677899999999999988753 2223222   45567888899999999999998886433222233223


Q ss_pred             HHHHHh--cC---------------C---HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 040367          257 MDGFCL--TG---------------R---VNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGI  316 (400)
Q Consensus       257 ~~~~~~--~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  316 (400)
                      +.+.+.  .+               |   ..+|...|+++++.  -|+             ..-..+|...+..+...  
T Consensus       111 ~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~-------------S~ya~~A~~rl~~l~~~--  173 (243)
T PRK10866        111 MRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPN-------------SQYTTDATKRLVFLKDR--  173 (243)
T ss_pred             HHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcC-------------ChhHHHHHHHHHHHHHH--
Confidence            333221  11               1   12344444444443  232             23344444444433322  


Q ss_pred             CCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          317 KPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD--GVAADTWTYRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       317 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                        -...--.+.+.|.+.|.+..|..-++.+++.  +.+........++.+|.+.|..++|.++...+.
T Consensus       174 --la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        174 --LAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             --HHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence              0111124567788899999999999999876  233345667788899999999999988877664

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.22  E-value=4.5e-05  Score=64.96  Aligned_cols=102  Identities=8%  Similarity=0.005  Sum_probs=83.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCc
Q 040367          256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQ  335 (400)
Q Consensus       256 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  335 (400)
                      ....+...|++++|+..|+++.+.. +.+...|..+..+|...|++++|+..++++++... .+...|..+..++...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P-~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDP-SLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhCC
Confidence            4556678899999999999999876 56778888899999999999999999999998753 367778888899999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHH
Q 040367          336 VERAFKLFDEMQRDGVAADTWTYRTF  361 (400)
Q Consensus       336 ~~~a~~~~~~~~~~~~~~~~~~~~~l  361 (400)
                      +++|...|+++++.  .|+......+
T Consensus        86 ~~eA~~~~~~al~l--~P~~~~~~~~  109 (356)
T PLN03088         86 YQTAKAALEKGASL--APGDSRFTKL  109 (356)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHH
Confidence            99999999999885  4444333333

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.22  E-value=8.4e-05  Score=56.34  Aligned_cols=86  Identities=7%  Similarity=0.006  Sum_probs=54.0

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPD--LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSL   93 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (400)
                      +...+..+...+...|++++|...|++..+.+..+.  ...+..+..++...|++++|...+++..+.. +.+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            444566666677777777777777777765432221  3466677777777777777777777777653 2244455555


Q ss_pred             HHHHHhcCC
Q 040367           94 IKGLCAESR  102 (400)
Q Consensus        94 ~~~~~~~~~  102 (400)
                      ..++...|+
T Consensus       113 g~~~~~~g~  121 (172)
T PRK02603        113 AVIYHKRGE  121 (172)
T ss_pred             HHHHHHcCC
Confidence            566666555

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.20  E-value=0.00014  Score=51.27  Aligned_cols=26  Identities=8%  Similarity=-0.156  Sum_probs=10.8

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          358 YRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       358 ~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      +..+..++.+.|++++|.+.++++.+
T Consensus        79 ~~~~~~~~~~~~~~~~A~~~~~~~~~  104 (119)
T TIGR02795        79 LLKLGMSLQELGDKEKAKATLQQVIK  104 (119)
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHH
Confidence            33333344444444444444444443

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.19  E-value=0.0002  Score=59.04  Aligned_cols=204  Identities=13%  Similarity=0.077  Sum_probs=97.8

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHhcCCC---C--ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC--H
Q 040367           54 TYNILINCFCKMGRVSHGFVVLGRILRSCFT---P--NAVTFTSLIKGLCAESRIMEAAALFTKLRVF----GCEPN--V  122 (400)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~  122 (400)
                      .|......|-..|++++|.+.|.+.......   +  -...|.....+|.+. ++++|.+.+++..+.    | .++  .
T Consensus        37 ~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G-~~~~aA  114 (282)
T PF14938_consen   37 LYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAG-RFSQAA  114 (282)
T ss_dssp             HHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHH
T ss_pred             HHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC-cHHHHH
Confidence            3445555566667777776666665432110   0  111233333333332 566666555554321    1 111  1


Q ss_pred             HHHHHHHHHHHhc-CChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHH
Q 040367          123 FTYNTLINGLYRT-GHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKC  201 (400)
Q Consensus       123 ~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  201 (400)
                      ..+..+...|... |+++.|++.|++                |.++|+.-...  ..-..++..+...+.+.|++++|++
T Consensus       115 ~~~~~lA~~ye~~~~d~e~Ai~~Y~~----------------A~~~y~~e~~~--~~a~~~~~~~A~l~~~l~~y~~A~~  176 (282)
T PF14938_consen  115 KCLKELAEIYEEQLGDYEKAIEYYQK----------------AAELYEQEGSP--HSAAECLLKAADLYARLGRYEEAIE  176 (282)
T ss_dssp             HHHHHHHHHHCCTT--HHHHHHHHHH----------------HHHHHHHTT-H--HHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHH----------------HHHHHHHCCCh--hhHHHHHHHHHHHHHHhCCHHHHHH
Confidence            2333344444444 455555444322                23333222110  1123456677778888889999999


Q ss_pred             HHHHHHhCCCC-----CCHH-HHHHHHHHHHhCCChHHHHHHHHHHHHcC--CCCC--HHhHHHHHHHHHhc--CCHHHH
Q 040367          202 LLIEMMDQGVQ-----PNVV-TFNVIMDELCKNGKMDEASRLLDLMIQIG--VRPN--AFVYNTLMDGFCLT--GRVNRA  269 (400)
Q Consensus       202 ~~~~~~~~~~~-----~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~--~~~~~~l~~~~~~~--~~~~~a  269 (400)
                      +|++.......     .+.. .+...+-++...|++..|.+.+++.....  +..+  ......|+.++-..  ..+..+
T Consensus       177 ~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~a  256 (282)
T PF14938_consen  177 IYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEA  256 (282)
T ss_dssp             HHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHH
T ss_pred             HHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            88887754221     1121 22333446667788888888888876542  2222  34455566666332  234455


Q ss_pred             HHHHHHHH
Q 040367          270 KELFVSME  277 (400)
Q Consensus       270 ~~~~~~~~  277 (400)
                      ..-|+.+.
T Consensus       257 v~~~d~~~  264 (282)
T PF14938_consen  257 VAEYDSIS  264 (282)
T ss_dssp             CHHHTTSS
T ss_pred             HHHHcccC
Confidence            55554444

>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=98.19  E-value=5.3e-05  Score=50.89  Aligned_cols=93  Identities=17%  Similarity=0.152  Sum_probs=45.8

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 040367           20 FNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCA   99 (400)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (400)
                      +..+...+...|++++|...++...+.. +.+...+..+...+...++++.|.+.++...... +.+...+..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            3344445555555555555555555442 2233444445555555555555555555554442 2223344444455555


Q ss_pred             cCCHHHHHHHHHHHH
Q 040367          100 ESRIMEAAALFTKLR  114 (400)
Q Consensus       100 ~~~~~~a~~~~~~~~  114 (400)
                      .|+++.|...+....
T Consensus        81 ~~~~~~a~~~~~~~~   95 (100)
T cd00189          81 LGKYEEALEAYEKAL   95 (100)
T ss_pred             HHhHHHHHHHHHHHH
Confidence            555555555554444

>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=98.18  E-value=6.3e-05  Score=50.49  Aligned_cols=90  Identities=19%  Similarity=0.204  Sum_probs=41.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCc
Q 040367          291 LINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSY  370 (400)
Q Consensus       291 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  370 (400)
                      +...+...|++++|...++++.+... .+...+..+...+...|++++|.+.++...+.. +.+...+..+...+...|+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~   83 (100)
T cd00189           6 LGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGK   83 (100)
T ss_pred             HHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHh
Confidence            34444444555555555554444321 122334444444444555555555555544432 1223344444455555555


Q ss_pred             HHHHHHHHHHHH
Q 040367          371 IVEAVELFRTLR  382 (400)
Q Consensus       371 ~~~a~~~~~~~~  382 (400)
                      +++|...+....
T Consensus        84 ~~~a~~~~~~~~   95 (100)
T cd00189          84 YEEALEAYEKAL   95 (100)
T ss_pred             HHHHHHHHHHHH
Confidence            555555555444

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.18  E-value=6.9e-06  Score=53.72  Aligned_cols=81  Identities=17%  Similarity=0.193  Sum_probs=42.6

Q ss_pred             cCCHHHHHHHHHHHHhCCCC-CchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHH
Q 040367          298 NKEIEGALSLYGEMLSKGIK-PDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVE  376 (400)
Q Consensus       298 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  376 (400)
                      .|+++.|+.+++++.+.... ++...+..+..++.+.|++++|..+++. .+.+. .+......+..+|.+.|++++|++
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            35666666666666654321 1333444456666666666666666665 22111 122333444566666666666666


Q ss_pred             HHHH
Q 040367          377 LFRT  380 (400)
Q Consensus       377 ~~~~  380 (400)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6654

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.17  E-value=0.00017  Score=54.45  Aligned_cols=111  Identities=11%  Similarity=0.002  Sum_probs=77.6

Q ss_pred             hhHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCCHHHHHHH
Q 040367           33 YDTVLSLFKRLN-STGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTP--NAVTFTSLIKGLCAESRIMEAAAL  109 (400)
Q Consensus        33 ~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~  109 (400)
                      +..+...+..+. ..+..-....+..+...+...|++++|...+++.......+  ...++..+..++...|++++|...
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            455555555553 32222235567778888888999999999999997663222  235788888999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHH-------hcCChHHHHHH
Q 040367          110 FTKLRVFGCEPNVFTYNTLINGLY-------RTGHTIVALNL  144 (400)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~~~a~~~  144 (400)
                      +++..... +....++..+...+.       ..|+++.|...
T Consensus        95 ~~~Al~~~-~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~  135 (168)
T CHL00033         95 YFQALERN-PFLPQALNNMAVICHYRGEQAIEQGDSEIAEAW  135 (168)
T ss_pred             HHHHHHhC-cCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHH
Confidence            99988763 344566667777776       66666666555

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.17  E-value=0.00013  Score=52.65  Aligned_cols=98  Identities=8%  Similarity=-0.032  Sum_probs=83.9

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 040367          285 VFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDG  364 (400)
Q Consensus       285 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  364 (400)
                      ....-.+...+...|++++|.++|+-+....+. +..-|-.|..++-..|++++|++.+..+.... +.++..+..+..+
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c  112 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAEC  112 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            344456666778899999999999999887543 67778889999999999999999999999875 3578889999999


Q ss_pred             HHhcCcHHHHHHHHHHHHHh
Q 040367          365 LCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       365 ~~~~g~~~~a~~~~~~~~~~  384 (400)
                      +...|+.+.|.+.|+..+..
T Consensus       113 ~L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        113 YLACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999998754

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=98.16  E-value=6.6e-05  Score=62.04  Aligned_cols=132  Identities=14%  Similarity=0.021  Sum_probs=77.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHh----cCC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh----CCC-CCchh
Q 040367          252 VYNTLMDGFCLTGRVNRAKELFVSMES----MGC-THTVFSYSILINGYCKNKEIEGALSLYGEMLS----KGI-KPDVV  321 (400)
Q Consensus       252 ~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~-~~~~~  321 (400)
                      .|..|.+.|.-.|+++.|+...+.-..    .|- ......+..|..++.-.|+++.|.+.|+....    .|- .....
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            455566666667777777765543221    111 11233466677777777788887777765443    221 11233


Q ss_pred             hHHHHHHHHHhhCcHHHHHHHHHHHHH----c-CCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          322 IYNTLFVVLFEIHQVERAFKLFDEMQR----D-GVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       322 ~~~~l~~~~~~~~~~~~a~~~~~~~~~----~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      +..+|...|.-..+++.|+.++.+=+.    . ...-....+.+|..+|...|..++|+.+.+..++
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            445566677677777777777755221    1 1122455667777788888888887777666553

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.14  E-value=4.3e-05  Score=60.45  Aligned_cols=98  Identities=15%  Similarity=0.183  Sum_probs=70.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHH
Q 040367          259 GFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVER  338 (400)
Q Consensus       259 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  338 (400)
                      -..+.+++.+|+..|.+.++.. +.|..-|..-..+|.+.|.++.|++--+..+..+.. ...+|..|..+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~-yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPH-YSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChH-HHHHHHHHHHHHHccCcHHH
Confidence            3556778888888888888775 556777777777888888888888777777765322 34577778888888888888


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHH
Q 040367          339 AFKLFDEMQRDGVAADTWTYRT  360 (400)
Q Consensus       339 a~~~~~~~~~~~~~~~~~~~~~  360 (400)
                      |++.|++.++  +.|+-.+|..
T Consensus       168 A~~aykKaLe--ldP~Ne~~K~  187 (304)
T KOG0553|consen  168 AIEAYKKALE--LDPDNESYKS  187 (304)
T ss_pred             HHHHHHhhhc--cCCCcHHHHH
Confidence            8888887776  4566555543

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.13  E-value=0.00013  Score=62.18  Aligned_cols=93  Identities=15%  Similarity=0.018  Sum_probs=81.1

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 040367          221 IMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKE  300 (400)
Q Consensus       221 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  300 (400)
                      -...+...|++++|+..|.++++.. +.+...+..+..+|...|++++|+..++++.... +.+...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            3456778899999999999999874 3467788888999999999999999999999886 5578889999999999999


Q ss_pred             HHHHHHHHHHHHhCC
Q 040367          301 IEGALSLYGEMLSKG  315 (400)
Q Consensus       301 ~~~a~~~~~~~~~~~  315 (400)
                      +++|...|+++++.+
T Consensus        86 ~~eA~~~~~~al~l~  100 (356)
T PLN03088         86 YQTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHHhC
Confidence            999999999999864

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.13  E-value=0.0027  Score=50.89  Aligned_cols=66  Identities=9%  Similarity=-0.037  Sum_probs=47.4

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhH---HHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 040367           51 DLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTF---TSLIKGLCAESRIMEAAALFTKLRVFG  117 (400)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~  117 (400)
                      +...+-.....+...|++++|.+.|+.+....+. +....   -.++.++.+.+++++|...+++..+..
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~-s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~   99 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPF-GPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN   99 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            3444444555667789999999999999886432 22222   356678889999999999999988773

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.12  E-value=0.00031  Score=53.25  Aligned_cols=114  Identities=12%  Similarity=0.045  Sum_probs=83.9

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 040367           51 DLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPN--AVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTL  128 (400)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  128 (400)
                      ....+..+...+...|++++|...+++..+....+.  ...+..+..++.+.|++++|...+++..... +.+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            345678888889999999999999999987643332  4678888999999999999999999998864 4467777788


Q ss_pred             HHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhC
Q 040367          129 INGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDE  174 (400)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  174 (400)
                      ...+...|+...+..-++....         .+++|.+.+++....
T Consensus       113 g~~~~~~g~~~~a~~~~~~A~~---------~~~~A~~~~~~a~~~  149 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEAEA---------LFDKAAEYWKQAIRL  149 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHHHH---------HHHHHHHHHHHHHhh
Confidence            8888888876555444333322         145566666665554

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.12  E-value=9.4e-05  Score=49.38  Aligned_cols=80  Identities=14%  Similarity=0.190  Sum_probs=57.2

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCC-CCChhhHHHHHHHHHhcC--------CHHHHHHHHHHHHHcCCCCCHHHH
Q 040367           55 YNILINCFCKMGRVSHGFVVLGRILRSCF-TPNAVTFTSLIKGLCAES--------RIMEAAALFTKLRVFGCEPNVFTY  125 (400)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~  125 (400)
                      ....|..+...+++...-.+|+.+.+.|+ .|+..+|+.++.+.++..        +.-..+.+|+.|...+++|+..+|
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            34455556666777777777777777777 677777777777665432        234567788888888888888888


Q ss_pred             HHHHHHHHh
Q 040367          126 NTLINGLYR  134 (400)
Q Consensus       126 ~~l~~~~~~  134 (400)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            888887755

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 [, , ].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.11  E-value=0.0033  Score=52.41  Aligned_cols=259  Identities=11%  Similarity=0.018  Sum_probs=156.0

Q ss_pred             hHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHH-------
Q 040367            4 FDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLG-------   76 (400)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-------   76 (400)
                      +...++..|.  ++..|.--+..+..-|++++|.--.+.-.+.. +-....+...-+++...++..+|.+.++       
T Consensus        72 yt~Ai~~~pd--~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~k-d~~~k~~~r~~~c~~a~~~~i~A~~~~~~~~~~~~  148 (486)
T KOG0550|consen   72 YTFAIDMCPD--NASYYSNRAATLMMLGRFEEALGDARQSVRLK-DGFSKGQLREGQCHLALSDLIEAEEKLKSKQAYKA  148 (486)
T ss_pred             HHHHHHhCcc--chhhhchhHHHHHHHHhHhhcccchhhheecC-CCccccccchhhhhhhhHHHHHHHHHhhhhhhhHH
Confidence            3444555554  56666666666666777777766555444321 1112233333333333333333333332       


Q ss_pred             --------HHHhcCC-CCChhhHHHHH-HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 040367           77 --------RILRSCF-TPNAVTFTSLI-KGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFE  146 (400)
Q Consensus        77 --------~~~~~~~-~~~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  146 (400)
                              ....... +|.-..+..+- .++...|+.++|.+.--.+.+.. ..+......-..++.-.++.++|...|+
T Consensus       149 anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~~yy~~~~~ka~~hf~  227 (486)
T KOG0550|consen  149 ANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLCLYYNDNADKAINHFQ  227 (486)
T ss_pred             hhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc-cchhHHHHhcccccccccchHHHHHHHh
Confidence                    2222111 23334444443 46667899999998887777654 3344444444456667788899999999


Q ss_pred             HHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHH
Q 040367          147 EMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQG---VQPNVVTFNVIMD  223 (400)
Q Consensus       147 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~  223 (400)
                      +.+..++.....+..-...+.++.....|            +-..+.|++..|.+.|.+.+..+   +.++...|.....
T Consensus       228 qal~ldpdh~~sk~~~~~~k~le~~k~~g------------N~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~  295 (486)
T KOG0550|consen  228 QALRLDPDHQKSKSASMMPKKLEVKKERG------------NDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRAL  295 (486)
T ss_pred             hhhccChhhhhHHhHhhhHHHHHHHHhhh------------hhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHh
Confidence            98888777554444433344444443332            34568899999999999988653   4556667777777


Q ss_pred             HHHhCCChHHHHHHHHHHHHcCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 040367          224 ELCKNGKMDEASRLLDLMIQIGVRPN-AFVYNTLMDGFCLTGRVNRAKELFVSMESMG  280 (400)
Q Consensus       224 ~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  280 (400)
                      ...+.|+..+|+.--+...+..  +. ...+..-..++.-.++|++|.+-++...+..
T Consensus       296 v~~rLgrl~eaisdc~~Al~iD--~syikall~ra~c~l~le~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  296 VNIRLGRLREAISDCNEALKID--SSYIKALLRRANCHLALEKWEEAVEDYEKAMQLE  351 (486)
T ss_pred             hhcccCCchhhhhhhhhhhhcC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            8888999999998888887642  11 1223333445666788899988888887653

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.10  E-value=1.4e-05  Score=52.32  Aligned_cols=20  Identities=25%  Similarity=0.383  Sum_probs=9.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHH
Q 040367          291 LINGYCKNKEIEGALSLYGE  310 (400)
Q Consensus       291 l~~~~~~~~~~~~a~~~~~~  310 (400)
                      +..++.+.|++++|..++++
T Consensus        31 la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen   31 LAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             HHHHHHHTTHHHHHHHHHHC
T ss_pred             HHHHHHHCCCHHHHHHHHHH
Confidence            34444444444444444443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.09  E-value=0.00046  Score=61.58  Aligned_cols=134  Identities=8%  Similarity=0.017  Sum_probs=69.8

Q ss_pred             CCCHHhHHHHHHHHHhc-----CCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC--------CHHHHHHHHHHHHh
Q 040367          247 RPNAFVYNTLMDGFCLT-----GRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNK--------EIEGALSLYGEMLS  313 (400)
Q Consensus       247 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~  313 (400)
                      +.+...|...+.+....     ++...|..+|+++.+.. +-....|..+..++....        +...+.+..++...
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld-P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE-PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            44555566555553322     22556666666666654 223344444333332211        12233333333222


Q ss_pred             C-CCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          314 K-GIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       314 ~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      . ..+.+...|..+.......|++++|...++++...  .|+...|..+...+...|+.++|.+.+++...
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~  481 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAFN  481 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            1 12223445555555555567777777777776664  34666666666677777777777777766665

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.08  E-value=0.0016  Score=53.74  Aligned_cols=24  Identities=21%  Similarity=0.333  Sum_probs=11.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          255 TLMDGFCLTGRVNRAKELFVSMES  278 (400)
Q Consensus       255 ~l~~~~~~~~~~~~a~~~~~~~~~  278 (400)
                      .+...+.+.|++++|..+|+++..
T Consensus       160 ~~A~l~~~l~~y~~A~~~~e~~~~  183 (282)
T PF14938_consen  160 KAADLYARLGRYEEAIEIYEEVAK  183 (282)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHH
Confidence            344445555555555555555443

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

Probab=98.07  E-value=0.0089  Score=54.94  Aligned_cols=213  Identities=14%  Similarity=0.139  Sum_probs=141.3

Q ss_pred             HhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHH--HHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHH
Q 040367           27 LAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILIN--CFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIM  104 (400)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  104 (400)
                      ....+++.+|+.....+.++  .|+... ..++.  .+.+.|+.++|..+++.....+.. |..+...+-.+|...++.+
T Consensus        19 ~ld~~qfkkal~~~~kllkk--~Pn~~~-a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKK--HPNALY-AKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHH--CCCcHH-HHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhh
Confidence            45678999999999999877  355432 33333  456899999999999888766544 8889999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHH----HHHHHHHHHcCC----------------CCCCc-ccchHH
Q 040367          105 EAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIV----ALNLFEEMASGN----------------GEFGV-EGFVDK  163 (400)
Q Consensus       105 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~----------------~~~~~-~~~~~~  163 (400)
                      +|..+|++....  -|+......+..+|.+.+.+.+    |.++++...+..                +.... .-...-
T Consensus        95 ~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~L  172 (932)
T KOG2053|consen   95 EAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVISLILQSIFSENELLDPILLAL  172 (932)
T ss_pred             HHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHhccCCcccccchhHHH
Confidence            999999999876  5778888888888888887654    445555433221                00000 122455


Q ss_pred             HHHHHHHHHhCC-CCCChHhHHHHHHHHHhcCCHHHHHHHHH-HHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 040367          164 AKELFLQMKDEN-INPDVVTYTSVIRGFCYANDWNEAKCLLI-EMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLM  241 (400)
Q Consensus       164 a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  241 (400)
                      |.+.++.+.+.+ .--+..-...........|++++|.+++. ...+.-...+...-+.-+..+...+++.+..++-.++
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            667777776654 11122223333445667889999999994 3333333334444445555666666666666666666


Q ss_pred             HHcC
Q 040367          242 IQIG  245 (400)
Q Consensus       242 ~~~~  245 (400)
                      ...+
T Consensus       253 l~k~  256 (932)
T KOG2053|consen  253 LEKG  256 (932)
T ss_pred             HHhC
Confidence            6554

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.03  E-value=0.00011  Score=49.15  Aligned_cols=79  Identities=20%  Similarity=0.385  Sum_probs=68.0

Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcC--------ChhhHHHHHHHHHhcCCCCChhhHH
Q 040367           21 NILFGCLAKNKHYDTVLSLFKRLNSTGL-FPDLYTYNILINCFCKMG--------RVSHGFVVLGRILRSCFTPNAVTFT   91 (400)
Q Consensus        21 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~   91 (400)
                      ..-|..+...+++...-.+|+.+++.|+ -|+..+|+.++.+.++..        +.-..+.+|+.++..+++|+..+|+
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            3446677778999999999999999999 899999999999887653        3446788999999999999999999


Q ss_pred             HHHHHHHh
Q 040367           92 SLIKGLCA   99 (400)
Q Consensus        92 ~l~~~~~~   99 (400)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            99987754

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.01  E-value=0.00036  Score=57.37  Aligned_cols=131  Identities=10%  Similarity=0.047  Sum_probs=98.3

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 040367          181 VTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDE-LCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDG  259 (400)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  259 (400)
                      .+|..++....+.+..+.|..+|.+..+.+ ..+..+|...... +...++.+.|.++|+...+. +..+...+...++.
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            468888888888888999999999998643 3344555555555 33356777799999999886 56677888888898


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          260 FCLTGRVNRAKELFVSMESMGCTHT---VFSYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       260 ~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      +...++.+.|..+|++.... ++++   ...|...+..-.+.|+++.+.++.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            89999999999999998865 2222   247888888888899999999999888875

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.

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.99  E-value=0.00074  Score=53.96  Aligned_cols=100  Identities=15%  Similarity=0.083  Sum_probs=47.3

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhh---CcHHHHHHHHHHHHHcCCCCCHHHH
Q 040367          282 THTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEI---HQVERAFKLFDEMQRDGVAADTWTY  358 (400)
Q Consensus       282 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~  358 (400)
                      +.|...|..|...|...|+.+.|..-|.+..+.. .+|...+..+..++...   ....++..+|+++.+.. +-|....
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHH
Confidence            3445555555555555555555555555555442 22344444444333221   12334555555555442 2234444


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          359 RTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       359 ~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      ..|...+...|++++|...|+.|++
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~  255 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLD  255 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHh
Confidence            4445555555555555555555554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.97  E-value=0.00028  Score=53.25  Aligned_cols=62  Identities=11%  Similarity=0.102  Sum_probs=28.1

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHcCCCC--CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 040367          218 FNVIMDELCKNGKMDEASRLLDLMIQIGVRP--NAFVYNTLMDGFCLTGRVNRAKELFVSMESM  279 (400)
Q Consensus       218 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  279 (400)
                      +..+...+...|++++|...+++.......+  ...++..+..++...|++++|...+++....
T Consensus        38 ~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~  101 (168)
T CHL00033         38 YYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER  101 (168)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3344444444455555555555554432111  1123444445555555555555555555443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.97  E-value=0.00083  Score=46.72  Aligned_cols=91  Identities=16%  Similarity=0.105  Sum_probs=41.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CchhhHHHHHHHHHh
Q 040367          257 MDGFCLTGRVNRAKELFVSMESMGCTHT--VFSYSILINGYCKNKEIEGALSLYGEMLSKGIK--PDVVIYNTLFVVLFE  332 (400)
Q Consensus       257 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~  332 (400)
                      ..++-..|+.++|+.+|++....|....  ...+-.+..++...|++++|..++++.......  .+......+..++..
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHH
Confidence            3444455555555555555555443222  223334445555555555555555555543111  011111222234444


Q ss_pred             hCcHHHHHHHHHHHH
Q 040367          333 IHQVERAFKLFDEMQ  347 (400)
Q Consensus       333 ~~~~~~a~~~~~~~~  347 (400)
                      .|+.++|+..+-...
T Consensus        88 ~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   88 LGRPKEALEWLLEAL  102 (120)
T ss_pred             CCCHHHHHHHHHHHH
Confidence            555555555554433

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.96  E-value=1.3e-05  Score=40.80  Aligned_cols=29  Identities=21%  Similarity=0.518  Sum_probs=22.7

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhCC
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNSTG   47 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   47 (400)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            67788888888888888888888877765

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.96  E-value=1.4e-05  Score=40.72  Aligned_cols=29  Identities=38%  Similarity=0.653  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHhc
Q 040367          357 TYRTFIDGLCKNSYIVEAVELFRTLRILK  385 (400)
Q Consensus       357 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  385 (400)
                      +|+.++++|.+.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            46666666666666666666666666554

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.

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.93  E-value=6.5e-05  Score=46.77  Aligned_cols=63  Identities=17%  Similarity=0.166  Sum_probs=40.5

Q ss_pred             HhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHHHH
Q 040367          331 FEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCL  396 (400)
Q Consensus       331 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  396 (400)
                      ...|++++|+++|+++.+.. +-+...+..+..+|.+.|++++|.++++++...  .|+...|..+
T Consensus         2 l~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l   64 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQL   64 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHH
Confidence            35677777777777777652 335666667777777777777777777777753  4554444444

...

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.92  E-value=0.00093  Score=59.70  Aligned_cols=137  Identities=10%  Similarity=-0.003  Sum_probs=96.8

Q ss_pred             CCChhhHHHHHHHHhcc-----CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--------ChhhHHHHHHHHHh
Q 040367           14 PPPVCSFNILFGCLAKN-----KHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMG--------RVSHGFVVLGRILR   80 (400)
Q Consensus        14 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~   80 (400)
                      |.|..+|...+++....     ++...|..+|+++.+.. +.....|..+..++....        +...+.+..++...
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld-P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE-PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            36889999998875442     23778999999999874 224556665544443321        22334444444333


Q ss_pred             c-CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCC
Q 040367           81 S-CFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNG  153 (400)
Q Consensus        81 ~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  153 (400)
                      . ....+...+..+.-.....|++++|...+++..+.+  |+...|..+...+...|+.++|...+++....++
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P  484 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRP  484 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            2 123455778877777778899999999999999885  6889999999999999998888888777765443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.91  E-value=0.00071  Score=54.06  Aligned_cols=99  Identities=12%  Similarity=0.010  Sum_probs=55.9

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CChhhHHHHHHHHHhcCCCCChhhHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKM---GRVSHGFVVLGRILRSCFTPNAVTFTS   92 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~   92 (400)
                      |...|-.|..+|.+.|+++.|..-|....+.. +++...+..+..++...   ....++.++++++++.+ +.|+.+...
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            66666666666666666666666666665552 34555555555444332   22445566666666553 334555555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc
Q 040367           93 LIKGLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        93 l~~~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      |...+...|++.+|...|+.|.+.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhc
Confidence            555666666666666666666655

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.90  E-value=0.0013  Score=45.74  Aligned_cols=109  Identities=17%  Similarity=0.102  Sum_probs=74.4

Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCC--CChhhHHHHHHH
Q 040367           21 NILFGCLAKNKHYDTVLSLFKRLNSTGLFPD--LYTYNILINCFCKMGRVSHGFVVLGRILRSCFT--PNAVTFTSLIKG   96 (400)
Q Consensus        21 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~   96 (400)
                      .....++-..|+.++|+.+|++....|....  ...+..+...+...|++++|..+++........  .+......+..+
T Consensus         5 ~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    5 YELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHH
Confidence            3455677778899999999999988876544  345667778888899999999999888765211  122233334456


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 040367           97 LCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLY  133 (400)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  133 (400)
                      +...|+.++|++.+-....    ++...|..-|..|.
T Consensus        85 L~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             HHHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            6788899998888876653    33345555555554

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.90  E-value=0.0064  Score=47.43  Aligned_cols=173  Identities=15%  Similarity=0.090  Sum_probs=100.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 040367          182 TYTSVIRGFCYANDWNEAKCLLIEMMDQGV--QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDG  259 (400)
Q Consensus       182 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  259 (400)
                      .+-.....+...|++.+|++.|+.+...-.  +--....-.++.++.+.|+++.|...+++.++.........+...+.+
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            344455667788999999999999887521  222345566778888999999999999998876332222222222222


Q ss_pred             HHhcCC-------------HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHH
Q 040367          260 FCLTGR-------------VNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTL  326 (400)
Q Consensus       260 ~~~~~~-------------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  326 (400)
                      .+....             ..+|...               +..++.-|-...-..+|...+..+.+.    =...--.+
T Consensus        87 ~~~~~~~~~~~~~~~D~~~~~~A~~~---------------~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~i  147 (203)
T PF13525_consen   87 LSYYKQIPGILRSDRDQTSTRKAIEE---------------FEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYI  147 (203)
T ss_dssp             HHHHHHHHHHH-TT---HHHHHHHHH---------------HHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHH
T ss_pred             HHHHHhCccchhcccChHHHHHHHHH---------------HHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHH
Confidence            211111             1222222               344444454555556665555554432    01111235


Q ss_pred             HHHHHhhCcHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCcHHHHH
Q 040367          327 FVVLFEIHQVERAFKLFDEMQRDGVAAD----TWTYRTFIDGLCKNSYIVEAV  375 (400)
Q Consensus       327 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~  375 (400)
                      ...|.+.|.+..|..-++.+++.  -|+    ......++.+|.+.|..+.+.
T Consensus       148 a~~Y~~~~~y~aA~~r~~~v~~~--yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  148 ARFYYKRGKYKAAIIRFQYVIEN--YPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHCTT-HHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            67888999999999999999886  233    344567788888888887543

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.86  E-value=0.00029  Score=55.97  Aligned_cols=92  Identities=10%  Similarity=-0.002  Sum_probs=54.1

Q ss_pred             HHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHH
Q 040367           61 CFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIV  140 (400)
Q Consensus        61 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  140 (400)
                      -+.+.+++++|+..|.++++.. +-|...|..-..+|.+.|.++.|++-.+..+..+ +-...+|..|..+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHH
Confidence            3445566666666666666553 2245555555666666666666666666555443 2244566666666666666666


Q ss_pred             HHHHHHHHHcCCCC
Q 040367          141 ALNLFEEMASGNGE  154 (400)
Q Consensus       141 a~~~~~~~~~~~~~  154 (400)
                      |++.|++.+..++.
T Consensus       168 A~~aykKaLeldP~  181 (304)
T KOG0553|consen  168 AIEAYKKALELDPD  181 (304)
T ss_pred             HHHHHHhhhccCCC
Confidence            66666666655554

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.85  E-value=0.0043  Score=48.54  Aligned_cols=132  Identities=13%  Similarity=0.113  Sum_probs=70.6

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHH----
Q 040367          217 TFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILI----  292 (400)
Q Consensus       217 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----  292 (400)
                      ..+.++.++.-.|.+.-....+++.++...+.++.....|++.-.+.||.+.|...|++..+..-..+....+.++    
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            3444555555556666666666666665545556666666666666666666666666554432233333333222    


Q ss_pred             -HHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          293 -NGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       293 -~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                       ..|.-.+++..|...+.+..+.+.. |....|.-.-+..-.|+...|++.++.|...
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence             2334455666666666665554322 3344444444444466666666666666654

>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=97.84  E-value=0.00018  Score=44.92  Aligned_cols=63  Identities=17%  Similarity=0.130  Sum_probs=40.1

Q ss_pred             hhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-cHHHHHHHHHHHHH
Q 040367          320 VVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNS-YIVEAVELFRTLRI  383 (400)
Q Consensus       320 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~  383 (400)
                      ..+|..+...+...|++++|+..|++.++.. +.+...|..+..++...| ++++|++.+++.++
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            4556666666666677777777776666652 224556666666666666 56677766666654

...

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.82  E-value=0.0023  Score=49.90  Aligned_cols=62  Identities=13%  Similarity=0.118  Sum_probs=33.0

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 040367           20 FNILFGCLAKNKHYDTVLSLFKRLNSTGL--FPDLYTYNILINCFCKMGRVSHGFVVLGRILRS   81 (400)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (400)
                      .-.....+.+.|++.+|+..|+.+.....  +-...+.-.++.++.+.|+++.|...+++.++.
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            33344455566666666666666655421  112334455556666666666666666666654

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.80  E-value=0.0069  Score=44.77  Aligned_cols=156  Identities=11%  Similarity=0.012  Sum_probs=106.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCH
Q 040367          187 IRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRV  266 (400)
Q Consensus       187 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  266 (400)
                      ..+..+.=|++...+-..+-.+  ..|+...-..+..+....|++.+|...|++...--+..|....-.+.++....+++
T Consensus        63 ~~a~~q~ldP~R~~Rea~~~~~--~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~  140 (251)
T COG4700          63 LMALQQKLDPERHLREATEELA--IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEF  140 (251)
T ss_pred             HHHHHHhcChhHHHHHHHHHHh--hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccH
Confidence            3334444445444433333332  35677777778888888999999999998888765666778888888888888999


Q ss_pred             HHHHHHHHHHHhcCC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHH
Q 040367          267 NRAKELFVSMESMGC-THTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDE  345 (400)
Q Consensus       267 ~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  345 (400)
                      ..|...++++.+... .-++.+.-.+.+.+...|.+..|..-|+.....  -|+...-......+.+.|+.+++..-+..
T Consensus       141 A~a~~tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         141 AAAQQTLEDLMEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHHHHHHhhcCCccCCCCchHHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            999988888876531 113344556778888889998899888888876  34544444455566677776666544443


Q ss_pred             H
Q 040367          346 M  346 (400)
Q Consensus       346 ~  346 (400)
                      .
T Consensus       219 v  219 (251)
T COG4700         219 V  219 (251)
T ss_pred             H
Confidence            3

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.80  E-value=0.00016  Score=44.47  Aligned_cols=55  Identities=11%  Similarity=0.142  Sum_probs=27.6

Q ss_pred             HHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          328 VVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       328 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      ..+...|++++|...|+++++.. +-+...+..+..++...|++++|...|+++.+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34445555555555555555442 22344555555555555555555555555543

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.76  E-value=0.0013  Score=50.04  Aligned_cols=104  Identities=20%  Similarity=0.302  Sum_probs=61.6

Q ss_pred             CCCHHhHHHHHHHHHhc-----CCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchh
Q 040367          247 RPNAFVYNTLMDGFCLT-----GRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVV  321 (400)
Q Consensus       247 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  321 (400)
                      ..+..+|..+++.|.+.     |..+-....++.|.+.|+..|..+|+.|++.+=+ |.+-               |. .
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            34667777777777644     5566666667777777777777777777776654 2211               00 0


Q ss_pred             hHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 040367          322 IYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNS  369 (400)
Q Consensus       322 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  369 (400)
                      .+..+..-  .-.+-+-|++++++|...|+-||..++..+++.+.+.+
T Consensus       107 ~fQ~~F~h--yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  107 FFQAEFMH--YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             HHHHHhcc--CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence            00111111  12334556777777777777777777777777775544

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.75  E-value=0.00017  Score=44.86  Aligned_cols=51  Identities=18%  Similarity=0.156  Sum_probs=22.1

Q ss_pred             cCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 040367           65 MGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        65 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      .|++++|++.|+.+.... +.+...+..++.+|.+.|++++|.++++++...
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            344444444444444432 113334444444444444444444444444443

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.73  E-value=0.00034  Score=43.02  Aligned_cols=57  Identities=9%  Similarity=0.210  Sum_probs=32.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          292 INGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       292 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      ...+.+.|++++|.+.|+++++.. +-+...+..+..++...|++++|..+|+++++.
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            345556666666666666666554 225555556666666666666666666666543

>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=97.73  E-value=0.00022  Score=44.51  Aligned_cols=62  Identities=15%  Similarity=0.073  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC-CHHHHHHHHHHHH
Q 040367           52 LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAES-RIMEAAALFTKLR  114 (400)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~  114 (400)
                      ...|..+...+...|++++|+..|++.++.+ +.+...|..+..++...| ++++|++.+++..
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            3344444444555555555555555544443 223444444444444444 3445554444444

...

>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=97.73  E-value=0.0016  Score=47.80  Aligned_cols=72  Identities=21%  Similarity=0.228  Sum_probs=53.6

Q ss_pred             hHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH-----HhcccchhHHHH
Q 040367          322 IYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLR-----ILKCELDIRAYN  394 (400)
Q Consensus       322 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-----~~~~~p~~~~~~  394 (400)
                      ....++..+...|++++|..+.+.+... -+.+...|..++.+|...|+..+|.++|+++.     +.|+.|+..+-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~-dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALAL-DPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH-STT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            4456677778899999999999999987 34478899999999999999999999999885     568899887643

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>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=97.65  E-value=0.0065  Score=44.58  Aligned_cols=71  Identities=20%  Similarity=0.323  Sum_probs=46.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH-----cCCCCCHHhH
Q 040367          182 TYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQ-----IGVRPNAFVY  253 (400)
Q Consensus       182 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  253 (400)
                      +...++..+...|++++|....+.+.... |.+...|..+|.++...|+...|.++|+++..     .|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            45566667777888888888888887764 55777788888888888888888888777643     2677766543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.65  E-value=0.0013  Score=49.97  Aligned_cols=87  Identities=21%  Similarity=0.238  Sum_probs=58.2

Q ss_pred             CCChHhHHHHHHHHHh-----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC----------------ChHHHH
Q 040367          177 NPDVVTYTSVIRGFCY-----ANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNG----------------KMDEAS  235 (400)
Q Consensus       177 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------~~~~a~  235 (400)
                      ..+..+|..+++.|.+     .|..+-....+..|.+-|+.-|..+|+.|++.+=+..                +-+-|+
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            3477788888888764     4778888888888888899999999999998775421                223345


Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHHHHHhc
Q 040367          236 RLLDLMIQIGVRPNAFVYNTLMDGFCLT  263 (400)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~  263 (400)
                      +++++|...|+-||..++..+++.+.+.
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~  151 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRK  151 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccc
Confidence            5555555555555555555555555443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.64  E-value=0.013  Score=43.34  Aligned_cols=134  Identities=13%  Similarity=0.012  Sum_probs=105.6

Q ss_pred             CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CchhhHH
Q 040367          246 VRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIK-PDVVIYN  324 (400)
Q Consensus       246 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~  324 (400)
                      ..|+...-..|..+....|+..+|...|.+...--...|....-.+.++....+++..|...++++.+.+.. -++.+.-
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            457777777899999999999999999999987666678888889999999999999999999999886311 1223345


Q ss_pred             HHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 040367          325 TLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTL  381 (400)
Q Consensus       325 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  381 (400)
                      .+.+.+...|++..|..-|+.+...  -|+...-......+.++|+.+++..-+..+
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            6778999999999999999999986  556555555566678888777665544444

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.63  E-value=0.019  Score=45.07  Aligned_cols=130  Identities=7%  Similarity=-0.016  Sum_probs=63.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHH-----HHH
Q 040367          184 TSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNT-----LMD  258 (400)
Q Consensus       184 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----l~~  258 (400)
                      +.++.++.-.|.+.-....+.+.++...+.++.....+.+.-.+.|+.+.|...|++..+..-..+...++.     ...
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~  260 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAF  260 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhh
Confidence            344444445555555555555555554444555555555555556666666666655544322222222222     222


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          259 GFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       259 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      .|.-++++..|...+.++...+ +.++...|.-.-+..-.|+...|.+.++.|.+.
T Consensus       261 i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  261 LHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             heecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            3444455555555555555443 333333333333333345556666666555553

>PRK15331 chaperone protein SicA; Provisional

Probab=97.62  E-value=0.012  Score=42.92  Aligned_cols=89  Identities=15%  Similarity=0.027  Sum_probs=59.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHH
Q 040367          258 DGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVE  337 (400)
Q Consensus       258 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  337 (400)
                      .-+...|++++|..+|+-+...+ +.+..-|..|..++-..+++++|...|......+. -|+..+-....++...|+.+
T Consensus        45 y~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~  122 (165)
T PRK15331         45 YEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAA  122 (165)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHH
Confidence            33456777777777777776655 44566666777777777777777777776655443 24444455667777777777


Q ss_pred             HHHHHHHHHHH
Q 040367          338 RAFKLFDEMQR  348 (400)
Q Consensus       338 ~a~~~~~~~~~  348 (400)
                      .|...|+....
T Consensus       123 ~A~~~f~~a~~  133 (165)
T PRK15331        123 KARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHh
Confidence            77777777766

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.62  E-value=0.032  Score=47.18  Aligned_cols=170  Identities=14%  Similarity=0.109  Sum_probs=99.6

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHh---cCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           22 ILFGCLAKNKHYDTVLSLFKRLNSTG---LFPDLYTYNILINCFCK---MGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      .++-.|....+++..+++.+.+....   +..+...-....-++-+   .|+.++|++++..+......++..++..+.+
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            44446888888888999888887651   11123333344455556   7888889988888665555677888887777


Q ss_pred             HHHh---------cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHH
Q 040367           96 GLCA---------ESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKE  166 (400)
Q Consensus        96 ~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~  166 (400)
                      .|-.         ...+++|...|.+.-+.  .|+...-..++..+...|.......-++++                ..
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i----------------~~  287 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKI----------------GV  287 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHH----------------HH
Confidence            6542         12356777777765544  355544444444444444422221111111                11


Q ss_pred             HHHH-HHhCC---CCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          167 LFLQ-MKDEN---INPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ  209 (400)
Q Consensus       167 ~~~~-~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  209 (400)
                      .+.. +.+.|   -..+-..+..++.++.-.|+.++|.+..++|.+.
T Consensus       288 ~l~~llg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  288 KLSSLLGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             HHHHHHHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            1111 11111   2345666777778888888888888888888765

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.52  E-value=0.0024  Score=51.57  Aligned_cols=90  Identities=10%  Similarity=-0.016  Sum_probs=37.4

Q ss_pred             HhcCChhhHHHHHHHHHhcCCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHhcCCh
Q 040367           63 CKMGRVSHGFVVLGRILRSCFTPN--AVTFTSLIKGLCAESRIMEAAALFTKLRVFG--CEPNVFTYNTLINGLYRTGHT  138 (400)
Q Consensus        63 ~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~  138 (400)
                      .+.|++++|...|+.+++..+...  ...+-.+...|...|++++|...|+.+.+..  -+.....+..+...+...|+.
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~  233 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDT  233 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCH
Confidence            334444444444444444321100  1233344444444455555555444444321  011233333334444444555


Q ss_pred             HHHHHHHHHHHcCC
Q 040367          139 IVALNLFEEMASGN  152 (400)
Q Consensus       139 ~~a~~~~~~~~~~~  152 (400)
                      ++|...|+.+....
T Consensus       234 ~~A~~~~~~vi~~y  247 (263)
T PRK10803        234 AKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHHHHHHHHHC
Confidence            55555555444443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.52  E-value=0.0042  Score=50.27  Aligned_cols=87  Identities=8%  Similarity=-0.016  Sum_probs=39.3

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCchhhHHHHHHHHHhhC
Q 040367          261 CLTGRVNRAKELFVSMESMGCTHT----VFSYSILINGYCKNKEIEGALSLYGEMLSKGI--KPDVVIYNTLFVVLFEIH  334 (400)
Q Consensus       261 ~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~  334 (400)
                      .+.|++++|...|+.+.+..  |+    ...+..+..+|...|++++|...|+.+.+.-.  +.....+-.++..+...|
T Consensus       154 ~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g  231 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKG  231 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcC
Confidence            34455555555555555442  22    12444455555555555555555555544311  011222233334444455


Q ss_pred             cHHHHHHHHHHHHHc
Q 040367          335 QVERAFKLFDEMQRD  349 (400)
Q Consensus       335 ~~~~a~~~~~~~~~~  349 (400)
                      +.+.|...++.+++.
T Consensus       232 ~~~~A~~~~~~vi~~  246 (263)
T PRK10803        232 DTAKAKAVYQQVIKK  246 (263)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            555555555555443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.45  E-value=0.051  Score=45.48  Aligned_cols=63  Identities=16%  Similarity=0.182  Sum_probs=37.9

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      +|..+.......|+.+-|..+++      ..|+..   .-+-.+.+.|+.+.|   +.+..+.| .||. +|..++.
T Consensus         2 S~a~IA~~A~~~GR~~LA~~LL~------~Ep~~~---~qVplLL~m~e~e~A---L~kAi~Sg-D~DL-i~~vLl~   64 (319)
T PF04840_consen    2 SYAEIARKAYEEGRPKLATKLLE------LEPRAS---KQVPLLLKMGEDELA---LNKAIESG-DTDL-IYLVLLH   64 (319)
T ss_pred             CHHHHHHHHHHcChHHHHHHHHH------cCCChH---HHHHHHhcCCchHHH---HHHHHHcC-CccH-HHHHHHH
Confidence            56777777788888888877653      245543   335556667777666   45555554 3332 3444444

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

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.43  E-value=0.018  Score=51.19  Aligned_cols=261  Identities=13%  Similarity=0.063  Sum_probs=131.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHH
Q 040367           90 FTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFL  169 (400)
Q Consensus        90 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~  169 (400)
                      +.+-+..|.+.|.+++|.++-      +.-....-|..|.......=+++-|.+.|.+.....        +-+.+.-++
T Consensus       559 ~~~~m~q~Ieag~f~ea~~ia------clgVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl~--------~L~li~EL~  624 (1081)
T KOG1538|consen  559 QSAPMYQYIERGLFKEAYQIA------CLGVTDTDWRELAMEALEALDFETARKAYIRVRDLR--------YLELISELE  624 (1081)
T ss_pred             ccccchhhhhccchhhhhccc------ccceecchHHHHHHHHHhhhhhHHHHHHHHHHhccH--------HHHHHHHHH
Confidence            333444566667777665432      112233345555555555555666666555543321        344455566


Q ss_pred             HHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC----CHHHHHHHHHHHHhCCChHHHHHHHHHHHH--
Q 040367          170 QMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQP----NVVTFNVIMDELCKNGKMDEASRLLDLMIQ--  243 (400)
Q Consensus       170 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--  243 (400)
                      ++.++|-.|+..   .+...|+-.|++.+|-++|.+--..+-..    |...| ....-+...|..++-..+.++-.+  
T Consensus       625 ~~k~rge~P~~i---LlA~~~Ay~gKF~EAAklFk~~G~enRAlEmyTDlRMF-D~aQE~~~~g~~~eKKmL~RKRA~WA  700 (1081)
T KOG1538|consen  625 ERKKRGETPNDL---LLADVFAYQGKFHEAAKLFKRSGHENRALEMYTDLRMF-DYAQEFLGSGDPKEKKMLIRKRADWA  700 (1081)
T ss_pred             HHHhcCCCchHH---HHHHHHHhhhhHHHHHHHHHHcCchhhHHHHHHHHHHH-HHHHHHhhcCChHHHHHHHHHHHHHh
Confidence            677777667644   24456667788888888876532221000    00111 112223333433333222221111  


Q ss_pred             cCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHH------HHhcCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          244 IGVRPNAFVYNTLMDGFCLTGRVNRAKELFVS------MESMGC---THTVFSYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       244 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~------~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      .++...    ......+...|+.++|..+..+      +.+.+.   ..+..+...+...+.+...+.-|-++|+.|-+.
T Consensus       701 r~~keP----kaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~  776 (1081)
T KOG1538|consen  701 RNIKEP----KAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL  776 (1081)
T ss_pred             hhcCCc----HHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccH
Confidence            011111    1233444556666666554321      111111   223344444555555666677777777766432


Q ss_pred             CCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCH-----------HHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          315 GIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADT-----------WTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       315 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                               ..+++.....+++++|..+-++..+.  .||.           .-|...-.+|.+.|+..+|.++++++..
T Consensus       777 ---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  777 ---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             ---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence                     34566666778888887777665442  2221           2234455677888888888888887764

>PRK15331 chaperone protein SicA; Provisional

Probab=97.38  E-value=0.012  Score=43.03  Aligned_cols=91  Identities=10%  Similarity=-0.072  Sum_probs=75.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCc
Q 040367          291 LINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSY  370 (400)
Q Consensus       291 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  370 (400)
                      ...-+...|++++|..+|+-+...++- +..-|..|..++-..+++++|+..+..+...+. .|+..+-....++...|+
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 HAYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCC
Confidence            344456789999999999998887644 666788888899999999999999998776543 345556678889999999


Q ss_pred             HHHHHHHHHHHHH
Q 040367          371 IVEAVELFRTLRI  383 (400)
Q Consensus       371 ~~~a~~~~~~~~~  383 (400)
                      .+.|...|+...+
T Consensus       121 ~~~A~~~f~~a~~  133 (165)
T PRK15331        121 AAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999999987

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.33  E-value=0.002  Score=40.67  Aligned_cols=53  Identities=13%  Similarity=0.057  Sum_probs=24.2

Q ss_pred             HHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          330 LFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       330 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      +.+.+++++|.++++.+...+ +.+...+.....++.+.|++++|.+.+++..+
T Consensus         5 ~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    5 YLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            344444444444444444431 22334444444444444555555555544443

>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=97.30  E-value=0.0013  Score=42.10  Aligned_cols=63  Identities=19%  Similarity=0.195  Sum_probs=37.3

Q ss_pred             hhHHHHHHHHHhhCcHHHHHHHHHHHHHc----CC-CCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          321 VIYNTLFVVLFEIHQVERAFKLFDEMQRD----GV-AAD-TWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       321 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      .+++.+...+...|++++|++.|++..+.    |- .|+ ..++..+..++...|++++|++.+++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34566666666667777776666665532    11 111 44566666677777777777777766653

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.29  E-value=0.0021  Score=40.52  Aligned_cols=55  Identities=18%  Similarity=0.280  Sum_probs=31.1

Q ss_pred             HHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 040367           26 CLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRS   81 (400)
Q Consensus        26 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (400)
                      .+.+.++++.|++.++.+...+ |.+...+.....++...|++++|.+.++...+.
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            4555566666666666665553 334455555555555666666666666655554

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.25  E-value=0.091  Score=43.99  Aligned_cols=103  Identities=10%  Similarity=0.097  Sum_probs=53.0

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC
Q 040367          220 VIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNK  299 (400)
Q Consensus       220 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  299 (400)
                      ..+.-+...|+...|.++-.+.    -.|+...|..-+.+++..++|++-..+...      +.++..|...+.+|.+.|
T Consensus       182 ~Ti~~li~~~~~k~A~kl~k~F----kv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~  251 (319)
T PF04840_consen  182 DTIRKLIEMGQEKQAEKLKKEF----KVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYG  251 (319)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHc----CCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCC
Confidence            3344445555555555554443    124555566666666666666555443221      123455666666666666


Q ss_pred             CHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHH
Q 040367          300 EIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKL  342 (400)
Q Consensus       300 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  342 (400)
                      +..+|..+..++     +     +..-+..|.+.|++.+|.+.
T Consensus       252 ~~~eA~~yI~k~-----~-----~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  252 NKKEASKYIPKI-----P-----DEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             CHHHHHHHHHhC-----C-----hHHHHHHHHHCCCHHHHHHH
Confidence            666666555441     1     13334555556666665554

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

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.24  E-value=0.15  Score=46.20  Aligned_cols=328  Identities=13%  Similarity=0.008  Sum_probs=165.0

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhC-CCCC--------CHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNST-GLFP--------DLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTP   85 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   85 (400)
                      |-+..|..+.....+.-.++.|...|-+...- |++.        +...-.+  ..-.--|++++|.++|-.+-+.+   
T Consensus       690 PHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~a--ei~~~~g~feeaek~yld~drrD---  764 (1189)
T KOG2041|consen  690 PHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRA--EISAFYGEFEEAEKLYLDADRRD---  764 (1189)
T ss_pred             CchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhH--hHhhhhcchhHhhhhhhccchhh---
Confidence            55667777777777777777777776655432 2210        0000111  11122467777777776665442   


Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHH
Q 040367           86 NAVTFTSLIKGLCAESRIMEAAALFTKLRVF-GCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKA  164 (400)
Q Consensus        86 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a  164 (400)
                            ..+..+.+.|++-.+.++++.--.. .-..-...|+.+...++....++.|.++|........       .-++
T Consensus       765 ------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~e~-------~~ec  831 (1189)
T KOG2041|consen  765 ------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDTEN-------QIEC  831 (1189)
T ss_pred             ------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHh-------HHHH
Confidence                  3455566677777666665431100 0011245677777777777788888777766422110       1111


Q ss_pred             ---HHHHHHHH--hCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHH
Q 040367          165 ---KELFLQMK--DENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLD  239 (400)
Q Consensus       165 ---~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  239 (400)
                         .+.|..+.  ...++.+....-.+..++.+.|.-++|.+.+-+...    |     ...+..|...+++.+|.++-+
T Consensus       832 ly~le~f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~----p-----kaAv~tCv~LnQW~~avelaq  902 (1189)
T KOG2041|consen  832 LYRLELFGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYLRRSL----P-----KAAVHTCVELNQWGEAVELAQ  902 (1189)
T ss_pred             HHHHHhhhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHHhccC----c-----HHHHHHHHHHHHHHHHHHHHH
Confidence               12222221  123455666677777888888888887776644321    2     234556777777777776655


Q ss_pred             HHHHcCCCCCHHh--------------HHHHHHHHHhcCCHHHHHHHHHHHHhc----CCCCCh----hhHHHHH-HHHH
Q 040367          240 LMIQIGVRPNAFV--------------YNTLMDGFCLTGRVNRAKELFVSMESM----GCTHTV----FSYSILI-NGYC  296 (400)
Q Consensus       240 ~~~~~~~~~~~~~--------------~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~----~~~~~l~-~~~~  296 (400)
                      +..-    |...+              ...-|..+.+.|++-.|.+++.+|.+.    +.++-.    .+..+++ .-+.
T Consensus       903 ~~~l----~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae~e~~K~~p~lr~KklYVL~AlLvE~h~  978 (1189)
T KOG2041|consen  903 RFQL----PQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKKLYVLGALLVENHR  978 (1189)
T ss_pred             hccc----hhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHHHHHH
Confidence            4321    11111              112344556667766777777766442    222211    1111111 1111


Q ss_pred             ----------hcCCHHHHHHHHHHHHhC---CCC------CchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc-CCCCCHH
Q 040367          297 ----------KNKEIEGALSLYGEMLSK---GIK------PDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD-GVAADTW  356 (400)
Q Consensus       297 ----------~~~~~~~a~~~~~~~~~~---~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~  356 (400)
                                ..|..++|..+++...-.   .+.      .....|..+.+-....|..+.|+..--.+.+. .+-|...
T Consensus       979 ~~ik~~~~~~~~g~~~dat~lles~~l~~~~ri~~n~WrgAEAyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~e 1058 (1189)
T KOG2041|consen  979 QTIKELRKIDKHGFLEDATDLLESGLLAEQSRILENTWRGAEAYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAE 1058 (1189)
T ss_pred             HHHHHhhhhhhcCcchhhhhhhhhhhhhhHHHHHHhhhhhHHHHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHH
Confidence                      223444444433322110   000      01223334444455667777777654444432 3567778


Q ss_pred             HHHHHHHHHHhcCcHHH
Q 040367          357 TYRTFIDGLCKNSYIVE  373 (400)
Q Consensus       357 ~~~~l~~~~~~~g~~~~  373 (400)
                      +|+.+..+-+....+.-
T Consensus      1059 iySllALaaca~raFGt 1075 (1189)
T KOG2041|consen 1059 IYSLLALAACAVRAFGT 1075 (1189)
T ss_pred             HHHHHHHHHhhhhhhhh
Confidence            88877666555544433

>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=97.19  E-value=0.015  Score=41.03  Aligned_cols=99  Identities=10%  Similarity=-0.004  Sum_probs=63.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHH
Q 040367          121 NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAK  200 (400)
Q Consensus       121 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  200 (400)
                      |..++..++.++++.|+.+....+++..-..+......+..        .-......|+..+..+++.+|+..|++..|+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~--------~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al   72 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGD--------YPPSSPLYPTSRLLIAIVHSFGYNGDIFSAL   72 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCc--------cCCCCCCCCCHHHHHHHHHHHHhcccHHHHH
Confidence            34556666666666666666666665543332221111110        1123346788889999999999999999999


Q ss_pred             HHHHHHHhC-CCCCCHHHHHHHHHHHHh
Q 040367          201 CLLIEMMDQ-GVQPNVVTFNVIMDELCK  227 (400)
Q Consensus       201 ~~~~~~~~~-~~~~~~~~~~~l~~~~~~  227 (400)
                      ++++...+. +++.+..+|..|+.-+..
T Consensus        73 ~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   73 KLVDFFSRKYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            999887653 566677888888875544

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.19  E-value=0.11  Score=43.99  Aligned_cols=166  Identities=12%  Similarity=0.011  Sum_probs=101.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHh---CCChHHHHHHHHHHHHcCCCCCHHhHHH
Q 040367          182 TYTSVIRGFCYANDWNEAKCLLIEMMDQG---VQPNVVTFNVIMDELCK---NGKMDEASRLLDLMIQIGVRPNAFVYNT  255 (400)
Q Consensus       182 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~  255 (400)
                      +...++-.|....+++..+++++.+....   +......-....-++.+   .|+.++|.+++..+......+++.++..
T Consensus       143 iv~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL  222 (374)
T PF13281_consen  143 IVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGL  222 (374)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHH
Confidence            44456667999999999999999998752   22233333344556667   8999999999999776666778888888


Q ss_pred             HHHHHHhc---------CCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC-HH---HHHHHH---H-HHHhCCC--
Q 040367          256 LMDGFCLT---------GRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKE-IE---GALSLY---G-EMLSKGI--  316 (400)
Q Consensus       256 l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~---~a~~~~---~-~~~~~~~--  316 (400)
                      +...|-..         ...++|...|.+.-+..  |+..+--.++..+...|. .+   +..++-   . .+.++|.  
T Consensus       223 ~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~--~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~  300 (374)
T PF13281_consen  223 LGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIE--PDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLE  300 (374)
T ss_pred             HHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCC--ccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccc
Confidence            87766422         23677777777766543  443322222222222332 11   222222   1 1112232  


Q ss_pred             -CCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          317 -KPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       317 -~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                       ..+.-.+.+++.+..-.|++++|.+..++|.+.
T Consensus       301 ~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  301 KMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence             223334456777777788888888888888875

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.16  E-value=0.19  Score=45.88  Aligned_cols=331  Identities=11%  Similarity=0.063  Sum_probs=172.6

Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh--hhHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 040367           21 NILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRV--SHGFVVLGRILRSCFTPNAVTFTSLIKGLC   98 (400)
Q Consensus        21 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (400)
                      ..++.-+...+.+..|+++-..+...-... ...|......+.+..+.  +++++..++=++... -....|........
T Consensus       441 ~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~-~~~iSy~~iA~~Ay  518 (829)
T KOG2280|consen  441 EVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKL-TPGISYAAIARRAY  518 (829)
T ss_pred             hhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhccCccchHHHHHHHHHhcccC-CCceeHHHHHHHHH
Confidence            345666777777788887777665332121 45566666666555322  222222222222211 23445666666666


Q ss_pred             hcCCHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCC---CcccchHHHHHHHHHH
Q 040367           99 AESRIMEAAALFTKLRVFGC----EPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEF---GVEGFVDKAKELFLQM  171 (400)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~~a~~~~~~~  171 (400)
                      ..|+++-|..+++.=...+.    -.+..-+...+.-+.+.|+.+-...++-.+...-...   ....+...|..+|.+.
T Consensus       519 ~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~lY~~~  598 (829)
T KOG2280|consen  519 QEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALSLYRQF  598 (829)
T ss_pred             hcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHH
Confidence            78888888877664222210    0122233445555666666666666655554311000   0000112222222222


Q ss_pred             HhCCCCCChHhHHHHHHHHHhcCCHHHHHHHH-HHHHh----CCCCCCHHHHHHHHHHHHhCCChH----------HHHH
Q 040367          172 KDENINPDVVTYTSVIRGFCYANDWNEAKCLL-IEMMD----QGVQPNVVTFNVIMDELCKNGKMD----------EASR  236 (400)
Q Consensus       172 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~-~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~----------~a~~  236 (400)
                      .+..   +..   .+-..|.+..+...+-.+. +...+    .+..|+   .....+.+.+.....          +-++
T Consensus       599 ~r~~---~~~---~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~---lk~~a~~~a~sk~~s~e~ka~ed~~kLl~  669 (829)
T KOG2280|consen  599 MRHQ---DRA---TLYDFYNQDDNHQALASFHLQASYAAETIEGRIPA---LKTAANAFAKSKEKSFEAKALEDQMKLLK  669 (829)
T ss_pred             HHhh---chh---hhhhhhhcccchhhhhhhhhhhhhhhhhhcccchh---HHHHHHHHhhhhhhhhHHHHHHHHHHHHH
Confidence            2210   000   0111122222222221111 11111    122222   233344444433311          1112


Q ss_pred             HHHHHHHc-CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040367          237 LLDLMIQI-GVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG  315 (400)
Q Consensus       237 ~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  315 (400)
                      +.+.+... |......+.+--+.-+...|+..+|.++-.+..    -|+...|-.=+.+++..+++++-+++-+...   
T Consensus       670 lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk---  742 (829)
T KOG2280|consen  670 LQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK---  742 (829)
T ss_pred             HHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC---
Confidence            22222221 222233445555666778899999999888776    7888889888999999999998887755443   


Q ss_pred             CCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 040367          316 IKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTL  381 (400)
Q Consensus       316 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  381 (400)
                         .+.-|.-...+|.+.|+.++|.+++-+....     .    ....+|.+.|++.+|.++--+-
T Consensus       743 ---sPIGy~PFVe~c~~~~n~~EA~KYiprv~~l-----~----ekv~ay~~~~~~~eAad~A~~~  796 (829)
T KOG2280|consen  743 ---SPIGYLPFVEACLKQGNKDEAKKYIPRVGGL-----Q----EKVKAYLRVGDVKEAADLAAEH  796 (829)
T ss_pred             ---CCCCchhHHHHHHhcccHHHHhhhhhccCCh-----H----HHHHHHHHhccHHHHHHHHHHh
Confidence               2445677889999999999999988765321     1    4667888889988887764443

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.13  E-value=0.14  Score=43.84  Aligned_cols=128  Identities=16%  Similarity=0.204  Sum_probs=75.0

Q ss_pred             HHhCCC-hHHHHHHHHHHHHcCCCCCHHhHHHHH----HHHHh---cCCHHHHHHHHHHHHhcCCCCChh----hHHHHH
Q 040367          225 LCKNGK-MDEASRLLDLMIQIGVRPNAFVYNTLM----DGFCL---TGRVNRAKELFVSMESMGCTHTVF----SYSILI  292 (400)
Q Consensus       225 ~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~----~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~  292 (400)
                      +-+.|. -++|+++++.+.+-. +-|...-+.+.    .+|.+   ...+.+-..+-+-+.+.|++|-..    .-|.|.
T Consensus       389 lW~~g~~dekalnLLk~il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~La  467 (549)
T PF07079_consen  389 LWEIGQCDEKALNLLKLILQFT-NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLA  467 (549)
T ss_pred             HHhcCCccHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHH
Confidence            334444 778888888887741 12332222221    22222   133444444545556666665332    233333


Q ss_pred             HH--HHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHH
Q 040367          293 NG--YCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRT  360 (400)
Q Consensus       293 ~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  360 (400)
                      .+  +...|++.++.-.-..+.+  +.|++.+|..++-++....++++|..++..+     +|+..++++
T Consensus       468 DAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L-----P~n~~~~ds  530 (549)
T PF07079_consen  468 DAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKL-----PPNERMRDS  530 (549)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC-----CCchhhHHH
Confidence            22  3467888887766666655  5678888888888888888888888887753     566665553

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=97.08  E-value=0.0025  Score=40.83  Aligned_cols=69  Identities=23%  Similarity=0.297  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCC-ChHhHHHHHHHHHhcCCHHHHH
Q 040367          122 VFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINP-DVVTYTSVIRGFCYANDWNEAK  200 (400)
Q Consensus       122 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~  200 (400)
                      ..+++.+...|...|++++|+..|++                |+++.+.....  .| ...++..+..++...|++++|+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~----------------al~~~~~~~~~--~~~~a~~~~~lg~~~~~~g~~~~A~   66 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEK----------------ALDIEEQLGDD--HPDTANTLNNLGECYYRLGDYEEAL   66 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHH----------------HHHHHHHTTTH--HHHHHHHHHHHHHHHHHTTHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHH----------------HHHHHHHHCCC--CHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            45788999999999999999999655                44443333221  22 2667888999999999999999


Q ss_pred             HHHHHHHh
Q 040367          201 CLLIEMMD  208 (400)
Q Consensus       201 ~~~~~~~~  208 (400)
                      +.+++..+
T Consensus        67 ~~~~~al~   74 (78)
T PF13424_consen   67 EYYQKALD   74 (78)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99988764

...

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.06  E-value=0.23  Score=45.07  Aligned_cols=315  Identities=13%  Similarity=0.060  Sum_probs=159.6

Q ss_pred             CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc-CCCC--------ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 040367           49 FPDLYTYNILINCFCKMGRVSHGFVVLGRILRS-CFTP--------NAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCE  119 (400)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  119 (400)
                      .|.+..|..+.......-.++.|...|-+.... |++.        +...-.+-+.  .--|++++|+++|-.+.++.  
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 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEIS--AFYGEFEEAEKLYLDADRRD--  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHh--hhhcchhHhhhhhhccchhh--
Confidence            478889999988888877888887777665432 2211        1111112222  23588899999887776542  


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHH
Q 040367          120 PNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEA  199 (400)
Q Consensus       120 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  199 (400)
                             ..+..+.+.|++-...++++.-   +...+.++ .+   ..++.+-+.  -.+...|......|...|+.+.-
T Consensus       765 -------LAielr~klgDwfrV~qL~r~g---~~d~dD~~-~e---~A~r~ig~~--fa~~~~We~A~~yY~~~~~~e~~  828 (1189)
T KOG2041|consen  765 -------LAIELRKKLGDWFRVYQLIRNG---GSDDDDEG-KE---DAFRNIGET--FAEMMEWEEAAKYYSYCGDTENQ  828 (1189)
T ss_pred             -------hhHHHHHhhhhHHHHHHHHHcc---CCCcchHH-HH---HHHHHHHHH--HHHHHHHHHHHHHHHhccchHhH
Confidence                   3455566667665555444331   11111111 11   112222111  11233444455555555554433


Q ss_pred             HHHHHHHH--------hCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHH
Q 040367          200 KCLLIEMM--------DQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKE  271 (400)
Q Consensus       200 ~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  271 (400)
                      ++.+-.+.        ....+.+....-.+..++.+.|.-++|.+.+-+..    .|.     ..+.+|...++|.+|.+
T Consensus       829 ~ecly~le~f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s----~pk-----aAv~tCv~LnQW~~ave  899 (1189)
T KOG2041|consen  829 IECLYRLELFGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYLRRS----LPK-----AAVHTCVELNQWGEAVE  899 (1189)
T ss_pred             HHHHHHHHhhhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHHhcc----CcH-----HHHHHHHHHHHHHHHHH
Confidence            33222211        11244556666777788888888888877765432    122     34567777888888887


Q ss_pred             HHHHHHhcCCCCChhhH--------------HHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCchh----hHHHH-HH
Q 040367          272 LFVSMESMGCTHTVFSY--------------SILINGYCKNKEIEGALSLYGEMLSK----GIKPDVV----IYNTL-FV  328 (400)
Q Consensus       272 ~~~~~~~~~~~~~~~~~--------------~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~----~~~~l-~~  328 (400)
                      +-+...    -|...+.              -.-|..+.+.|..-.|.+++.+|.+.    +.++-..    ...++ +.
T Consensus       900 laq~~~----l~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae~e~~K~~p~lr~KklYVL~AlLvE  975 (1189)
T KOG2041|consen  900 LAQRFQ----LPQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKKLYVLGALLVE  975 (1189)
T ss_pred             HHHhcc----chhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHHH
Confidence            765543    2222221              11233455566665666666666543    3332211    11111 11


Q ss_pred             HH----------HhhCcHHHHHHHHHHHHHc---CCC------CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-cccc
Q 040367          329 VL----------FEIHQVERAFKLFDEMQRD---GVA------ADTWTYRTFIDGLCKNSYIVEAVELFRTLRIL-KCEL  388 (400)
Q Consensus       329 ~~----------~~~~~~~~a~~~~~~~~~~---~~~------~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~p  388 (400)
                      -+          -..|..++|..+++...-.   .+.      -....|..|.+--...|..+.|++.--.+.+. .+-|
T Consensus       976 ~h~~~ik~~~~~~~~g~~~dat~lles~~l~~~~ri~~n~WrgAEAyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lp 1055 (1189)
T KOG2041|consen  976 NHRQTIKELRKIDKHGFLEDATDLLESGLLAEQSRILENTWRGAEAYHFMILAQRQLFEGRVKDALQTALILSDYEDFLP 1055 (1189)
T ss_pred             HHHHHHHHhhhhhhcCcchhhhhhhhhhhhhhHHHHHHhhhhhHHHHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCC
Confidence            11          1245666666655543211   011      12233445555556678888888765555422 2445


Q ss_pred             hhHHHHHH
Q 040367          389 DIRAYNCL  396 (400)
Q Consensus       389 ~~~~~~~l  396 (400)
                      ..+.|..|
T Consensus      1056 P~eiySll 1063 (1189)
T KOG2041|consen 1056 PAEIYSLL 1063 (1189)
T ss_pred             HHHHHHHH
Confidence            55555443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.04  E-value=0.027  Score=48.36  Aligned_cols=65  Identities=15%  Similarity=0.039  Sum_probs=50.6

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCC-H---HHHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPD-L---YTYNILINCFCKMGRVSHGFVVLGRILRS   81 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (400)
                      .+...|+.+..+|.+.|++++|+..|++..+..  |+ .   .+|..+..+|...|+.++|++.+++.++.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            466678888888888888888888888887764  44 2   35788888888888888888888888765

>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=97.03  E-value=0.014  Score=41.09  Aligned_cols=86  Identities=12%  Similarity=0.063  Sum_probs=61.7

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC---------------CCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHH
Q 040367          284 TVFSYSILINGYCKNKEIEGALSLYGEMLSK---------------GIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       284 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  348 (400)
                      |..++..++.++++.|+.+....+++..-.-               ...|+..+..+++.+|+..|++..|.++++...+
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            4567888888999999998888888765321               2346667777777888888888888888877665


Q ss_pred             c-CCCCCHHHHHHHHHHHHhcC
Q 040367          349 D-GVAADTWTYRTFIDGLCKNS  369 (400)
Q Consensus       349 ~-~~~~~~~~~~~l~~~~~~~g  369 (400)
                      . +++.+..+|..|+.-+...-
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~v~s  102 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAYVLS  102 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHHHhc
Confidence            4 56666777777777555443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.00  E-value=0.19  Score=43.09  Aligned_cols=335  Identities=14%  Similarity=0.147  Sum_probs=182.1

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 040367           37 LSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        37 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      +++=+++.+.  |.|..+|-.|++-+...+..++..++++++..- .+--..+|..-+++-...+++..++.+|.+....
T Consensus        29 lrLRerIkdN--PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k  105 (660)
T COG5107          29 LRLRERIKDN--PTNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKK  105 (660)
T ss_pred             HHHHHHhhcC--chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhh
Confidence            3444444443  568889999999999999999999999999753 2334567888887777788999999999988876


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCh------HHHHHHHHHHHcC-----------------------CCCCCcccchHHHHHH
Q 040367          117 GCEPNVFTYNTLINGLYRTGHT------IVALNLFEEMASG-----------------------NGEFGVEGFVDKAKEL  167 (400)
Q Consensus       117 ~~~~~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~-----------------------~~~~~~~~~~~~a~~~  167 (400)
                        ..+...|...+.---+.+..      ....+.|+-....                       ...+..+.+++...+.
T Consensus       106 --~l~ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~  183 (660)
T COG5107         106 --SLNLDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNG  183 (660)
T ss_pred             --hccHhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHH
Confidence              34566666655544443311      1112223322221                       1111224556666666


Q ss_pred             HHHHHhCCCCCChHhHH------HHHHHHH-------hcCCHHHHHHHHHHHHh--CCCC----CCHH------------
Q 040367          168 FLQMKDENINPDVVTYT------SVIRGFC-------YANDWNEAKCLLIEMMD--QGVQ----PNVV------------  216 (400)
Q Consensus       168 ~~~~~~~~~~~~~~~~~------~l~~~~~-------~~~~~~~a~~~~~~~~~--~~~~----~~~~------------  216 (400)
                      +.++....+..=...|+      .-+.-..       ..--+-.|...+++...  .|..    .+..            
T Consensus       184 Y~ral~tP~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~  263 (660)
T COG5107         184 YMRALQTPMGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSN  263 (660)
T ss_pred             HHHHHcCccccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccch
Confidence            66666532111111111      1111000       00112334444444321  1110    0001            


Q ss_pred             --------------------------HHHHHHH--------------HHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHH
Q 040367          217 --------------------------TFNVIMD--------------ELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTL  256 (400)
Q Consensus       217 --------------------------~~~~l~~--------------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  256 (400)
                                                .++..+.              .+...++-+.|++...+.    .+-.+...-.+
T Consensus       264 WlNwIkwE~en~l~L~~~~~~qRi~y~~~q~~~y~~~~~evw~dys~Y~~~isd~q~al~tv~rg----~~~spsL~~~l  339 (660)
T COG5107         264 WLNWIKWEMENGLKLGGRPHEQRIHYIHNQILDYFYYAEEVWFDYSEYLIGISDKQKALKTVERG----IEMSPSLTMFL  339 (660)
T ss_pred             hhhHhhHhhcCCcccCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhccHHHHHHHHHHhc----ccCCCchheeH
Confidence                                      1111111              112233344444443332    22222111112


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh--------------cCC---------------CCChhhHHHHHHHHHhcCCHHHHHHH
Q 040367          257 MDGFCLTGRVNRAKELFVSMES--------------MGC---------------THTVFSYSILINGYCKNKEIEGALSL  307 (400)
Q Consensus       257 ~~~~~~~~~~~~a~~~~~~~~~--------------~~~---------------~~~~~~~~~l~~~~~~~~~~~~a~~~  307 (400)
                      ...|.-.++.+.....|+...+              .+.               ..-..+|..++.+-.+..-++.|..+
T Consensus       340 se~yel~nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR~~  419 (660)
T COG5107         340 SEYYELVNDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAARKL  419 (660)
T ss_pred             HHHHhhcccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHH
Confidence            2233333333333332322200              010               11223466677777778889999999


Q ss_pred             HHHHHhCC-CCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          308 YGEMLSKG-IKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       308 ~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                      |-++.+.+ +.++...+++++..++ .|++.-|..+|+--... ++.+...-...+..+.+-++-..|..+|++..
T Consensus       420 F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~-f~d~~~y~~kyl~fLi~inde~naraLFetsv  493 (660)
T COG5107         420 FIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK-FPDSTLYKEKYLLFLIRINDEENARALFETSV  493 (660)
T ss_pred             HHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh-CCCchHHHHHHHHHHHHhCcHHHHHHHHHHhH
Confidence            99999988 5677888888888775 68889999999987665 33333334556667778888888888888554

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.88  E-value=0.24  Score=42.49  Aligned_cols=121  Identities=19%  Similarity=0.200  Sum_probs=72.7

Q ss_pred             HHHHHHHHHHHHhcCCCCChhhHHHHH----HHHHh---cCCHHHHHHHHHHHHhCCCCCchh----hHHHHHH--HHHh
Q 040367          266 VNRAKELFVSMESMGCTHTVFSYSILI----NGYCK---NKEIEGALSLYGEMLSKGIKPDVV----IYNTLFV--VLFE  332 (400)
Q Consensus       266 ~~~a~~~~~~~~~~~~~~~~~~~~~l~----~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~--~~~~  332 (400)
                      -++|..+++.+.+-. +-|...-+.+.    .+|.+   ...+.+-+.+-.-+.+.|+.|-..    .-|.+..  .+..
T Consensus       396 dekalnLLk~il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLys  474 (549)
T PF07079_consen  396 DEKALNLLKLILQFT-NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYS  474 (549)
T ss_pred             cHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHh
Confidence            566777777666543 22333222222    22222   123333334434444556655332    3333432  3456


Q ss_pred             hCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHH
Q 040367          333 IHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYN  394 (400)
Q Consensus       333 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  394 (400)
                      .|++.++.-.-..+.+  +.|++.+|..+.-+.....++++|..++..+.     |+..+++
T Consensus       475 qgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP-----~n~~~~d  529 (549)
T PF07079_consen  475 QGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP-----PNERMRD  529 (549)
T ss_pred             cccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC-----CchhhHH
Confidence            7888888777666665  68899999999999999999999999988764     5555544

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.87  E-value=0.12  Score=41.61  Aligned_cols=130  Identities=16%  Similarity=0.130  Sum_probs=90.3

Q ss_pred             HHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH
Q 040367           24 FGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRI  103 (400)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  103 (400)
                      .......|++.+|..+|....... +-+...-..+..+|...|+.+.|..++..+....-.........-|..+.+....
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcC
Confidence            335677899999999999988774 3356677888899999999999999999887653222222222344555555555


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCC
Q 040367          104 MEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFG  156 (400)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  156 (400)
                      .+..++-.+.-..  +-|...-..+...+...|+.+.|++.+-.+...+....
T Consensus       220 ~~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~  270 (304)
T COG3118         220 PEIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE  270 (304)
T ss_pred             CCHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc
Confidence            5555555555443  44777778888899999998888887777766554433

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.85  E-value=0.25  Score=44.39  Aligned_cols=209  Identities=13%  Similarity=0.173  Sum_probs=105.7

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHH-----HHHHHHHhcCCHHHHHHHHHHH
Q 040367           39 LFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFT-----SLIKGLCAESRIMEAAALFTKL  113 (400)
Q Consensus        39 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~  113 (400)
                      -++++.++|-.|+...   +...++-.|++.+|-++|.+--..+  .-.+.|+     ...+-+...|..++-..+.++-
T Consensus       622 EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~en--RAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKR  696 (1081)
T KOG1538|consen  622 ELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRSGHEN--RALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKR  696 (1081)
T ss_pred             HHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHcCchh--hHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHH
Confidence            3445666676676543   3445566777777777765432110  0001111     1122233334333333333222


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhc
Q 040367          114 RVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYA  193 (400)
Q Consensus       114 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  193 (400)
                      -+.  ..+..-=......+...|+.++|..+.-.          .|=.+.+.++-+++..    .+..+...+...+.+.
T Consensus       697 A~W--Ar~~kePkaAAEmLiSaGe~~KAi~i~~d----------~gW~d~lidI~rkld~----~ere~l~~~a~ylk~l  760 (1081)
T KOG1538|consen  697 ADW--ARNIKEPKAAAEMLISAGEHVKAIEICGD----------HGWVDMLIDIARKLDK----AEREPLLLCATYLKKL  760 (1081)
T ss_pred             HHH--hhhcCCcHHHHHHhhcccchhhhhhhhhc----------ccHHHHHHHHHhhcch----hhhhHHHHHHHHHhhc
Confidence            111  00111112234455566776666655322          1222333333333322    2445555566666667


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHH-----------hHHHHHHHHHh
Q 040367          194 NDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAF-----------VYNTLMDGFCL  262 (400)
Q Consensus       194 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----------~~~~l~~~~~~  262 (400)
                      ..+.-|-++|.+|-+.         ..++......+++++|..+-++.-+.  .|+..           -|...-.+|.+
T Consensus       761 ~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhk  829 (1081)
T KOG1538|consen  761 DSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHK  829 (1081)
T ss_pred             cccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHH
Confidence            7777888888777542         34566777788888888777665442  22221           12334456777


Q ss_pred             cCCHHHHHHHHHHHHhc
Q 040367          263 TGRVNRAKELFVSMESM  279 (400)
Q Consensus       263 ~~~~~~a~~~~~~~~~~  279 (400)
                      .|+-.+|..+++++...
T Consensus       830 AGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  830 AGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hcchHHHHHHHHHhhhh
Confidence            78888888888777543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.81  E-value=0.23  Score=44.43  Aligned_cols=162  Identities=16%  Similarity=0.092  Sum_probs=107.5

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHH------hHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCChhh
Q 040367          218 FNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAF------VYNTLMDGFCL----TGRVNRAKELFVSMESMGCTHTVFS  287 (400)
Q Consensus       218 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  287 (400)
                      +..++...+-.|+-+.+++.+.+..+.+---.+.      .|...+..++.    ..+.+.|.+++..+.+.  -|+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~l  268 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSAL  268 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHH
Confidence            4566777777899999999998877643211221      22333333322    45678899999999876  566665


Q ss_pred             HHHH-HHHHHhcCCHHHHHHHHHHHHhCCC---CCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 040367          288 YSIL-INGYCKNKEIEGALSLYGEMLSKGI---KPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFID  363 (400)
Q Consensus       288 ~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  363 (400)
                      |... .+.+...|++++|++.+++......   ......+--++.++.-.+++++|.+.|..+.+.. .-+..+|..+..
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a  347 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHH
Confidence            5433 4566778999999999997664211   1123344556777888999999999999998862 223445554444


Q ss_pred             H-HHhcCcH-------HHHHHHHHHHH
Q 040367          364 G-LCKNSYI-------VEAVELFRTLR  382 (400)
Q Consensus       364 ~-~~~~g~~-------~~a~~~~~~~~  382 (400)
                      + +...|+.       ++|.++|++..
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            3 3456777       88888888875

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.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.80  E-value=0.042  Score=46.13  Aligned_cols=92  Identities=10%  Similarity=0.012  Sum_probs=50.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC-----CCCC---------CHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHh
Q 040367          187 IRGFCYANDWNEAKCLLIEMMDQ-----GVQP---------NVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFV  252 (400)
Q Consensus       187 ~~~~~~~~~~~~a~~~~~~~~~~-----~~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  252 (400)
                      .+.+.+.|++..|...|++....     +.++         -..++..+.-++.+.+++..|+..-++.+..+ ++|...
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KA  293 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKA  293 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhH
Confidence            34677888888888888876542     1111         11234444445555555555555555555543 234444


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESM  279 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~  279 (400)
                      ...-..++...|+++.|+..|+.+.+.
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k~  320 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALKL  320 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            444455555555555555555555554

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.76  E-value=0.042  Score=47.31  Aligned_cols=64  Identities=17%  Similarity=0.003  Sum_probs=37.9

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-h---hhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          249 NAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHT-V---FSYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       249 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      +...++.+..+|.+.|++++|...|++..+.+  |+ .   ..|..+..+|...|+.++|++.++++++.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34555666666666666666666666666553  32 2   23566666666666666666666666653

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.71  E-value=0.097  Score=37.40  Aligned_cols=82  Identities=13%  Similarity=0.112  Sum_probs=58.5

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           18 CSFNILFGCLAKNKHYDTVLSLFKRLNSTGL--FPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      ..+..-.....+.|++++|.+.|+.+..+-.  +-...+.-.++.++.+.++++.|...+++.++..+.-...-|...+.
T Consensus        11 ~~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~   90 (142)
T PF13512_consen   11 QELYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMR   90 (142)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHH
Confidence            3444455667788999999999999987621  22455677888999999999999999999998754333344555555


Q ss_pred             HHHh
Q 040367           96 GLCA   99 (400)
Q Consensus        96 ~~~~   99 (400)
                      +++.
T Consensus        91 gL~~   94 (142)
T PF13512_consen   91 GLSY   94 (142)
T ss_pred             HHHH
Confidence            4443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.71  E-value=0.3  Score=41.12  Aligned_cols=292  Identities=14%  Similarity=0.094  Sum_probs=171.0

Q ss_pred             HHHHHHHHh--ccCChhHHHHHHHHHHhCCCCCCHHHHHHHHH--HHHhcCChhhHHHHHHHHHhcCCCCChhh--HHHH
Q 040367           20 FNILFGCLA--KNKHYDTVLSLFKRLNSTGLFPDLYTYNILIN--CFCKMGRVSHGFVVLGRILRSCFTPNAVT--FTSL   93 (400)
Q Consensus        20 ~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l   93 (400)
                      |..|-.++.  -.|+-..|.++-.+.... +..|..-...++.  +-.-.|+++.|.+-|+.|...   |....  ...|
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgL  160 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGL  160 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHH
Confidence            444443333  346666676666655432 2334444444443  344568888888888888752   22221  1122


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHh
Q 040367           94 IKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKD  173 (400)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  173 (400)
                      .-.--+.|..+.|.++-+..-..- +.-...+...+...+..|+++.|+++++.-...              .+      
T Consensus       161 yleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~--------------~v------  219 (531)
T COG3898         161 YLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAA--------------KV------  219 (531)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHH--------------Hh------
Confidence            222335677777777777665542 334667788888888888888777776654321              11      


Q ss_pred             CCCCCCh--HhHHHHHHHH---HhcCCHHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHhCCChHHHHHHHHHHHHcCCC
Q 040367          174 ENINPDV--VTYTSVIRGF---CYANDWNEAKCLLIEMMDQGVQPNVVT-FNVIMDELCKNGKMDEASRLLDLMIQIGVR  247 (400)
Q Consensus       174 ~~~~~~~--~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  247 (400)
                        +.++.  ..-..|+.+-   .-..+...|...-.+..+.  .||..- -.....++.+.|+..++-.+++.+.+....
T Consensus       220 --ie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePH  295 (531)
T COG3898         220 --IEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPH  295 (531)
T ss_pred             --hchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCC
Confidence              11111  1111222211   1223456666666555553  455432 233456788999999999999999987444


Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHH---HhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHH
Q 040367          248 PNAFVYNTLMDGFCLTGRVNRAKELFVSM---ESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYN  324 (400)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  324 (400)
                      |+  +.  .+..+.+.|+.  +..-+++.   .... +.+..+.-.+..+-...|++..|..--+...+.  .|....|.
T Consensus       296 P~--ia--~lY~~ar~gdt--a~dRlkRa~~L~slk-~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~--~pres~~l  366 (531)
T COG3898         296 PD--IA--LLYVRARSGDT--ALDRLKRAKKLESLK-PNNAESSLAVAEAALDAGEFSAARAKAEAAARE--APRESAYL  366 (531)
T ss_pred             hH--HH--HHHHHhcCCCc--HHHHHHHHHHHHhcC-ccchHHHHHHHHHHHhccchHHHHHHHHHHhhh--CchhhHHH
Confidence            43  33  22334455553  33333333   2222 445666677778888889998888777766654  56777777


Q ss_pred             HHHHHHH-hhCcHHHHHHHHHHHHHc
Q 040367          325 TLFVVLF-EIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       325 ~l~~~~~-~~~~~~~a~~~~~~~~~~  349 (400)
                      .|...-. ..|+-.++..++-+..+.
T Consensus       367 LlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         367 LLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             HHHHHHhhccCchHHHHHHHHHHhcC
Confidence            7766543 459999999999888875

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.71  E-value=0.2  Score=39.17  Aligned_cols=207  Identities=14%  Similarity=0.088  Sum_probs=103.5

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 040367           52 LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLING  131 (400)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  131 (400)
                      ...|.....+|-..+++++|...+.+..+. ...+...|++       ...++.|.-+.+++.+.  +.-+..|+.....
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhA-------AKayEqaamLake~~kl--sEvvdl~eKAs~l  100 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHA-------AKAYEQAAMLAKELSKL--SEVVDLYEKASEL  100 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHH-------HHHHHHHHHHHHHHHHh--HHHHHHHHHHHHH
Confidence            345666667777888888888877777642 2323333221       22335555555555543  2234455666667


Q ss_pred             HHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhC---C--CCCChHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 040367          132 LYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDE---N--INPDVVTYTSVIRGFCYANDWNEAKCLLIEM  206 (400)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~---~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  206 (400)
                      |..+|.++.|-..+++.-..-.    ..++++|+++|++...-   +  .+--...+..+.+.+.+...+.+|-..+.+-
T Consensus       101 Y~E~GspdtAAmaleKAak~le----nv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe  176 (308)
T KOG1585|consen  101 YVECGSPDTAAMALEKAAKALE----NVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKE  176 (308)
T ss_pred             HHHhCCcchHHHHHHHHHHHhh----cCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHh
Confidence            7777777777666665432211    11245555555554321   1  0111223444455566666666655554433


Q ss_pred             HhC----CCCCCH-HHHHHHHHHHHhCCChHHHHHHHHHHHHcCC---CCCHHhHHHHHHHHHhcCCHHHHHHHH
Q 040367          207 MDQ----GVQPNV-VTFNVIMDELCKNGKMDEASRLLDLMIQIGV---RPNAFVYNTLMDGFCLTGRVNRAKELF  273 (400)
Q Consensus       207 ~~~----~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~  273 (400)
                      ...    .--++. ..|...|-.+....++..|...++...+.+-   ..+..+...|+.+| ..||.+++..++
T Consensus       177 ~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  177 GVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             hhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            211    001111 2233344445555566666666666444321   12344555566555 455655555443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.69  E-value=0.08  Score=43.35  Aligned_cols=151  Identities=17%  Similarity=0.151  Sum_probs=94.5

Q ss_pred             ccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhCCChHHH
Q 040367          158 EGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ---GVQPNVVTFNVIMDELCKNGKMDEA  234 (400)
Q Consensus       158 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a  234 (400)
                      .|...+|-..++++.+. .|.|..++...=.+|.-.|+.+.....+++....   ++|-....-.++.-++...|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            56677777777777765 3667777777777888888877777777777643   2222223333444455667888888


Q ss_pred             HHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 040367          235 SRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTH---TVFSYSILINGYCKNKEIEGALSLYGE  310 (400)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~  310 (400)
                      ++.-++..+.+ +.|...-.+....+...|++.++.+++.+-...=...   -...|-...-.+...+.++.|+++|+.
T Consensus       195 Ek~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  195 EKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            88888877764 3355566667777777788888877766544311000   011122333345566788888888864

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.67  E-value=0.07  Score=44.89  Aligned_cols=92  Identities=13%  Similarity=0.023  Sum_probs=57.2

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHc-----CCCC---------CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhh
Q 040367          222 MDELCKNGKMDEASRLLDLMIQI-----GVRP---------NAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFS  287 (400)
Q Consensus       222 ~~~~~~~~~~~~a~~~~~~~~~~-----~~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  287 (400)
                      .+.+.+.|++..|..-|+++...     +..+         -..++..+..++.+.+++..|+..-......+ ++|...
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KA  293 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKA  293 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhH
Confidence            35678889999998888886653     1111         12234445556666666666666666666655 555555


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          288 YSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       288 ~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      .-.=.+++...|+++.|...|+++++.
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k~  320 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALKL  320 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            555566666666666666666666664

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.65  E-value=0.33  Score=40.85  Aligned_cols=296  Identities=12%  Similarity=0.060  Sum_probs=181.0

Q ss_pred             HHHHHHHHH--hcCChhhHHHHHHHHHhcCCCCChhhHHHHHH--HHHhcCCHHHHHHHHHHHHHcCCCCCHH--HHHHH
Q 040367           55 YNILINCFC--KMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK--GLCAESRIMEAAALFTKLRVFGCEPNVF--TYNTL  128 (400)
Q Consensus        55 ~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l  128 (400)
                      |..|-.+++  -.|+-..|.++-.+..+. +..|......++.  +-.-.|+++.|.+-|+.|...   |...  -...|
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgL  160 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGL  160 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHH
Confidence            445544444  356777777776665432 2334444444443  334578999999999998852   2222  12233


Q ss_pred             HHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          129 INGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMD  208 (400)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  208 (400)
                      .-..-+.|..+.|.++-+..                       -... +.-...+.+.+...+..|+|+.|+++++.-..
T Consensus       161 yleAqr~GareaAr~yAe~A-----------------------a~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~  216 (531)
T COG3898         161 YLEAQRLGAREAARHYAERA-----------------------AEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRA  216 (531)
T ss_pred             HHHHHhcccHHHHHHHHHHH-----------------------Hhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHH
Confidence            33344566655555544433                       2221 22356788899999999999999999998765


Q ss_pred             CC-CCCCHH--HHHHHHHHHH---hCCChHHHHHHHHHHHHcCCCCCHHh-HHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 040367          209 QG-VQPNVV--TFNVIMDELC---KNGKMDEASRLLDLMIQIGVRPNAFV-YNTLMDGFCLTGRVNRAKELFVSMESMGC  281 (400)
Q Consensus       209 ~~-~~~~~~--~~~~l~~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  281 (400)
                      .. +.++..  .-..++.+-.   -..+...|...-.+..+.  .|+... -..-..++.+.|+..++-.+++.+-+.. 
T Consensus       217 ~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~e-  293 (531)
T COG3898         217 AKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAE-  293 (531)
T ss_pred             HHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcC-
Confidence            43 233332  2222333221   123566666666666553  444322 2234567889999999999999998874 


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCC-chhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHH
Q 040367          282 THTVFSYSILINGYCKNKEIEGALSLYGEMLSK-GIKP-DVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYR  359 (400)
Q Consensus       282 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  359 (400)
                       |.+..+...  .+.+.|+  .+..-+++..+. ..+| +..+...+..+-...|++..|..--+...+  ..|....|.
T Consensus       294 -PHP~ia~lY--~~ar~gd--ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~l  366 (531)
T COG3898         294 -PHPDIALLY--VRARSGD--TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYL  366 (531)
T ss_pred             -CChHHHHHH--HHhcCCC--cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHH
Confidence             555444322  2344554  333333333321 1233 556667777888899999999888777766  478888888


Q ss_pred             HHHHHHHhc-CcHHHHHHHHHHHHHhcccc
Q 040367          360 TFIDGLCKN-SYIVEAVELFRTLRILKCEL  388 (400)
Q Consensus       360 ~l~~~~~~~-g~~~~a~~~~~~~~~~~~~p  388 (400)
                      .|.+.-... |+-.++..++-+..+.--.|
T Consensus       367 LlAdIeeAetGDqg~vR~wlAqav~APrdP  396 (531)
T COG3898         367 LLADIEEAETGDQGKVRQWLAQAVKAPRDP  396 (531)
T ss_pred             HHHHHHhhccCchHHHHHHHHHHhcCCCCC
Confidence            888766554 99999999988887643333

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.63  E-value=0.16  Score=36.91  Aligned_cols=125  Identities=15%  Similarity=0.166  Sum_probs=72.1

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 040367          219 NVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKN  298 (400)
Q Consensus       219 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  298 (400)
                      ..++..+...+.......+++.+...+. .+....+.++..|++.+ ..+....+..      ..+......+++.|.+.
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            4566666667777777777777777653 56667777777777653 3344444432      12333445566777777


Q ss_pred             CCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhh-CcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 040367          299 KEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEI-HQVERAFKLFDEMQRDGVAADTWTYRTFIDGLC  366 (400)
Q Consensus       299 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  366 (400)
                      +-++++..++.++-.     .    ...+..+... ++++.|.+++.+-      .+...|..++..+.
T Consensus        83 ~l~~~~~~l~~k~~~-----~----~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l  136 (140)
T smart00299       83 KLYEEAVELYKKDGN-----F----KDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALL  136 (140)
T ss_pred             CcHHHHHHHHHhhcC-----H----HHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHH
Confidence            777777777665532     1    1222223333 6667776665541      25556666665554

>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=96.57  E-value=0.14  Score=45.07  Aligned_cols=159  Identities=14%  Similarity=0.065  Sum_probs=92.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCH
Q 040367          188 RGFCYANDWNEAKCLLIEMM-DQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRV  266 (400)
Q Consensus       188 ~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  266 (400)
                      ....-.++++++.+....-. -..++  ....+.++.-+.+.|..+.|+++...-.            .-.....+.|++
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L  334 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNL  334 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-H
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCH
Confidence            34456777888766665211 11122  4446777777778888888887754321            123344577888


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHH
Q 040367          267 NRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEM  346 (400)
Q Consensus       267 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  346 (400)
                      +.|.++.+++      .+...|..|.....+.|+++-|.+.+++..+         +..|+-.|.-.|+.+.-.++.+..
T Consensus       335 ~~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a  399 (443)
T PF04053_consen  335 DIALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIA  399 (443)
T ss_dssp             HHHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHH
Confidence            8877765433      3566788888888888888888888776643         455666667778877777777766


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 040367          347 QRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTL  381 (400)
Q Consensus       347 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  381 (400)
                      ...|-      ++....++.-.|+.++..+++.+-
T Consensus       400 ~~~~~------~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  400 EERGD------INIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             HHTT-------HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             HHccC------HHHHHHHHHHcCCHHHHHHHHHHc
Confidence            66542      344455566667777776665443

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.47  E-value=0.56  Score=42.02  Aligned_cols=162  Identities=17%  Similarity=0.156  Sum_probs=109.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH------HHHHHHHHHHHh----CCChHHHHHHHHHHHHcCCCCCHHh
Q 040367          183 YTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNV------VTFNVIMDELCK----NGKMDEASRLLDLMIQIGVRPNAFV  252 (400)
Q Consensus       183 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  252 (400)
                      +..+++...-.||-+.+++.+.+..+.+---.+      -.|..++..+..    ....+.|.+++..+.+.  -|+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~l  268 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSAL  268 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHH
Confidence            455666677789999999999987764311122      234444444433    45678899999999886  455555


Q ss_pred             HH-HHHHHHHhcCCHHHHHHHHHHHHhcC--C-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHH-
Q 040367          253 YN-TLMDGFCLTGRVNRAKELFVSMESMG--C-THTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLF-  327 (400)
Q Consensus       253 ~~-~l~~~~~~~~~~~~a~~~~~~~~~~~--~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-  327 (400)
                      |. .-.+.+...|++++|.+.|+......  . ......+--+...+.-.++|++|.+.|..+.+.. ..+..+|.-+. 
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a  347 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHH
Confidence            43 34456778899999999999765321  1 1123344556677888999999999999999864 33555555444 


Q ss_pred             HHHHhhCcH-------HHHHHHHHHHH
Q 040367          328 VVLFEIHQV-------ERAFKLFDEMQ  347 (400)
Q Consensus       328 ~~~~~~~~~-------~~a~~~~~~~~  347 (400)
                      .++...|+.       ++|.++|.+..
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            344567777       88888888765

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.43  E-value=0.43  Score=39.58  Aligned_cols=139  Identities=12%  Similarity=0.180  Sum_probs=87.6

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--CC----ChHHHHHHHHHHHHcCCC---CCHHhHHHHHHHHHhcCC-
Q 040367          196 WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCK--NG----KMDEASRLLDLMIQIGVR---PNAFVYNTLMDGFCLTGR-  265 (400)
Q Consensus       196 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~-  265 (400)
                      +++.+.+++.+.+.|+.-+..+|-+.......  ..    ....+..+++.|.+...-   ++..++..++..  ..++ 
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            45667788889999888887777664443333  22    355788999999987432   234445445433  3333 


Q ss_pred             ---HHHHHHHHHHHHhcCCCCCh--hhHHHHHHHHHhcCC--HHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcH
Q 040367          266 ---VNRAKELFVSMESMGCTHTV--FSYSILINGYCKNKE--IEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQV  336 (400)
Q Consensus       266 ---~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  336 (400)
                         .+.++.+|+.+.+.|...+-  ...+.++..+.....  ..++.++++.+.+.|+++....|..++-...-.+..
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~  233 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPE  233 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCch
Confidence               46677888888887755433  333334433322222  457888999999999998888887776544433333

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.43  E-value=0.12  Score=35.90  Aligned_cols=91  Identities=14%  Similarity=0.087  Sum_probs=54.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchh---hHHHHHHHHHhhCc
Q 040367          259 GFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVV---IYNTLFVVLFEIHQ  335 (400)
Q Consensus       259 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~  335 (400)
                      +....|+.+.|++.|.+....- +.....||.-.+++.-.|+.++|++-+.+..+..-.-+..   .|..-...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            4556677777777777766553 4466667777777777777777777776666541111221   22223344555666


Q ss_pred             HHHHHHHHHHHHHcC
Q 040367          336 VERAFKLFDEMQRDG  350 (400)
Q Consensus       336 ~~~a~~~~~~~~~~~  350 (400)
                      -+.|..=|+..-+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            777777676666654

>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=96.41  E-value=0.32  Score=42.91  Aligned_cols=157  Identities=11%  Similarity=0.082  Sum_probs=81.0

Q ss_pred             HHHhccCChhHHHHHHH--HHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 040367           25 GCLAKNKHYDTVLSLFK--RLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESR  102 (400)
Q Consensus        25 ~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  102 (400)
                      ....-+++++.+.++.+  .+.. .++  ....+.++..+.+.|.++.|+++.+.-.            .-.....+.|+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~-~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~  333 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLP-NIP--KDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGN  333 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-
T ss_pred             HHHHHcCChhhhhhhhhhhhhcc-cCC--hhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCC
Confidence            34445667777666654  1111 111  3446666666777777777766543321            12334456677


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHh
Q 040367          103 IMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVT  182 (400)
Q Consensus       103 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  182 (400)
                      ++.|.++.++      ..+...|..|.....+.|+++-|.+.|++.                                .-
T Consensus       334 L~~A~~~a~~------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~--------------------------------~d  375 (443)
T PF04053_consen  334 LDIALEIAKE------LDDPEKWKQLGDEALRQGNIELAEECYQKA--------------------------------KD  375 (443)
T ss_dssp             HHHHHHHCCC------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHC--------------------------------T-
T ss_pred             HHHHHHHHHh------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhh--------------------------------cC
Confidence            7777766543      235667777777777777766555555442                                12


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHH
Q 040367          183 YTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDL  240 (400)
Q Consensus       183 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  240 (400)
                      +..|+-.|.-.|+.+...++.+.....|.      ++....++.-.|+.++..+++.+
T Consensus       376 ~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  376 FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            44555566666776666666666655541      34444455556666666666554

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.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=96.38  E-value=1.1  Score=43.64  Aligned_cols=81  Identities=17%  Similarity=0.145  Sum_probs=39.0

Q ss_pred             HHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHH
Q 040367          223 DELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIE  302 (400)
Q Consensus       223 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  302 (400)
                      ..+.....+++|.-.|+..-+.         ...+.+|..+|+|++|..+..++.... ..-..+-..|+.-+...+++-
T Consensus       947 ~hL~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~~~-de~~~~a~~L~s~L~e~~kh~ 1016 (1265)
T KOG1920|consen  947 DHLREELMSDEAALMYERCGKL---------EKALKAYKECGDWREALSLAAQLSEGK-DELVILAEELVSRLVEQRKHY 1016 (1265)
T ss_pred             HHHHHhccccHHHHHHHHhccH---------HHHHHHHHHhccHHHHHHHHHhhcCCH-HHHHHHHHHHHHHHHHcccch
Confidence            3334455555555555543221         123455666666666666665554211 000111134555555566666


Q ss_pred             HHHHHHHHHHh
Q 040367          303 GALSLYGEMLS  313 (400)
Q Consensus       303 ~a~~~~~~~~~  313 (400)
                      +|-++..+...
T Consensus      1017 eAa~il~e~~s 1027 (1265)
T KOG1920|consen 1017 EAAKILLEYLS 1027 (1265)
T ss_pred             hHHHHHHHHhc
Confidence            66655555443

>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=96.37  E-value=0.2  Score=35.06  Aligned_cols=62  Identities=11%  Similarity=0.145  Sum_probs=27.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCC
Q 040367          289 SILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGV  351 (400)
Q Consensus       289 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  351 (400)
                      ...+......|+-+.-.+++.++.+. -.+++...-.+..+|.+.|+..++.+++.++-+.|+
T Consensus        90 D~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   90 DLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            34444445555555555555554432 233444444555555555555555555555555443

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.30  E-value=0.11  Score=41.43  Aligned_cols=97  Identities=15%  Similarity=0.127  Sum_probs=61.8

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCC-C-ChhhHHHHH
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGL--FPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFT-P-NAVTFTSLI   94 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~   94 (400)
                      .|+.-+. +.+.|++..|.+.|....+...  .-...++-.|..++...|+++.|..+|..+.+...+ | -+..+-.|.
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            3555444 3456667777777777776531  112345666777777777777777777777765221 1 234555666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc
Q 040367           95 KGLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      .+..+.|+.++|...|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            6677777777777777777765

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.29  E-value=0.14  Score=40.83  Aligned_cols=97  Identities=10%  Similarity=0.116  Sum_probs=54.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC--CCHHhHHHHH
Q 040367          182 TYTSVIRGFCYANDWNEAKCLLIEMMDQGV--QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVR--PNAFVYNTLM  257 (400)
Q Consensus       182 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~  257 (400)
                      .|+.-+. +.+.|++..|...|...++...  .-....+..|..++...|+++.|..+|..+.+.-..  .-+..+-.|.
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            3554443 3455667777777776665421  112334555666666667777766666666654111  1234455555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhc
Q 040367          258 DGFCLTGRVNRAKELFVSMESM  279 (400)
Q Consensus       258 ~~~~~~~~~~~a~~~~~~~~~~  279 (400)
                      .+..+.|+.++|..+|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            5666666666666666666654

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.22  E-value=0.59  Score=39.02  Aligned_cols=201  Identities=12%  Similarity=0.052  Sum_probs=116.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHH----HhCC-CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHc-CCCC---CHHh
Q 040367          182 TYTSVIRGFCYANDWNEAKCLLIEM----MDQG-VQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQI-GVRP---NAFV  252 (400)
Q Consensus       182 ~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~  252 (400)
                      ++..+..+.++.|.+++++..--.-    .+.. -..--..|..+..++.+..++.+++.+-..-... |..|   ....
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            4455556667777776665433221    1110 0011234555555666656666666665554443 2222   1233


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-----CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCch---
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCT-----HTVFSYSILINGYCKNKEIEGALSLYGEMLSK----GIKPDV---  320 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~---  320 (400)
                      ..++..+....+.++++.+.|+...+....     ....++..|...|.+..++++|.-+..++.+.    ++..-.   
T Consensus       125 ~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~ky  204 (518)
T KOG1941|consen  125 SLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKY  204 (518)
T ss_pred             hhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHH
Confidence            445667777778888888888877553211     12456788888888888888888777665542    222111   


Q ss_pred             --hhHHHHHHHHHhhCcHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          321 --VIYNTLFVVLFEIHQVERAFKLFDEMQRD----GVAA-DTWTYRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       321 --~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                        ...-.+..++...|....|.+.-++..+.    |-.+ -......+.+.|...|+.+.|..-|+...
T Consensus       205 r~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  205 RAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence              12233445667778888888777776543    3222 13344566777888888888887777664

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=96.20  E-value=0.97  Score=41.57  Aligned_cols=180  Identities=14%  Similarity=0.062  Sum_probs=106.8

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHH----H-HHhCCChHHHHHHHHHHHH-------cCCCCCHHhHHHHHHHHHhc
Q 040367          196 WNEAKCLLIEMMDQGVQPNVVTFNVIMD----E-LCKNGKMDEASRLLDLMIQ-------IGVRPNAFVYNTLMDGFCLT  263 (400)
Q Consensus       196 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~----~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~  263 (400)
                      ...|.++++...+.|   +......+..    + +....+.+.|..+++.+.+       .+   .+.....+..+|.+.
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            456777787777765   2222222222    2 4456788888888888866       44   233455666676653


Q ss_pred             C-----CHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh-cCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHH----hh
Q 040367          264 G-----RVNRAKELFVSMESMGCTHTVFSYSILINGYCK-NKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLF----EI  333 (400)
Q Consensus       264 ~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~  333 (400)
                      .     +.+.|..++......+ .|+....-..+..... ..+...|.++|..+.+.|..   ..+-.+..++.    ..
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~---~A~~~la~~y~~G~gv~  377 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI---LAIYRLALCYELGLGVE  377 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh---HHHHHHHHHHHhCCCcC
Confidence            2     6677888888888877 4555433322222222 24677899999888887743   22222332222    33


Q ss_pred             CcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhccc
Q 040367          334 HQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCE  387 (400)
Q Consensus       334 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  387 (400)
                      .+...|..++++.-+.| .|....-...+..+.. ++++.+.-.+..+.+.|.+
T Consensus       378 r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~  429 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYE  429 (552)
T ss_pred             CCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhh
Confidence            46788888888888876 3333333333344444 7777777777777666543

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.17  E-value=0.54  Score=38.13  Aligned_cols=143  Identities=17%  Similarity=0.130  Sum_probs=77.3

Q ss_pred             HHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHH
Q 040367          224 ELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEG  303 (400)
Q Consensus       224 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  303 (400)
                      .....|++.+|...|+........ +......++.+|...|+.+.|..++..+....-.........-+..+.+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            445567777777777776665322 3445556667777777777777777766543211111121222334444444444


Q ss_pred             HHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHhcCc
Q 040367          304 ALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD--GVAADTWTYRTFIDGLCKNSY  370 (400)
Q Consensus       304 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~  370 (400)
                      ...+-++.-..  +-|...-..+...+...|+.+.|.+.+=.+.+.  |.. |...-..++..+...|.
T Consensus       222 ~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g~  287 (304)
T COG3118         222 IQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFGP  287 (304)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcCC
Confidence            44444444332  114445555666667777777777766655543  222 44445556666655553

>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=96.17  E-value=0.6  Score=38.61  Aligned_cols=169  Identities=11%  Similarity=0.064  Sum_probs=88.2

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHH-------HHHHHHHHHhcC-ChHHHHHHHHHHHcCCCCCCcccchHHHHHHHH
Q 040367           98 CAESRIMEAAALFTKLRVFGCEPNVFT-------YNTLINGLYRTG-HTIVALNLFEEMASGNGEFGVEGFVDKAKELFL  169 (400)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~~~~-------~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~  169 (400)
                      .+.|+++.|..++.+........++..       +..+.......+ +++.|..++++                |.++++
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~----------------a~~~l~   67 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQR----------------AYDILE   67 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHH----------------HHHHHH
Confidence            456777888887777765421112222       222333344455 78888877544                444543


Q ss_pred             HH-HhCCCCCC-----hHhHHHHHHHHHhcCCHH---HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHH
Q 040367          170 QM-KDENINPD-----VVTYTSVIRGFCYANDWN---EAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDL  240 (400)
Q Consensus       170 ~~-~~~~~~~~-----~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  240 (400)
                      .. ......|+     ..++..++.++...+..+   +|..+++.+... .+..+.++..-+..+.+.++.+.+.+++.+
T Consensus        68 ~~~~~~~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~  146 (278)
T PF08631_consen   68 KPGKMDKLSPDGSELRLSILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMR  146 (278)
T ss_pred             hhhhccccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHH
Confidence            31 11111233     245666777777776654   455555555433 222345555566666667888888888888


Q ss_pred             HHHcCCCCCHHhHHHHHHHHHh--cCCHHHHHHHHHHHHhcCCCCC
Q 040367          241 MIQIGVRPNAFVYNTLMDGFCL--TGRVNRAKELFVSMESMGCTHT  284 (400)
Q Consensus       241 ~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~  284 (400)
                      |...- ......+..++..+..  ......+...+..+....+.|.
T Consensus       147 mi~~~-~~~e~~~~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~  191 (278)
T PF08631_consen  147 MIRSV-DHSESNFDSILHHIKQLAEKSPELAAFCLDYLLLNRFKSS  191 (278)
T ss_pred             HHHhc-ccccchHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCC
Confidence            87752 2133344444444321  1233445555555544333333

It is also involved in sporulation [].

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.16  E-value=0.37  Score=44.74  Aligned_cols=46  Identities=17%  Similarity=0.244  Sum_probs=19.5

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 040367          261 CLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSL  307 (400)
Q Consensus       261 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  307 (400)
                      ....+..+-...++.+.+.|. .+...-..|+.+|.+.++.++-.++
T Consensus       408 Ldaq~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~~kL~ef  453 (933)
T KOG2114|consen  408 LDAQRIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDVEKLTEF  453 (933)
T ss_pred             cCHHHHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcchHHHHHH
Confidence            333334444444444444442 2333334444444444444444433

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.15  E-value=0.49  Score=37.53  Aligned_cols=181  Identities=11%  Similarity=-0.020  Sum_probs=97.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 040367          182 TYTSVIRGFCYANDWNEAKCLLIEMMDQG--VQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDG  259 (400)
Q Consensus       182 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  259 (400)
                      .+-.-+..-.+.|++++|.+.|+.+....  -+-...+...++.++.+.++++.|+...++...........-|..-+.+
T Consensus        36 ~LY~~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Ylkg  115 (254)
T COG4105          36 ELYNEGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKG  115 (254)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHH
Confidence            33334445668899999999999988652  1223455666777888999999999999998886433333334444444


Q ss_pred             HHhc-------CCHHHH---HHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHH
Q 040367          260 FCLT-------GRVNRA---KELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVV  329 (400)
Q Consensus       260 ~~~~-------~~~~~a---~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  329 (400)
                      .+.-       .|...+   ..-|++++..  -||..             -...|......+...    =...=..+.+.
T Consensus       116 Ls~~~~i~~~~rDq~~~~~A~~~f~~~i~r--yPnS~-------------Ya~dA~~~i~~~~d~----LA~~Em~Iary  176 (254)
T COG4105         116 LSYFFQIDDVTRDQSAARAAFAAFKELVQR--YPNSR-------------YAPDAKARIVKLNDA----LAGHEMAIARY  176 (254)
T ss_pred             HHHhccCCccccCHHHHHHHHHHHHHHHHH--CCCCc-------------chhhHHHHHHHHHHH----HHHHHHHHHHH
Confidence            3321       233333   3333333332  22221             111121111111110    00000234566


Q ss_pred             HHhhCcHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          330 LFEIHQVERAFKLFDEMQRDGVAAD---TWTYRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       330 ~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                      |.+.|.+-.|..-+++|++. .+-+   ...+-.+..+|.+.|-.++|.+.-+-+.
T Consensus       177 Y~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~  231 (254)
T COG4105         177 YLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLG  231 (254)
T ss_pred             HHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHH
Confidence            67777777777777777765 2222   2334455666777777777666544443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.14  E-value=0.17  Score=35.28  Aligned_cols=91  Identities=16%  Similarity=0.035  Sum_probs=44.7

Q ss_pred             HHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHH---HHHHHHHhcCC
Q 040367           26 CLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFT---SLIKGLCAESR  102 (400)
Q Consensus        26 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~~~  102 (400)
                      ++...|+.+.|++.|.+....- +.....|+.-.+++.-.|+.++|++=+++..+..-..+.....   .-...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            4455556666666665555542 3345555555555555566666655555555442122222222   22223444555


Q ss_pred             HHHHHHHHHHHHHcC
Q 040367          103 IMEAAALFTKLRVFG  117 (400)
Q Consensus       103 ~~~a~~~~~~~~~~~  117 (400)
                      -+.|..-|+..-+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            555555555554443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.12  E-value=0.33  Score=35.21  Aligned_cols=88  Identities=13%  Similarity=0.067  Sum_probs=61.3

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 040367           18 CSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGL   97 (400)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   97 (400)
                      .....++..+.+.+.+.....+++.+...+ ..+...++.++..|++.+ .+..++.++.      ..+......+++.|
T Consensus         8 ~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c   79 (140)
T smart00299        8 IDVSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLC   79 (140)
T ss_pred             CCHHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHH
Confidence            345678888888889999999999988876 467778899999988753 3344444442      12334445577777


Q ss_pred             HhcCCHHHHHHHHHHH
Q 040367           98 CAESRIMEAAALFTKL  113 (400)
Q Consensus        98 ~~~~~~~~a~~~~~~~  113 (400)
                      .+.+.++++.-++.++
T Consensus        80 ~~~~l~~~~~~l~~k~   95 (140)
T smart00299       80 EKAKLYEEAVELYKKD   95 (140)
T ss_pred             HHcCcHHHHHHHHHhh
Confidence            7777777777777665

>PRK11906 transcriptional regulator; Provisional

Probab=96.12  E-value=0.83  Score=39.79  Aligned_cols=145  Identities=13%  Similarity=0.084  Sum_probs=90.5

Q ss_pred             hHHHHHHHHHHHHc-CCCCC-HHhHHHHHHHHHh---------cCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC
Q 040367          231 MDEASRLLDLMIQI-GVRPN-AFVYNTLMDGFCL---------TGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNK  299 (400)
Q Consensus       231 ~~~a~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  299 (400)
                      .+.|..+|.+.... ...|+ ...|..+..++..         ..+..+|.+.-+...+.+ +.|+.....+..+....+
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhc
Confidence            45677778887722 23343 3334333333221         234556677777777776 667777777777777778


Q ss_pred             CHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCcHHHHHH
Q 040367          300 EIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAAD---TWTYRTFIDGLCKNSYIVEAVE  376 (400)
Q Consensus       300 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~  376 (400)
                      +++.|...|++....++. ...+|......+.-.|+.++|.+.+++..+.  .|.   .......++.|+..+ .+.|++
T Consensus       353 ~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~~~~~~~~~~~~~~~~~-~~~~~~  428 (458)
T PRK11906        353 QAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRRKAVVIKECVDMYVPNP-LKNNIK  428 (458)
T ss_pred             chhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--CchhhHHHHHHHHHHHHcCCc-hhhhHH
Confidence            888888888888876422 3455666666667788888888888887765  332   333344444565554 455666


Q ss_pred             HHHH
Q 040367          377 LFRT  380 (400)
Q Consensus       377 ~~~~  380 (400)
                      +|-+
T Consensus       429 ~~~~  432 (458)
T PRK11906        429 LYYK  432 (458)
T ss_pred             HHhh
Confidence            5543

>PRK11906 transcriptional regulator; Provisional

Probab=96.10  E-value=0.63  Score=40.51  Aligned_cols=132  Identities=9%  Similarity=0.067  Sum_probs=90.2

Q ss_pred             hhH--HHHHHHHhcc-----CChhHHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhc---------CChhhHHHHHHHHH
Q 040367           18 CSF--NILFGCLAKN-----KHYDTVLSLFKRLNST-GLFPD-LYTYNILINCFCKM---------GRVSHGFVVLGRIL   79 (400)
Q Consensus        18 ~~~--~~l~~~~~~~-----~~~~~a~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~   79 (400)
                      ..|  ...+.+....     ...+.|+.+|.+.... ...|+ ...|..+..++...         .+..+|.++.++..
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            677  6666665552     2356788899999822 22444 45565555444322         23456777788888


Q ss_pred             hcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcC
Q 040367           80 RSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASG  151 (400)
Q Consensus        80 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (400)
                      +.+ +.|......+..+....++++.|...|++....+ +-...+|........-.|+.++|.+.+++..+.
T Consensus       332 eld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL  401 (458)
T PRK11906        332 DIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKSLQL  401 (458)
T ss_pred             hcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence            776 4577777777777788888999999999998875 445667777777777889977777776665443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=96.03  E-value=0.0076  Score=31.09  Aligned_cols=32  Identities=13%  Similarity=0.366  Sum_probs=23.0

Q ss_pred             hHHHHhcCCCCCChhhHHHHHHHHhccCChhHHH
Q 040367            4 FDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVL   37 (400)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   37 (400)
                      |+..++..|.  |+.+|+.+...+...|++++|+
T Consensus         2 y~kAie~~P~--n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPN--NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCC--CHHHHHHHHHHHHHCcCHHhhc
Confidence            5566666666  7777777777777777777765

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.02  E-value=0.35  Score=34.65  Aligned_cols=78  Identities=15%  Similarity=0.073  Sum_probs=50.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 040367          183 YTSVIRGFCYANDWNEAKCLLIEMMDQG--VQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGF  260 (400)
Q Consensus       183 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  260 (400)
                      +..-.....+.|++++|++.|+.+...-  -+-....-..++.+|.+.+++++|...+++.++.+......-|...+.++
T Consensus        13 ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL   92 (142)
T PF13512_consen   13 LYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGL   92 (142)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHH
Confidence            3344455667888888888888887652  12233455667778888888888888888888865433333444444443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.98  E-value=1  Score=39.56  Aligned_cols=62  Identities=15%  Similarity=0.180  Sum_probs=43.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CchhhHHHHHHHHHhhCcHHHHHHHHHHHHH
Q 040367          287 SYSILINGYCKNKEIEGALSLYGEMLSKGIK-PDVVIYNTLFVVLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       287 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  348 (400)
                      .-..+..++.+.|+.++|.+.++++.+.... .+......|+.++...+.+.++..++.+-.+
T Consensus       261 ~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  261 AKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             hHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            3345666677788888888888888764322 2334566778888888888888888877644

The molecular function of this protein is uncertain.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.98  E-value=0.61  Score=37.04  Aligned_cols=56  Identities=7%  Similarity=-0.059  Sum_probs=38.0

Q ss_pred             HHHhcCChhhHHHHHHHHHhcCC--CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 040367           61 CFCKMGRVSHGFVVLGRILRSCF--TPNAVTFTSLIKGLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        61 ~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      .-.+.|++++|...|+.+....+  +-...+...++.++.+.++++.|+...++....
T Consensus        43 ~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~l  100 (254)
T COG4105          43 TELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRL  100 (254)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            34567888888888888876521  112334555666777888888888888887765

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.97  E-value=0.039  Score=30.49  Aligned_cols=27  Identities=15%  Similarity=0.164  Sum_probs=14.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 040367           90 FTSLIKGLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        90 ~~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      +..+...|...|++++|.++|+++.+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444555555555555555555555554

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.92  E-value=0.65  Score=36.95  Aligned_cols=202  Identities=16%  Similarity=0.063  Sum_probs=140.4

Q ss_pred             hHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 040367          180 VVTYTSVIRGFCYANDWNEAKCLLIEMMDQ-GVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMD  258 (400)
Q Consensus       180 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  258 (400)
                      ...+......+...+++..+...+...... ........+......+...+.+..+...+.........+ .........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHH
Confidence            456677777888888999888888887752 234556667777777788888889999998888754332 122222333


Q ss_pred             -HHHhcCCHHHHHHHHHHHHhcCC--CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCc
Q 040367          259 -GFCLTGRVNRAKELFVSMESMGC--THTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQ  335 (400)
Q Consensus       259 -~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  335 (400)
                       .+...|+++.|...+........  ......+......+...++.+.+...+..............+..+...+...++
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  217 (291)
T COG0457         138 GALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGK  217 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHccc
Confidence             67889999999999998865321  123333444444466788999999999988876322135667777888888888


Q ss_pred             HHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Q 040367          336 VERAFKLFDEMQRDGVAAD-TWTYRTFIDGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       336 ~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                      ++.+...+......  .|+ ...+..+...+...|..+++...+......
T Consensus       218 ~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         218 YEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             HHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999999888875  333 444555555555677788888888887753

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.91  E-value=1.2  Score=39.90  Aligned_cols=88  Identities=8%  Similarity=0.008  Sum_probs=41.3

Q ss_pred             HhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-hcCChhhHHHHHHHHHhc-CCC-CChhhHHHHHHHHHhcCCH
Q 040367           27 LAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFC-KMGRVSHGFVVLGRILRS-CFT-PNAVTFTSLIKGLCAESRI  103 (400)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~  103 (400)
                      -.+-|..+.+..+|++.... ++.+...|.....-+. ..|+.+.....|+++... |.. .+...|...|..-..++++
T Consensus        89 E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~  167 (577)
T KOG1258|consen   89 EYKLGNAENSVKVFERGVQA-IPLSVDLWLSYLAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSW  167 (577)
T ss_pred             HHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccH
Confidence            34445555555555555442 3444444444433322 334444555555555443 111 1333455555544555555


Q ss_pred             HHHHHHHHHHHH
Q 040367          104 MEAAALFTKLRV  115 (400)
Q Consensus       104 ~~a~~~~~~~~~  115 (400)
                      .....+|+++++
T Consensus       168 k~v~~iyeRile  179 (577)
T KOG1258|consen  168 KRVANIYERILE  179 (577)
T ss_pred             HHHHHHHHHHHh
Confidence            555555555553

>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=95.90  E-value=0.36  Score=33.80  Aligned_cols=65  Identities=15%  Similarity=0.087  Sum_probs=33.0

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCC
Q 040367          181 VTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV  246 (400)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  246 (400)
                      ......+......|+-+.-.+++..+.+. -.+++.....+..+|.+.|+..++.+++.++-+.|.
T Consensus        87 e~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   87 EYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            34445555556666666666666655542 245555555566666666666666666666655553

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.89  E-value=0.87  Score=38.09  Aligned_cols=128  Identities=12%  Similarity=0.084  Sum_probs=55.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHc----CCCCCHHhHHH
Q 040367          185 SVIRGFCYANDWNEAKCLLIEMMDQG-----VQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQI----GVRPNAFVYNT  255 (400)
Q Consensus       185 ~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~  255 (400)
                      ++..++.-.+.++++++.|+...+.-     .-....++..+-..|.+..++++|.-+..+..+.    ++..-..-|..
T Consensus       127 ~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~  206 (518)
T KOG1941|consen  127 SMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRA  206 (518)
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHH
Confidence            34445555555666666665554311     0112234555555556666666655554444332    22211111211


Q ss_pred             -----HHHHHHhcCCHHHHHHHHHHHHh----cCCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040367          256 -----LMDGFCLTGRVNRAKELFVSMES----MGCT-HTVFSYSILINGYCKNKEIEGALSLYGEML  312 (400)
Q Consensus       256 -----l~~~~~~~~~~~~a~~~~~~~~~----~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  312 (400)
                           +.-++...|....|.+.-++..+    .|-. ........+.+.|...|+.+.|+.-|+++.
T Consensus       207 ~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  207 MSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence                 22334445555555555444432    1101 111222334455555555555555555444

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.86  E-value=0.04  Score=30.42  Aligned_cols=25  Identities=20%  Similarity=0.182  Sum_probs=10.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          289 SILINGYCKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       289 ~~l~~~~~~~~~~~~a~~~~~~~~~  313 (400)
                      ..+...|...|++++|.++++++++
T Consensus         5 ~~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    5 LALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3334444444444444444444444

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.86  E-value=0.84  Score=37.74  Aligned_cols=106  Identities=14%  Similarity=0.124  Sum_probs=64.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHH
Q 040367          123 FTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCL  202 (400)
Q Consensus       123 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  202 (400)
                      .++..++.++...+..+.                    .++|..+++.+.... +-.+..+..-+..+.+.++.+.+.+.
T Consensus        85 ~iL~~La~~~l~~~~~~~--------------------~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~  143 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYES--------------------VEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEI  143 (278)
T ss_pred             HHHHHHHHHHHcCCChHH--------------------HHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHH
Confidence            456677778877776543                    455666666665542 22345565667778789999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHh--CCChHHHHHHHHHHHHcCCCCCH
Q 040367          203 LIEMMDQGVQPNVVTFNVIMDELCK--NGKMDEASRLLDLMIQIGVRPNA  250 (400)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~  250 (400)
                      +..|+..- ......+..++..+..  ......+...+..+....+.|..
T Consensus       144 L~~mi~~~-~~~e~~~~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  144 LMRMIRSV-DHSESNFDSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHHhc-ccccchHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCCh
Confidence            99999862 3233445555554422  12344566666666555444444

It is also involved in sporulation [].

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=95.77  E-value=0.66  Score=35.78  Aligned_cols=63  Identities=16%  Similarity=0.068  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 040367           52 LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRV  115 (400)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  115 (400)
                      +..||.+.-.+...|+++.|.+.|+...+.++.-+-...|.-|. +.-.|++.-|.+-+...-+
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~-~YY~gR~~LAq~d~~~fYQ  161 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIA-LYYGGRYKLAQDDLLAFYQ  161 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcccee-eeecCchHhhHHHHHHHHh
Confidence            44555555555566666666666666655533222222222222 2234555555554444433

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.63  E-value=0.18  Score=40.33  Aligned_cols=89  Identities=17%  Similarity=0.185  Sum_probs=71.0

Q ss_pred             CChHhHHHHHHHHHh-----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC----------------ChHHHHH
Q 040367          178 PDVVTYTSVIRGFCY-----ANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNG----------------KMDEASR  236 (400)
Q Consensus       178 ~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------~~~~a~~  236 (400)
                      -|..+|...+..+..     .+.++-....++.|.+-|+.-|..+|+.|++.+-+-.                +-+=+++
T Consensus        65 RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~  144 (406)
T KOG3941|consen   65 RDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIK  144 (406)
T ss_pred             ccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHH
Confidence            466677777776643     4677778888889999999999999999998775532                2344789


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHHhcCCH
Q 040367          237 LLDLMIQIGVRPNAFVYNTLMDGFCLTGRV  266 (400)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  266 (400)
                      ++++|...|+.||..+-..+++++.+.+-.
T Consensus       145 vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  145 VLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            999999999999999999999999887653

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.54  E-value=0.2  Score=40.60  Aligned_cols=79  Identities=8%  Similarity=0.093  Sum_probs=46.1

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHH-----cCCCCCHHHHH
Q 040367          285 VFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQR-----DGVAADTWTYR  359 (400)
Q Consensus       285 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  359 (400)
                      ..++..++..+...|+.+.+.+.++++..... -+...|..++.+|.+.|+...|+..++.+.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp-~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDP-YDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            34455566666666666666666666666542 2555666666666666666666666665544     25555555554


Q ss_pred             HHHHH
Q 040367          360 TFIDG  364 (400)
Q Consensus       360 ~l~~~  364 (400)
                      .+...
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            44433

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.52  E-value=1.2  Score=37.05  Aligned_cols=138  Identities=12%  Similarity=0.134  Sum_probs=86.8

Q ss_pred             hHHHHHHHHHHHhCCCCCChHhHHHHHHHHHh--cC----CHHHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHhCCC-
Q 040367          161 VDKAKELFLQMKDENINPDVVTYTSVIRGFCY--AN----DWNEAKCLLIEMMDQGV---QPNVVTFNVIMDELCKNGK-  230 (400)
Q Consensus       161 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~-  230 (400)
                      +++.+.+++.+.+.|+.-+..+|-+.......  ..    ....|..+|+.|.+...   .++-..+..++..  ..++ 
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            56778888888888888877666554433333  22    35688899999987641   2344555555543  3333 


Q ss_pred             ---hHHHHHHHHHHHHcCCCCCHH--hHHHHHHHHHhcCC--HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 040367          231 ---MDEASRLLDLMIQIGVRPNAF--VYNTLMDGFCLTGR--VNRAKELFVSMESMGCTHTVFSYSILINGYCKNKE  300 (400)
Q Consensus       231 ---~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  300 (400)
                         .+.++.+++.+.+.|+..+..  ....++........  ..++.++++.+.+.++++....|..+.-...-.+.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~  232 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDP  232 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCc
Confidence               356677888888877765433  23333333322222  45788899999999988888887766654433333

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.51  E-value=0.034  Score=29.10  Aligned_cols=25  Identities=8%  Similarity=0.014  Sum_probs=16.7

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          358 YRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       358 ~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                      |..|...|.+.|++++|+++|++.+
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            5566777777777777777777754

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.35  E-value=0.79  Score=33.94  Aligned_cols=138  Identities=17%  Similarity=0.175  Sum_probs=75.7

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHH
Q 040367           86 NAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEP-NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKA  164 (400)
Q Consensus        86 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a  164 (400)
                      +...|...++ +.+.+..++|+.-|..+.+.|... .+-............|+...|...|+++-...+.+....     
T Consensus        58 sgd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~r-----  131 (221)
T COG4649          58 SGDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGR-----  131 (221)
T ss_pred             chHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhh-----
Confidence            4445555554 456677788888888887765332 122223344455666776666666665544332211100     


Q ss_pred             HHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHc
Q 040367          165 KELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQI  244 (400)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  244 (400)
                                    |..- .--.-.+...|.++......+.+...+-+.-...-..|.-+-.+.|++..|.+.|.++...
T Consensus       132 --------------d~AR-lraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         132 --------------DLAR-LRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             --------------HHHH-HHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence                          0000 0011234566777777777766665544444444555666666777777777777777654

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.19  E-value=0.28  Score=39.30  Aligned_cols=104  Identities=18%  Similarity=0.267  Sum_probs=55.9

Q ss_pred             CCHHhHHHHHHHHHhc-----CCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhh
Q 040367          248 PNAFVYNTLMDGFCLT-----GRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVI  322 (400)
Q Consensus       248 ~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  322 (400)
                      -|..+|...+..+...     +..+-....++.|.+.|+.-|..+|..|+..+-+..-.                |. ..
T Consensus        65 RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfi----------------P~-nv  127 (406)
T KOG3941|consen   65 RDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFI----------------PQ-NV  127 (406)
T ss_pred             ccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccc----------------cH-HH
Confidence            3556666666655432     44555556667777777777777777777765443211                10 01


Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCc
Q 040367          323 YNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSY  370 (400)
Q Consensus       323 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  370 (400)
                      +......|  -.+-+-+++++++|...|+.||..+-..|++++.+.|-
T Consensus       128 fQ~~F~HY--P~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  128 FQKVFLHY--PQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHhhC--chhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            11111111  11223355666666666666666666666666655543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.15  E-value=0.37  Score=39.18  Aligned_cols=78  Identities=17%  Similarity=0.225  Sum_probs=59.0

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCchhhHHH
Q 040367          251 FVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLS-----KGIKPDVVIYNT  325 (400)
Q Consensus       251 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~  325 (400)
                      .++..++..+...|+.+.+...++++.... +-+...|..++.+|.+.|+...|+..|+++.+     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            455667777778888888888888888776 56777888888888888888888888877765     477777776666


Q ss_pred             HHHH
Q 040367          326 LFVV  329 (400)
Q Consensus       326 l~~~  329 (400)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5555

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=95.01  E-value=1.2  Score=34.35  Aligned_cols=55  Identities=11%  Similarity=0.025  Sum_probs=24.7

Q ss_pred             CCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          154 EFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ  209 (400)
Q Consensus       154 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  209 (400)
                      -++..|...-|.-=|.+..... |.-+..||-+.-.+...|+++.|.+.|+...+.
T Consensus        74 lYDSlGL~~LAR~DftQaLai~-P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~EL  128 (297)
T COG4785          74 LYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL  128 (297)
T ss_pred             hhhhhhHHHHHhhhhhhhhhcC-CCcHHHHHHHHHHHHhcccchHHHHHhhhHhcc
Confidence            3444444444444444443332 112334444444445555555555555555543

>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=95.00  E-value=0.48  Score=35.94  Aligned_cols=97  Identities=15%  Similarity=0.016  Sum_probs=60.7

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC-hhhHH--H
Q 040367           18 CSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPD--LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPN-AVTFT--S   92 (400)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~--~   92 (400)
                      ..+..+...|.+.|+.+.|++.|.++......+.  ...+-.+|......+++..+...+.++...-..+. ...-+  .
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            3577788888888888888888888876643333  34567777888888888888777776655421211 11111  1


Q ss_pred             H--HHHHHhcCCHHHHHHHHHHHH
Q 040367           93 L--IKGLCAESRIMEAAALFTKLR  114 (400)
Q Consensus        93 l--~~~~~~~~~~~~a~~~~~~~~  114 (400)
                      .  .-.+...+++..|-+.|-...
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccC
Confidence            1  112335677877777765543

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.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.82  E-value=0.11  Score=26.65  Aligned_cols=28  Identities=14%  Similarity=0.090  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          356 WTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       356 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      .+|..+..+|...|++++|+..|++.++
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            3456666666677777777777766665

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 ....

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.78  E-value=2  Score=35.65  Aligned_cols=114  Identities=12%  Similarity=0.023  Sum_probs=47.5

Q ss_pred             CCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCh----hhHHHHHHHHHhcCCHHH
Q 040367          228 NGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTV----FSYSILINGYCKNKEIEG  303 (400)
Q Consensus       228 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~  303 (400)
                      .|+..+|-..++++++. .+.|...+...-.+|...|+...-...++++...= .++.    ..-..+.-++..+|-+++
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~w-n~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKW-NADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhcccc-CCCCcHHHHHHHHHHhhHHHhccchh
Confidence            34444444444544443 23344444444444555555555444444444320 1121    111222223334555555


Q ss_pred             HHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHH
Q 040367          304 ALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFD  344 (400)
Q Consensus       304 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  344 (400)
                      |.+.-++..+.+ +.|.-...++...+-..|+..++.+...
T Consensus       194 AEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~  233 (491)
T KOG2610|consen  194 AEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMY  233 (491)
T ss_pred             HHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHH
Confidence            555555544432 1122233333334444455555554443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=94.78  E-value=3.8  Score=38.85  Aligned_cols=198  Identities=14%  Similarity=0.073  Sum_probs=109.1

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCH-------HHHHHHHH-HHHhCCChHHHHHHHHHHHHc----CCCCCHHhHHHHHH
Q 040367          191 CYANDWNEAKCLLIEMMDQGVQPNV-------VTFNVIMD-ELCKNGKMDEASRLLDLMIQI----GVRPNAFVYNTLMD  258 (400)
Q Consensus       191 ~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~  258 (400)
                      ....++++|..++.++...-..|+.       ..++.+-. .....|+++.|.++.+.....    -..+....+..+..
T Consensus       426 ~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~  505 (894)
T COG2909         426 ASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGE  505 (894)
T ss_pred             HHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhH
Confidence            4567899999998887654222221       12333322 234578899999998888765    22334556667777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCChhh---HHHHH--HHHHhcCCHH--HHHHHHHHHHhC---CCC---CchhhHHH
Q 040367          259 GFCLTGRVNRAKELFVSMESMGCTHTVFS---YSILI--NGYCKNKEIE--GALSLYGEMLSK---GIK---PDVVIYNT  325 (400)
Q Consensus       259 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~--~~~~~~~~~~--~a~~~~~~~~~~---~~~---~~~~~~~~  325 (400)
                      +..-.|++++|..+..+..+....-+...   |..+.  ..+...|+..  +....+......   ..+   +-..+...
T Consensus       506 a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~  585 (894)
T COG2909         506 AAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQ  585 (894)
T ss_pred             HHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHH
Confidence            88889999999999888765422333333   33332  2345566332  223333322221   111   11233444


Q ss_pred             HHHHHHh-hCcHHHHHHHHHHHHHcCCCCCHHHHH--HHHHHHHhcCcHHHHHHHHHHHHHhcccc
Q 040367          326 LFVVLFE-IHQVERAFKLFDEMQRDGVAADTWTYR--TFIDGLCKNSYIVEAVELFRTLRILKCEL  388 (400)
Q Consensus       326 l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  388 (400)
                      +..++.+ .+...++..-++-.......|-.....  .|+......|+.++|...+.++......+
T Consensus       586 ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~  651 (894)
T COG2909         586 LLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNG  651 (894)
T ss_pred             HHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCC
Confidence            4555444 122233333333333332222222222  67778888999999999999987544333

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.77  E-value=1.6  Score=34.44  Aligned_cols=208  Identities=10%  Similarity=0.120  Sum_probs=101.3

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 040367           18 CSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGL   97 (400)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   97 (400)
                      ..|..-..+|....++++|...+.+..+- ...+...|.       ..+.++.|.-+.+++.+.  +--...|+.....|
T Consensus        32 s~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfh-------AAKayEqaamLake~~kl--sEvvdl~eKAs~lY  101 (308)
T KOG1585|consen   32 SLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFH-------AAKAYEQAAMLAKELSKL--SEVVDLYEKASELY  101 (308)
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHH-------HHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHH
Confidence            35666677788888888888877776532 121222111       112233333344443332  11223344444555


Q ss_pred             HhcCCHHHHHHHHHHHHHc--CCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHH-
Q 040367           98 CAESRIMEAAALFTKLRVF--GCEPN--VFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMK-  172 (400)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~--~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~-  172 (400)
                      .++|.++.|-..+++.-+.  +..|+  ...|..-+......++...|.+++.+....-   .....+.+|-..+.+-. 
T Consensus       102 ~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~l---Vrl~kf~Eaa~a~lKe~~  178 (308)
T KOG1585|consen  102 VECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVL---VRLEKFTEAATAFLKEGV  178 (308)
T ss_pred             HHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHh---hhhHHhhHHHHHHHHhhh
Confidence            5555555554444443221  22332  2234444444444444444444444332211   11111222222221111 


Q ss_pred             ---h-CCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhCCChHHHHHHHH
Q 040367          173 ---D-ENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQG---VQPNVVTFNVIMDELCKNGKMDEASRLLD  239 (400)
Q Consensus       173 ---~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  239 (400)
                         + ...+.--..|.+.|-.+.-..++..|.+.++.--+.+   -+-+..+...|+.+|- .|+.+++.+++.
T Consensus       179 ~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd-~gD~E~~~kvl~  251 (308)
T KOG1585|consen  179 AADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-EGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhc-cCCHHHHHHHHc
Confidence               1 0111122345566667777889999999998855432   2345677888887664 577777766653

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=94.75  E-value=0.82  Score=34.71  Aligned_cols=61  Identities=18%  Similarity=0.257  Sum_probs=31.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc--hhhHHHHHHHHHhhCcHHHHHHHHHHHH
Q 040367          287 SYSILINGYCKNKEIEGALSLYGEMLSKGIKPD--VVIYNTLFVVLFEIHQVERAFKLFDEMQ  347 (400)
Q Consensus       287 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~  347 (400)
                      .+..+...|.+.|+.+.|.+.+.++.+....+.  ...+-.+++.....+++..+...+.++.
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            344555556666666666666665555432222  1233444555555566666555555544

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.71  E-value=0.09  Score=27.46  Aligned_cols=25  Identities=12%  Similarity=0.130  Sum_probs=15.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Q 040367          183 YTSVIRGFCYANDWNEAKCLLIEMM  207 (400)
Q Consensus       183 ~~~l~~~~~~~~~~~~a~~~~~~~~  207 (400)
                      |..|..+|.+.|++++|+++|++.+
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            5556666666666666666666643

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.44  E-value=0.14  Score=26.03  Aligned_cols=27  Identities=15%  Similarity=0.106  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          357 TYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       357 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      .+..+...+...|++++|++.|++..+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            455566666666777777766666665

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 ....

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.41  E-value=4.2  Score=37.73  Aligned_cols=323  Identities=12%  Similarity=0.099  Sum_probs=164.3

Q ss_pred             hccCChhHHHHHHHHHH--------hCCCCCCHHHHH-----HHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 040367           28 AKNKHYDTVLSLFKRLN--------STGLFPDLYTYN-----ILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLI   94 (400)
Q Consensus        28 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (400)
                      .+..++++-..+.+.+.        ..|++.+..-|.     .+++-+...+.+..|+++-..+-..- ..+..+|....
T Consensus       400 l~~~~~d~~~~v~~~lrVln~~r~~~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~-~~~~~Vl~~Wa  478 (829)
T KOG2280|consen  400 LRTPNPDEYMRVCRELRVLNALRDVRIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPE-SQGDRVLLEWA  478 (829)
T ss_pred             cccCChHHHHHHHHHHHHHhhhcccccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCcc-ccccHHHHHHH
Confidence            34455555444444332        335665555443     34556667777888888777664321 11245666666


Q ss_pred             HHHHhcCC---HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHH
Q 040367           95 KGLCAESR---IMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQM  171 (400)
Q Consensus        95 ~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  171 (400)
                      .-+.+..+   -+-+..+-+++...  ..+..+|..+.+.....|+++-|..+++.=...+......=+.+         
T Consensus       479 ~~kI~~~d~~d~~vld~I~~kls~~--~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~---------  547 (829)
T KOG2280|consen  479 RRKIKQSDKMDEEVLDKIDEKLSAK--LTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMK---------  547 (829)
T ss_pred             HHHHhccCccchHHHHHHHHHhccc--CCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccc---------
Confidence            66665532   22233333333321  13455677777777888888888777665332221111100111         


Q ss_pred             HhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----------CCCCCHHHHHHHHH--------HHHhCCChH
Q 040367          172 KDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ-----------GVQPNVVTFNVIMD--------ELCKNGKMD  232 (400)
Q Consensus       172 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------~~~~~~~~~~~l~~--------~~~~~~~~~  232 (400)
                                .+...+.-+...|+.+-...++-.+..+           ..+.....|.-+++        .+...++-.
T Consensus       548 ----------~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~lY~~~~r~~~~~~l~d~y~q~dn~  617 (829)
T KOG2280|consen  548 ----------DSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALSLYRQFMRHQDRATLYDFYNQDDNH  617 (829)
T ss_pred             ----------hHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHHhhchhhhhhhhhcccch
Confidence                      1222333334444444444443333221           01111122222222        111122222


Q ss_pred             HHHHHH--HHHHHc-CCCCCHHhHHHHHHHHHhcCCH----------HHHHHHHHHHHh-cCCCCChhhHHHHHHHHHhc
Q 040367          233 EASRLL--DLMIQI-GVRPNAFVYNTLMDGFCLTGRV----------NRAKELFVSMES-MGCTHTVFSYSILINGYCKN  298 (400)
Q Consensus       233 ~a~~~~--~~~~~~-~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~  298 (400)
                      ++...|  +..... .+.+-.........++.+....          .+-..+.+.+.. .+.....-+.+--+.-+...
T Consensus       618 ~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~  697 (829)
T KOG2280|consen  618 QALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILI  697 (829)
T ss_pred             hhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHc
Confidence            222111  110000 0111222233344445444331          111222222222 22223344556666778888


Q ss_pred             CCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHH
Q 040367          299 KEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELF  378 (400)
Q Consensus       299 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  378 (400)
                      |+..+|.++-++.+    -||...|..-+.+++..+++++-+++-+....      +.-|.-...+|.+.|+.++|.+++
T Consensus       698 g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskks------PIGy~PFVe~c~~~~n~~EA~KYi  767 (829)
T KOG2280|consen  698 GQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKKS------PIGYLPFVEACLKQGNKDEAKKYI  767 (829)
T ss_pred             cchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC------CCCchhHHHHHHhcccHHHHhhhh
Confidence            99999999877765    46888888889999999999988776554431      344666788999999999999988


Q ss_pred             HHHH
Q 040367          379 RTLR  382 (400)
Q Consensus       379 ~~~~  382 (400)
                      -+..
T Consensus       768 prv~  771 (829)
T KOG2280|consen  768 PRVG  771 (829)
T ss_pred             hccC
Confidence            7765

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.32  E-value=0.64  Score=30.50  Aligned_cols=46  Identities=4%  Similarity=0.158  Sum_probs=28.5

Q ss_pred             HHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHH
Q 040367          303 GALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       303 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  348 (400)
                      ++.+-+..+......|++....+.+++|.+.+++..|+++|+..+.
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~   70 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKD   70 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444445555555666666666666666666666666666666553

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.

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=94.28  E-value=1.6  Score=32.46  Aligned_cols=28  Identities=14%  Similarity=0.412  Sum_probs=12.7

Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhCCChH
Q 040367          205 EMMDQGVQPNVVTFNVIMDELCKNGKMD  232 (400)
Q Consensus       205 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~  232 (400)
                      .+.+.+++|+...+..+++.+.+.|++.
T Consensus        19 Sl~~~~i~~~~~L~~lli~lLi~~~~~~   46 (167)
T PF07035_consen   19 SLNQHNIPVQHELYELLIDLLIRNGQFS   46 (167)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHHcCCHH
Confidence            3333444444444444444444444433

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.18  E-value=1.7  Score=32.28  Aligned_cols=135  Identities=16%  Similarity=0.120  Sum_probs=95.3

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChh-hH--H
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPD-LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAV-TF--T   91 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~--~   91 (400)
                      +...|..-+. +.+.+..++|+.-|..+...|...= +-............|+...|...|.++-.....|-.. -.  .
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            4455655554 4677889999999999998875421 2223334456678899999999999998764333322 11  1


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcC
Q 040367           92 SLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASG  151 (400)
Q Consensus        92 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (400)
                      .-.-.+..+|.++......+-+...+-+.-...-..|.-+-.+.|++.+|.++|..+...
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            112345678999999988888776654556667778888999999999999999988764

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.05  E-value=0.58  Score=30.67  Aligned_cols=63  Identities=6%  Similarity=0.091  Sum_probs=49.8

Q ss_pred             cHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHHHHhh
Q 040367          335 QVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLID  398 (400)
Q Consensus       335 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~  398 (400)
                      +.=++.+-++.+....+.|++.+..+.+++|.+.+++.-|+++++..+.+ +..+...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHHH
Confidence            44466777777888889999999999999999999999999999988843 2334556766654

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.

>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=93.98  E-value=1.8  Score=31.83  Aligned_cols=19  Identities=21%  Similarity=0.193  Sum_probs=9.0

Q ss_pred             HHhcCCHHHHHHHHHHHHh
Q 040367          295 YCKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       295 ~~~~~~~~~a~~~~~~~~~  313 (400)
                      +...|++.+|..+++++.+
T Consensus        54 ~i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   54 HIVRGDWDDALRLLRELEE   72 (160)
T ss_pred             HHHhCCHHHHHHHHHHHhc
Confidence            3444455555555554443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.88  E-value=2.4  Score=34.84  Aligned_cols=103  Identities=17%  Similarity=0.236  Sum_probs=66.1

Q ss_pred             CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcC---CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChh
Q 040367          210 GVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIG---VRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVF  286 (400)
Q Consensus       210 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  286 (400)
                      |.+....+...++.......+++.+...+-++....   ..++.. -...++.+ -.-++++++.++..-+..|+-||..
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~-~~~~irll-lky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWT-IHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcccc-HHHHHHHH-HccChHHHHHHHhCcchhccccchh
Confidence            344455555555555555677777777777665531   111111 11233333 2346678888888888888888888


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          287 SYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       287 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      +++.+++.+.+.+++.+|..+...|...
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            8888888888888888888877766654

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=93.81  E-value=0.55  Score=31.14  Aligned_cols=46  Identities=7%  Similarity=0.169  Sum_probs=25.5

Q ss_pred             HHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          304 ALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       304 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      ..+-+..+....+.|++....+.+++|.+.+++..|+++|+..+.+
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   29 LRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            4444445555556666666666666666666666666666666543

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.78  E-value=0.091  Score=27.02  Aligned_cols=19  Identities=26%  Similarity=0.305  Sum_probs=7.4

Q ss_pred             hhhHHHHHHHHHhcCCHHH
Q 040367          285 VFSYSILINGYCKNKEIEG  303 (400)
Q Consensus       285 ~~~~~~l~~~~~~~~~~~~  303 (400)
                      ...|..+...|...|++++
T Consensus        13 ~~a~~nla~~~~~~g~~~~   31 (34)
T PF13431_consen   13 AEAYNNLANLYLNQGDYEE   31 (34)
T ss_pred             HHHHHHHHHHHHHCcCHHh
Confidence            3333333333333333333

>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=93.57  E-value=2.3  Score=31.70  Aligned_cols=136  Identities=12%  Similarity=0.130  Sum_probs=86.8

Q ss_pred             HHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 040367          164 AKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQ  243 (400)
Q Consensus       164 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  243 (400)
                      ..+.++.+...+++|+...+..+++.+.+.|++..    +..+...++-+|.......+-.+.  +.+..+.++--.|.+
T Consensus        13 llEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLk   86 (167)
T PF07035_consen   13 LLEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLK   86 (167)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHH
Confidence            34566667778899999999999999999998654    445555566667665555443332  233444444444443


Q ss_pred             cCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          244 IGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       244 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  313 (400)
                      . .   ...+..++..+...|++-+|.++.+......    ......++.+..+.+|...-..+++-..+
T Consensus        87 R-L---~~~~~~iievLL~~g~vl~ALr~ar~~~~~~----~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   87 R-L---GTAYEEIIEVLLSKGQVLEALRYARQYHKVD----SVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             H-h---hhhHHHHHHHHHhCCCHHHHHHHHHHcCCcc----cCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2 0   0134567778889999999999887764322    22235566676677776665555555544

>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=93.57  E-value=0.011  Score=43.12  Aligned_cols=85  Identities=12%  Similarity=0.126  Sum_probs=52.6

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC
Q 040367           22 ILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAES  101 (400)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (400)
                      .++..+.+.+.+.....+++.+...+...+....+.++..|++.++.+...++++..       +..-...++..|.+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcc
Confidence            356777777777777777777776654556777777778887777667766666511       1122234556666666


Q ss_pred             CHHHHHHHHHHH
Q 040367          102 RIMEAAALFTKL  113 (400)
Q Consensus       102 ~~~~a~~~~~~~  113 (400)
                      .++++.-++.++
T Consensus        85 l~~~a~~Ly~~~   96 (143)
T PF00637_consen   85 LYEEAVYLYSKL   96 (143)
T ss_dssp             SHHHHHHHHHCC
T ss_pred             hHHHHHHHHHHc
Confidence            666666655543

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=93.36  E-value=1.6  Score=29.12  Aligned_cols=60  Identities=7%  Similarity=0.110  Sum_probs=43.6

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHHHHhh
Q 040367          338 RAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLID  398 (400)
Q Consensus       338 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~  398 (400)
                      +..+-++.+....+.|++.+..+.+.+|.+.+++.-|+++++..+.+ +.+....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHH
Confidence            56666777777788999999999999999999999999999999854 2333336766654

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 ....

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.25  E-value=1.1  Score=36.77  Aligned_cols=103  Identities=13%  Similarity=0.138  Sum_probs=73.0

Q ss_pred             CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcC---CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchh
Q 040367          245 GVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMG---CTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVV  321 (400)
Q Consensus       245 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  321 (400)
                      |.+....+...++..-....+++.++..+-+++...   ..++.. -..+++.+. .-++++++.++..=++.|+-||..
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~-~~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWT-IHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcccc-HHHHHHHHH-ccChHHHHHHHhCcchhccccchh
Confidence            455566666677777667788888888887776531   111211 123333333 336778888888888889999999


Q ss_pred             hHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          322 IYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       322 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      +++.++..+.+.+++..|..+.-.|...
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            9999999999999999888888777654

>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=93.11  E-value=1.5  Score=33.53  Aligned_cols=72  Identities=10%  Similarity=0.032  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHc---CCCCCHHhHHHHHHHHHhcCCHHHH
Q 040367          197 NEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQI---GVRPNAFVYNTLMDGFCLTGRVNRA  269 (400)
Q Consensus       197 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a  269 (400)
                      +.|.+.|-++...+.--++.....+...| ...+.+++..++.+..+.   +-.+|+..+.+|+..+.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY-~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYY-TKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHH-HccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            44455555555444333333333333322 244555555555555443   1234555555555555555555554

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=93.10  E-value=0.38  Score=26.44  Aligned_cols=25  Identities=12%  Similarity=0.004  Sum_probs=13.3

Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHhc
Q 040367          361 FIDGLCKNSYIVEAVELFRTLRILK  385 (400)
Q Consensus       361 l~~~~~~~g~~~~a~~~~~~~~~~~  385 (400)
                      +..+|...|+.+.|.+++++....|
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHcC
Confidence            4445555555555555555555433

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.

>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=93.08  E-value=2.6  Score=30.98  Aligned_cols=107  Identities=10%  Similarity=-0.020  Sum_probs=62.7

Q ss_pred             HHHHhccCChhHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 040367           24 FGCLAKNKHYDTVLSLFKRLNSTGLFPDLYT-YNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESR  102 (400)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  102 (400)
                      +..-.+.++.+.+..++.-+.-.  .|.... -..-...++..|++.+|..+++.+...  .|.......|+..|....+
T Consensus        17 ~~~al~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~--~~~~p~~kALlA~CL~~~~   92 (160)
T PF09613_consen   17 LSVALRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEER--APGFPYAKALLALCLYALG   92 (160)
T ss_pred             HHHHHccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHHcC
Confidence            33446678999999999988875  344332 233345577899999999999998765  3444444555555554433


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 040367          103 IMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGH  137 (400)
Q Consensus       103 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  137 (400)
                      -..=...-+++.+.+  +|..+. .++..+....+
T Consensus        93 D~~Wr~~A~evle~~--~d~~a~-~Lv~~Ll~~~~  124 (160)
T PF09613_consen   93 DPSWRRYADEVLESG--ADPDAR-ALVRALLARAD  124 (160)
T ss_pred             ChHHHHHHHHHHhcC--CChHHH-HHHHHHHHhcc
Confidence            333333334455543  333332 34444444444

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.99  E-value=8.4  Score=36.48  Aligned_cols=85  Identities=14%  Similarity=0.118  Sum_probs=54.5

Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 040367           21 NILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAE  100 (400)
Q Consensus        21 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  100 (400)
                      ..-.+.+.+.|++++|...|-+.... +.|.     .++.-|....+...-...++.+.+.|.. +...-..|+.+|.+.
T Consensus       372 ~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKl  444 (933)
T KOG2114|consen  372 RKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKL  444 (933)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHh
Confidence            33455667889999998888776543 2322     2444455555666666777777777754 455556777888887


Q ss_pred             CCHHHHHHHHHH
Q 040367          101 SRIMEAAALFTK  112 (400)
Q Consensus       101 ~~~~~a~~~~~~  112 (400)
                      ++.++-.+..+.
T Consensus       445 kd~~kL~efI~~  456 (933)
T KOG2114|consen  445 KDVEKLTEFISK  456 (933)
T ss_pred             cchHHHHHHHhc
Confidence            776665555443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=92.91  E-value=6.4  Score=34.90  Aligned_cols=76  Identities=11%  Similarity=0.099  Sum_probs=53.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC-HHhHHHHH
Q 040367          182 TYTSVIRGFCYANDWNEAKCLLIEMMDQGVQ-PNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPN-AFVYNTLM  257 (400)
Q Consensus       182 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~  257 (400)
                      .-..+..++-+.|+.++|++.++++.+.... ....+...++.++...+.+.++..++.+-.+...+.+ ...|+..+
T Consensus       261 ~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaAL  338 (539)
T PF04184_consen  261 AKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAAL  338 (539)
T ss_pred             hHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHH
Confidence            3345666777889999999999999865322 2344677889999999999999999988755433222 33454433

The molecular function of this protein is uncertain.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=92.63  E-value=4.2  Score=32.12  Aligned_cols=88  Identities=20%  Similarity=0.182  Sum_probs=38.6

Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHH
Q 040367          260 FCLTGRVNRAKELFVSMESMGCTH-TVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVER  338 (400)
Q Consensus       260 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  338 (400)
                      +...++.+.+...+....... +. ....+..+...+...++++.+...+......... ....+..+...+...+..+.
T Consensus       177 ~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  254 (291)
T COG0457         177 LEALGRYEEALELLEKALKLN-PDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEE  254 (291)
T ss_pred             HHHhcCHHHHHHHHHHHHhhC-cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHH
Confidence            334444455554444444432 11 2334444444455555555555555555443211 12222223333334445555


Q ss_pred             HHHHHHHHHHc
Q 040367          339 AFKLFDEMQRD  349 (400)
Q Consensus       339 a~~~~~~~~~~  349 (400)
                      +...+.+....
T Consensus       255 ~~~~~~~~~~~  265 (291)
T COG0457         255 ALEALEKALEL  265 (291)
T ss_pred             HHHHHHHHHHh
Confidence            55555555543

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.49  E-value=4.8  Score=32.42  Aligned_cols=159  Identities=14%  Similarity=0.152  Sum_probs=94.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhC---C--CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHc-----CCCCCHH
Q 040367          182 TYTSVIRGFCYANDWNEAKCLLIEMMDQ---G--VQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQI-----GVRPNAF  251 (400)
Q Consensus       182 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~  251 (400)
                      +...++....+.|++++....|.+++.-   .  -..+....+.++.....+.+.+.....++.-+..     +-+.--.
T Consensus        67 ALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFK  146 (440)
T KOG1464|consen   67 ALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFK  146 (440)
T ss_pred             HHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeee
Confidence            4456678888899999988888887631   1  1234456677777666666655544444332221     1111122


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-----------CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCc
Q 040367          252 VYNTLMDGFCLTGRVNRAKELFVSMESMGC-----------THTVFSYSILINGYCKNKEIEGALSLYGEMLSK-GIKPD  319 (400)
Q Consensus       252 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~  319 (400)
                      +-..|...|...+.+.+...+++++.....           ..-...|..=++.|....+-.+-..++++.+.. ..-|.
T Consensus       147 TNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPH  226 (440)
T KOG1464|consen  147 TNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPH  226 (440)
T ss_pred             ccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCc
Confidence            334577778888888888888888854311           112345666778888887777777777766543 22344


Q ss_pred             hhhHHHHHHHH-----HhhCcHHHHHH
Q 040367          320 VVIYNTLFVVL-----FEIHQVERAFK  341 (400)
Q Consensus       320 ~~~~~~l~~~~-----~~~~~~~~a~~  341 (400)
                      +... .+++-|     .+.|++++|-.
T Consensus       227 PlIm-GvIRECGGKMHlreg~fe~AhT  252 (440)
T KOG1464|consen  227 PLIM-GVIRECGGKMHLREGEFEKAHT  252 (440)
T ss_pred             hHHH-hHHHHcCCccccccchHHHHHh
Confidence            4433 333333     45677766643

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=92.36  E-value=13  Score=36.94  Aligned_cols=81  Identities=17%  Similarity=0.131  Sum_probs=48.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchh--hHHHHHHHHHhh
Q 040367          256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVV--IYNTLFVVLFEI  333 (400)
Q Consensus       256 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~  333 (400)
                      ....+.....+++|.-.|+..-+         ....+.+|..+|+|.+|+.+..++...   -+..  +-..|..-+...
T Consensus       945 ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~ 1012 (1265)
T KOG1920|consen  945 YADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQ 1012 (1265)
T ss_pred             HHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHc
Confidence            33444455666666666655432         234566777788888888777766432   1211  124556666777


Q ss_pred             CcHHHHHHHHHHHHH
Q 040367          334 HQVERAFKLFDEMQR  348 (400)
Q Consensus       334 ~~~~~a~~~~~~~~~  348 (400)
                      +++-+|-+++.+...
T Consensus      1013 ~kh~eAa~il~e~~s 1027 (1265)
T KOG1920|consen 1013 RKHYEAAKILLEYLS 1027 (1265)
T ss_pred             ccchhHHHHHHHHhc
Confidence            777777777776654

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=92.26  E-value=3  Score=31.94  Aligned_cols=92  Identities=11%  Similarity=0.078  Sum_probs=41.7

Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCCCh----hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 040367           62 FCKMGRVSHGFVVLGRILRSCFTPNA----VTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGH  137 (400)
Q Consensus        62 ~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  137 (400)
                      +.+.|++++|..-|..++..-++...    ..|..-..++.+.+.++.|+.--.+.++.+ +........-..+|.+...
T Consensus       105 ~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-pty~kAl~RRAeayek~ek  183 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-PTYEKALERRAEAYEKMEK  183 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-chhHHHHHHHHHHHHhhhh
Confidence            34455555555555555544211111    122233334445555555555555544443 2223333333445555555


Q ss_pred             hHHHHHHHHHHHcCCCC
Q 040367          138 TIVALNLFEEMASGNGE  154 (400)
Q Consensus       138 ~~~a~~~~~~~~~~~~~  154 (400)
                      ++.|+.-|.++...++.
T Consensus       184 ~eealeDyKki~E~dPs  200 (271)
T KOG4234|consen  184 YEEALEDYKKILESDPS  200 (271)
T ss_pred             HHHHHHHHHHHHHhCcc
Confidence            55555555555554443

>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=92.14  E-value=4  Score=30.72  Aligned_cols=117  Identities=11%  Similarity=0.062  Sum_probs=60.6

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC---ChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCC
Q 040367          103 IMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTG---HTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPD  179 (400)
Q Consensus       103 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~  179 (400)
                      ++.|.+.++.-...+ +.|...++.-..++....   +..++.++                +++|+.-|++....+ |..
T Consensus         7 FE~ark~aea~y~~n-P~DadnL~~WG~ALLELAqfk~g~es~~m----------------iedAisK~eeAL~I~-P~~   68 (186)
T PF06552_consen    7 FEHARKKAEAAYAKN-PLDADNLTNWGGALLELAQFKQGPESKKM----------------IEDAISKFEEALKIN-PNK   68 (186)
T ss_dssp             HHHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHHS-HHHHHHH----------------HHHHHHHHHHHHHH--TT-
T ss_pred             HHHHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHhccCcchHHHH----------------HHHHHHHHHHHHhcC-Cch
Confidence            455556665544444 556666655555554443   33445444                455666666665543 223


Q ss_pred             hHhHHHHHHHHHhcC----C-------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcC
Q 040367          180 VVTYTSVIRGFCYAN----D-------WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIG  245 (400)
Q Consensus       180 ~~~~~~l~~~~~~~~----~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  245 (400)
                      ..++..+..++...+    +       +++|...|++....  .|+...|+.-+....      +|-++..++.+++
T Consensus        69 hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~~------kap~lh~e~~~~~  137 (186)
T PF06552_consen   69 HDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDE--DPNNELYRKSLEMAA------KAPELHMEIHKQG  137 (186)
T ss_dssp             HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHHH------THHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhc--CCCcHHHHHHHHHHH------hhHHHHHHHHHHH
Confidence            456666666665433    2       45555555555553  577777777776653      4556666665554

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.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=91.96  E-value=9.3  Score=34.61  Aligned_cols=357  Identities=13%  Similarity=0.026  Sum_probs=193.2

Q ss_pred             chhHHHHhcCCCCCChhhHHHHHHHH-hccCChhHHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCChhhHHHHHHHH
Q 040367            2 CIFDYMLNMRPSPPPVCSFNILFGCL-AKNKHYDTVLSLFKRLNST-GLF-PDLYTYNILINCFCKMGRVSHGFVVLGRI   78 (400)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   78 (400)
                      .+|++.+..-|.  ++..|...+..+ ...|+.+.....|+.+... |.. .+...|...|.--...+++.....+++++
T Consensus       100 ~Vfergv~aip~--SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRi  177 (577)
T KOG1258|consen  100 KVFERGVQAIPL--SVDLWLSYLAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERI  177 (577)
T ss_pred             HHHHHHHHhhhh--HHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHH
Confidence            467777777665  777887666644 4578889999999988764 321 24557788888888889999999999999


Q ss_pred             HhcCCCCChhhHHHHHHHHH---hc------CCHHHHHHHHHHHHHc----CCCCCHHHHHHHHHHHHh-cCChHHHHHH
Q 040367           79 LRSCFTPNAVTFTSLIKGLC---AE------SRIMEAAALFTKLRVF----GCEPNVFTYNTLINGLYR-TGHTIVALNL  144 (400)
Q Consensus        79 ~~~~~~~~~~~~~~l~~~~~---~~------~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~-~~~~~~a~~~  144 (400)
                      ++..    ...++....-|.   ..      ...+++.++-......    ...+....+..-+.--.. .+..+++...
T Consensus       178 leiP----~~~~~~~f~~f~~~l~~~~~~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~  253 (577)
T KOG1258|consen  178 LEIP----LHQLNRHFDRFKQLLNQNEEKILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLTEEKTI  253 (577)
T ss_pred             Hhhh----hhHhHHHHHHHHHHHhcCChhhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhhHHHHH
Confidence            8752    222222222221   11      2233333333222210    000111111111111111 1111111111


Q ss_pred             HHHHHcCC-CCCCcccchHHHHHHHHHHHhC-------CCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 040367          145 FEEMASGN-GEFGVEGFVDKAKELFLQMKDE-------NINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVV  216 (400)
Q Consensus       145 ~~~~~~~~-~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  216 (400)
                      +.+..... ..+.......+....++.-+.+       -.+++..+|...+..-...|+++.+.-.|+...-- +..=..
T Consensus       254 l~~~~~~~~~~~~~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~e  332 (577)
T KOG1258|consen  254 LKRIVSIHEKVYQKSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDE  332 (577)
T ss_pred             HHHHHHHHHHHHHhhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHH
Confidence            11111000 0000000011122222222221       11235667888888888999999999999887631 111122


Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 040367          217 TFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYC  296 (400)
Q Consensus       217 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  296 (400)
                      .|-..+.-....|+.+-+..++....+-..+..+.+--.-....-..|++..|..+++.+.+.- +-....-..-+....
T Consensus       333 fWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e~-pg~v~~~l~~~~~e~  411 (577)
T KOG1258|consen  333 FWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFEESNGNFDDAKVILQRIESEY-PGLVEVVLRKINWER  411 (577)
T ss_pred             HHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhhC-CchhhhHHHHHhHHH
Confidence            3444444445558999998888887775444333322222223445789999999999998764 222223333345556


Q ss_pred             hcCCHHHHHH---HHHHHHhCCCCCchhhHHHHHH-----HHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 040367          297 KNKEIEGALS---LYGEMLSKGIKPDVVIYNTLFV-----VLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKN  368 (400)
Q Consensus       297 ~~~~~~~a~~---~~~~~~~~~~~~~~~~~~~l~~-----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  368 (400)
                      +.|+.+.+..   ++..... |-. +......+..     .+.-.++.+.|..++.++.+. .+++...|..+++.+...
T Consensus       412 r~~~~~~~~~~~~l~s~~~~-~~~-~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~  488 (577)
T KOG1258|consen  412 RKGNLEDANYKNELYSSIYE-GKE-NNGILEKLYVKFARLRYKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQ  488 (577)
T ss_pred             HhcchhhhhHHHHHHHHhcc-ccc-CcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhC
Confidence            7788877773   3333222 211 2222222222     223468889999999999886 677788888888877665


Q ss_pred             C
Q 040367          369 S  369 (400)
Q Consensus       369 g  369 (400)
                      +
T Consensus       489 ~  489 (577)
T KOG1258|consen  489 P  489 (577)
T ss_pred             C
Confidence            5

>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=91.93  E-value=0.48  Score=24.06  Aligned_cols=27  Identities=19%  Similarity=0.050  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          357 TYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       357 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      +|..+...|...|++++|.+.|++..+
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            455566666666666666666666665

...

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=91.88  E-value=0.57  Score=25.10  Aligned_cols=29  Identities=14%  Similarity=0.097  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          355 TWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       355 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      ..+++.+...|...|++++|..++++..+
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            35677888888888888888888888763

>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=91.83  E-value=3.7  Score=31.55  Aligned_cols=74  Identities=8%  Similarity=-0.121  Sum_probs=50.6

Q ss_pred             hhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHhcCChHHHH
Q 040367           68 VSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVF---GCEPNVFTYNTLINGLYRTGHTIVAL  142 (400)
Q Consensus        68 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~  142 (400)
                      -+.|.+.|-.+...+.--++.....|...|. ..+.+++.+++-+..+.   +-.+|+..+.+|+..+.+.|+++.|.
T Consensus       122 d~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  122 DQEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             cHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            4566777766666654445555555555554 56778888888777654   22567888888888888888887775

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.80  E-value=0.55  Score=23.85  Aligned_cols=24  Identities=33%  Similarity=0.354  Sum_probs=9.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHH
Q 040367          289 SILINGYCKNKEIEGALSLYGEML  312 (400)
Q Consensus       289 ~~l~~~~~~~~~~~~a~~~~~~~~  312 (400)
                      ..+..+|...|++++|+..|++.+
T Consensus         5 ~~~g~~~~~~~~~~~A~~~~~~al   28 (34)
T PF00515_consen    5 YNLGNAYFQLGDYEEALEYYQRAL   28 (34)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCchHHHHHHHHHH
Confidence            333334444444444444444333

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 ....

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=91.69  E-value=6.4  Score=32.17  Aligned_cols=71  Identities=10%  Similarity=0.099  Sum_probs=55.8

Q ss_pred             hHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH-----HhcccchhHHH
Q 040367          322 IYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLR-----ILKCELDIRAY  393 (400)
Q Consensus       322 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-----~~~~~p~~~~~  393 (400)
                      +++.....|..+|.+.+|.++.++.+... +.+...+..++..+...|+--.+.+.++++.     +.|+..|...+
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            34556678899999999999999998863 4577888899999999999888888888874     55666655443

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=91.56  E-value=7.8  Score=32.91  Aligned_cols=145  Identities=11%  Similarity=0.008  Sum_probs=95.6

Q ss_pred             hHHHHhcCCCCCChhhHHHHHHHHhccCC------------hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhH
Q 040367            4 FDYMLNMRPSPPPVCSFNILFGCLAKNKH------------YDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHG   71 (400)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   71 (400)
                      |++.+...|.  |+.+|-.++..--+.-.            .+.-+.+++++.+.+ +.+......++..+.+..+.+..
T Consensus         8 l~~~v~~~P~--di~~Wl~li~~Qd~~~~~~~~~~~~~~a~~E~klsilerAL~~n-p~~~~L~l~~l~~~~~~~~~~~l   84 (321)
T PF08424_consen    8 LNRRVRENPH--DIEAWLELIEFQDELFRLQSSSKAERRALAERKLSILERALKHN-PDSERLLLGYLEEGEKVWDSEKL   84 (321)
T ss_pred             HHHHHHhCcc--cHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHH
Confidence            5566677776  99999888865433221            456678899988875 45777888889999999999999


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHh---cCCHHHHHHHHHHHHHc------CC----CCCH-------HHHHHHHHH
Q 040367           72 FVVLGRILRSCFTPNAVTFTSLIKGLCA---ESRIMEAAALFTKLRVF------GC----EPNV-------FTYNTLING  131 (400)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~------~~----~~~~-------~~~~~l~~~  131 (400)
                      .+-++++.... +-+...|...+.....   .-.++....+|.+....      +.    .+..       ..+..+...
T Consensus        85 ~~~we~~l~~~-~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~f  163 (321)
T PF08424_consen   85 AKKWEELLFKN-PGSPELWREYLDFRQSNFASFTVSDVRDVYEKCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRF  163 (321)
T ss_pred             HHHHHHHHHHC-CCChHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHH
Confidence            99999999874 3367788887775544   23466676666655432      11    0111       223334444


Q ss_pred             HHhcCChHHHHHHHHHHHcCC
Q 040367          132 LYRTGHTIVALNLFEEMASGN  152 (400)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~~  152 (400)
                      +...|..+.|..+++.+.+-+
T Consensus       164 l~~aG~~E~Ava~~Qa~lE~n  184 (321)
T PF08424_consen  164 LRQAGYTERAVALWQALLEFN  184 (321)
T ss_pred             HHHCCchHHHHHHHHHHHHHH
Confidence            556777666666666665543

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=91.46  E-value=0.14  Score=37.27  Aligned_cols=126  Identities=10%  Similarity=0.049  Sum_probs=82.6

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 040367           57 ILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTG  136 (400)
Q Consensus        57 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  136 (400)
                      .++..+.+.+.++....+++.+...+...+....+.++..|++.++.++..++++..       +..-...++..|.+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcc
Confidence            356677778899999999999997766667888999999999998888888888722       1133345677777778


Q ss_pred             ChHHHHHHHHHHHcCCCC---CCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCC
Q 040367          137 HTIVALNLFEEMASGNGE---FGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYAND  195 (400)
Q Consensus       137 ~~~~a~~~~~~~~~~~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  195 (400)
                      .++.|.-++.++......   ....+.++.|.+...   +   .++...|..++..|...+.
T Consensus        85 l~~~a~~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~---~---~~~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   85 LYEEAVYLYSKLGNHDEALEILHKLKDYEEAIEYAK---K---VDDPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             SHHHHHHHHHCCTTHTTCSSTSSSTHCSCCCTTTGG---G---CSSSHHHHHHHHHHCTSTC
T ss_pred             hHHHHHHHHHHcccHHHHHHHHHHHccHHHHHHHHH---h---cCcHHHHHHHHHHHHhcCc
Confidence            887887777765442221   122334444442221   1   2346677777777766554

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.

>PRK13184 pknD serine/threonine-protein kinase; Reviewed

Probab=90.88  E-value=18  Score=35.73  Aligned_cols=95  Identities=9%  Similarity=0.072  Sum_probs=60.3

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHH----HH---HhcC---ChhhHHHHHHHHHhcCCCCChh
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILIN----CF---CKMG---RVSHGFVVLGRILRSCFTPNAV   88 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~----~~---~~~~---~~~~a~~~~~~~~~~~~~~~~~   88 (400)
                      ++-++=+++...+.+++|+..|+++... +|.-.+.|.+..+    .+   ...|   .+++|+.-|+.+...  +.-+-
T Consensus       477 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~  553 (932)
T PRK13184        477 SCLAVPDAFLAEKLYDQALIFYRRIRES-FPGRKEGYEAQFRLGITLLEKASEQGDPRDFTQALSEFSYLHGG--VGAPL  553 (932)
T ss_pred             ecccCcHHHHhhHHHHHHHHHHHHHhhc-CCCcccchHHHHHhhHHHHHHHHhcCChHHHHHHHHHHHHhcCC--CCCch
Confidence            4556667888999999999999999865 2333344433332    22   2333   366777777777643  22223


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 040367           89 TFTSLIKGLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      -|..=.-+|-+.|++++-.+.+.-..++
T Consensus       554 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~  581 (932)
T PRK13184        554 EYLGKALVYQRLGEYNEEIKSLLLALKR  581 (932)
T ss_pred             HHHhHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            3444445677899999888887766654

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.77  E-value=0.97  Score=22.78  Aligned_cols=22  Identities=23%  Similarity=0.122  Sum_probs=8.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHH
Q 040367           93 LIKGLCAESRIMEAAALFTKLR  114 (400)
Q Consensus        93 l~~~~~~~~~~~~a~~~~~~~~  114 (400)
                      +...+...|++++|.+.|++..
T Consensus         7 lg~~~~~~~~~~~A~~~~~~al   28 (34)
T PF07719_consen    7 LGQAYYQLGNYEEAIEYFEKAL   28 (34)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHH
Confidence            3334444444444444444433

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 ....

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=90.72  E-value=5  Score=29.13  Aligned_cols=53  Identities=13%  Similarity=0.065  Sum_probs=37.5

Q ss_pred             hccCChhHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCChhhHHHHHHHHHhcC
Q 040367           28 AKNKHYDTVLSLFKRLNSTGLFPDLY-TYNILINCFCKMGRVSHGFVVLGRILRSC   82 (400)
Q Consensus        28 ~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   82 (400)
                      ...++++++..+++.|.-.  .|+.. .-..-...+...|++.+|.++++++...+
T Consensus        21 L~~~d~~D~e~lLdALrvL--rP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVL--RPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHh--CCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            4478889999999888765  34322 22223445678899999999999988763

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.56  E-value=12  Score=33.20  Aligned_cols=109  Identities=15%  Similarity=0.071  Sum_probs=66.9

Q ss_pred             HHHhcCCHHHHHHHHHHHHh---cCCCCC-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHh-------CCCCCchh--
Q 040367          259 GFCLTGRVNRAKELFVSMES---MGCTHT-----VFSYSILINGYCKNKEIEGALSLYGEMLS-------KGIKPDVV--  321 (400)
Q Consensus       259 ~~~~~~~~~~a~~~~~~~~~---~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~~--  321 (400)
                      .+.-.|++.+|.+++...--   .|...+     -..||.|.-.+.+.|.+..+..+|.++.+       .|++|...  
T Consensus       249 ~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~t  328 (696)
T KOG2471|consen  249 LEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFT  328 (696)
T ss_pred             HHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCccee
Confidence            34556888888777755422   121112     12245666666677788888888877764       34443211  


Q ss_pred             --------hHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 040367          322 --------IYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKN  368 (400)
Q Consensus       322 --------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  368 (400)
                              ........+...|++-.|.+.|.+.... +..++..|-.+..+|...
T Consensus       329 ls~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~v-fh~nPrlWLRlAEcCima  382 (696)
T KOG2471|consen  329 LSQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHV-FHRNPRLWLRLAECCIMA  382 (696)
T ss_pred             hhcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHH-HhcCcHHHHHHHHHHHHH
Confidence                    1122344566788888888888877765 556778888888887654

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=90.49  E-value=11  Score=32.53  Aligned_cols=53  Identities=11%  Similarity=0.159  Sum_probs=27.0

Q ss_pred             HHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 040367           24 FGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILR   80 (400)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   80 (400)
                      ..+..+.|+|+...+........  .++...+..+...  ..++++++...++.+..
T Consensus         5 ~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~   57 (352)
T PF02259_consen    5 AEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQ   57 (352)
T ss_pred             HHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHH
Confidence            45566667776644444433322  1233334433333  56666666666655543

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PRK11619 lytic murein transglycosylase; Provisional

Probab=90.46  E-value=16  Score=34.54  Aligned_cols=105  Identities=12%  Similarity=0.049  Sum_probs=62.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHH
Q 040367           91 TSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQ  170 (400)
Q Consensus        91 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  170 (400)
                      ...+..+.+.+++......+..     .+.+...-.....+....|+.++|....+.+-..+...     .+..-.+|+.
T Consensus       103 ~~~l~~La~~~~w~~~~~~~~~-----~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g~~~-----p~~cd~l~~~  172 (644)
T PRK11619        103 SRFVNELARREDWRGLLAFSPE-----KPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTGKSL-----PNACDKLFSV  172 (644)
T ss_pred             HHHHHHHHHccCHHHHHHhcCC-----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC-----ChHHHHHHHH
Confidence            3344455567777776663321     14466666777888888999888877777775544332     4556667777


Q ss_pred             HHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 040367          171 MKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEM  206 (400)
Q Consensus       171 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  206 (400)
                      ..+.|.-.+...+.- +......|+...|..+...+
T Consensus       173 ~~~~g~lt~~d~w~R-~~~al~~~~~~lA~~l~~~l  207 (644)
T PRK11619        173 WQQSGKQDPLAYLER-IRLAMKAGNTGLVTYLAKQL  207 (644)
T ss_pred             HHHcCCCCHHHHHHH-HHHHHHCCCHHHHHHHHHhc
Confidence            766654444444443 34445666666665555543

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.43  E-value=5.6  Score=36.03  Aligned_cols=131  Identities=20%  Similarity=0.145  Sum_probs=82.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHh
Q 040367          183 YTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCL  262 (400)
Q Consensus       183 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  262 (400)
                      .+.++..+.+.|-.++|+++         .+|+..   -.....+.|+++.|.++..+.      .+..-|..|.++..+
T Consensus       617 rt~va~Fle~~g~~e~AL~~---------s~D~d~---rFelal~lgrl~iA~~la~e~------~s~~Kw~~Lg~~al~  678 (794)
T KOG0276|consen  617 RTKVAHFLESQGMKEQALEL---------STDPDQ---RFELALKLGRLDIAFDLAVEA------NSEVKWRQLGDAALS  678 (794)
T ss_pred             hhhHHhHhhhccchHhhhhc---------CCChhh---hhhhhhhcCcHHHHHHHHHhh------cchHHHHHHHHHHhh
Confidence            34455555555555555433         223221   123445677777777765542      266778888888888


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHH
Q 040367          263 TGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKL  342 (400)
Q Consensus       263 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  342 (400)
                      .+++..|.+.|.....         |..|+-.+...|+.+....+-....+.|..      |....++...|+++++.++
T Consensus       679 ~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~~------N~AF~~~~l~g~~~~C~~l  743 (794)
T KOG0276|consen  679 AGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGKN------NLAFLAYFLSGDYEECLEL  743 (794)
T ss_pred             cccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhccc------chHHHHHHHcCCHHHHHHH
Confidence            8888888888877663         456666777777777666666666665532      3334456678888888887


Q ss_pred             HHHH
Q 040367          343 FDEM  346 (400)
Q Consensus       343 ~~~~  346 (400)
                      +.+-
T Consensus       744 Li~t  747 (794)
T KOG0276|consen  744 LIST  747 (794)
T ss_pred             HHhc
Confidence            7654

>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=90.37  E-value=6.3  Score=29.71  Aligned_cols=27  Identities=19%  Similarity=0.307  Sum_probs=10.9

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 040367          337 ERAFKLFDEMQRDGVAADTWTYRTFIDGL  365 (400)
Q Consensus       337 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  365 (400)
                      ++|.+.|+++...  .|+..+|+.-+...
T Consensus        97 ~kA~~~FqkAv~~--~P~ne~Y~ksLe~~  123 (186)
T PF06552_consen   97 EKATEYFQKAVDE--DPNNELYRKSLEMA  123 (186)
T ss_dssp             HHHHHHHHHHHHH---TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc--CCCcHHHHHHHHHH
Confidence            3334444444332  45555555444443

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.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=90.18  E-value=2.6  Score=32.69  Aligned_cols=75  Identities=15%  Similarity=0.147  Sum_probs=44.3

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCC--CCChhhHHHHHH
Q 040367           20 FNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCF--TPNAVTFTSLIK   95 (400)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~   95 (400)
                      .+..+..+.+.+..++|+...+.-.+.. +.|...-..+++.++-.|++++|..-++..-....  .+-...|..+|.
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir   80 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIR   80 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            4455666667777777777776665553 34555666677777777777777666665544321  223344444444

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.03  E-value=7.1  Score=29.84  Aligned_cols=90  Identities=13%  Similarity=0.079  Sum_probs=40.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCch--hhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCc
Q 040367          293 NGYCKNKEIEGALSLYGEMLSKGIKPDV--VIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSY  370 (400)
Q Consensus       293 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  370 (400)
                      ..+...+++++|..-++........-+.  ..--.|.+.....|.+|+|+..++.....++.  ......-.+.+...|+
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~--~~~~elrGDill~kg~  174 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWA--AIVAELRGDILLAKGD  174 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHH--HHHHHHhhhHHHHcCc
Confidence            3444555555555555554432111010  01112334445555566666555554443221  1222233445555566


Q ss_pred             HHHHHHHHHHHHHh
Q 040367          371 IVEAVELFRTLRIL  384 (400)
Q Consensus       371 ~~~a~~~~~~~~~~  384 (400)
                      -++|..-|++.++.
T Consensus       175 k~~Ar~ay~kAl~~  188 (207)
T COG2976         175 KQEARAAYEKALES  188 (207)
T ss_pred             hHHHHHHHHHHHHc
Confidence            66666666665554

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=89.95  E-value=0.96  Score=24.16  Aligned_cols=25  Identities=24%  Similarity=0.234  Sum_probs=11.0

Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHH
Q 040367          323 YNTLFVVLFEIHQVERAFKLFDEMQ  347 (400)
Q Consensus       323 ~~~l~~~~~~~~~~~~a~~~~~~~~  347 (400)
                      ++.+...|...|++++|..++++..
T Consensus         5 ~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    5 LNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhcchhhHHHHHHH
Confidence            3444444444444444444444433

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=89.93  E-value=19  Score=34.58  Aligned_cols=51  Identities=12%  Similarity=0.102  Sum_probs=29.3

Q ss_pred             ccchHHHHHHHHHHHhC----CCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          158 EGFVDKAKELFLQMKDE----NINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMD  208 (400)
Q Consensus       158 ~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  208 (400)
                      .|+++.+.++.+.....    ...+....+..+..+..-.|++++|..+..+..+
T Consensus       471 ~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a~~~~G~~~~Al~~~~~a~~  525 (894)
T COG2909         471 RGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEAAHIRGELTQALALMQQAEQ  525 (894)
T ss_pred             cCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHHHHHhchHHHHHHHHHHHHH
Confidence            44455555555444332    2233445566666677777777777777766554

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=89.21  E-value=3.5  Score=32.03  Aligned_cols=76  Identities=16%  Similarity=0.135  Sum_probs=54.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc--CCCCCHHHHHHHHHH
Q 040367          288 YSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD--GVAADTWTYRTFIDG  364 (400)
Q Consensus       288 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~  364 (400)
                      .+..++.+.+.+.+.+++...++-++.+ +.|...-..+++.++-.|++++|..-++-.-..  ...+...+|..++.+
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            4455667778888999999888777764 335666677888999999999998888776654  223445666666654

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.07  E-value=8.7  Score=29.54  Aligned_cols=89  Identities=12%  Similarity=0.040  Sum_probs=39.1

Q ss_pred             HHhccCChhHHHHHHHHHHhCCCCCC-----HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 040367           26 CLAKNKHYDTVLSLFKRLNSTGLFPD-----LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAE  100 (400)
Q Consensus        26 ~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  100 (400)
                      -+.++|++.+|..-|..++..- ++.     ...|..-..++.+.+.++.|+.-....++.+.. .......-..+|-+.
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek~  181 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEKM  181 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHhh
Confidence            3445555555555555555431 211     112333334445555555555555554444211 111222223344455


Q ss_pred             CCHHHHHHHHHHHHHc
Q 040367          101 SRIMEAAALFTKLRVF  116 (400)
Q Consensus       101 ~~~~~a~~~~~~~~~~  116 (400)
                      ..+++|+.-|.++.+.
T Consensus       182 ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  182 EKYEEALEDYKKILES  197 (271)
T ss_pred             hhHHHHHHHHHHHHHh
Confidence            5555555555555544

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.07  E-value=8.6  Score=29.43  Aligned_cols=55  Identities=9%  Similarity=0.084  Sum_probs=24.9

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          293 NGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       293 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      +.....|.+++|+..+......+..  ......-...+...|+-++|+.-|+..+..
T Consensus       134 rvq~q~~k~D~AL~~L~t~~~~~w~--~~~~elrGDill~kg~k~~Ar~ay~kAl~~  188 (207)
T COG2976         134 RVQLQQKKADAALKTLDTIKEESWA--AIVAELRGDILLAKGDKQEARAAYEKALES  188 (207)
T ss_pred             HHHHHhhhHHHHHHHHhccccccHH--HHHHHHhhhHHHHcCchHHHHHHHHHHHHc
Confidence            3344455555555555544443221  111223334455555555555555555544

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=88.62  E-value=12  Score=30.67  Aligned_cols=137  Identities=7%  Similarity=0.053  Sum_probs=82.2

Q ss_pred             CCHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHh-C-CChHHHHHHHHHHHHc-CCCCCHHhHHHHHHHHHhcCCHHHH
Q 040367          194 NDWNEAKCLLIEMMD-QGVQPNVVTFNVIMDELCK-N-GKMDEASRLLDLMIQI-GVRPNAFVYNTLMDGFCLTGRVNRA  269 (400)
Q Consensus       194 ~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~-~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a  269 (400)
                      ..+.+|.++|+.... ..+-.|..+...+++.... . .....-.++.+.+... +..++..+...++..++..+++.+-
T Consensus       142 ~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl  221 (292)
T PF13929_consen  142 KIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKL  221 (292)
T ss_pred             HHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHH
Confidence            345566666663222 2244566666666665544 2 1233333444444332 3456677777788888888888888


Q ss_pred             HHHHHHHHhc-CCCCChhhHHHHHHHHHhcCCHHHHHHHHHH-----HHhCCCCCchhhHHHHHHHH
Q 040367          270 KELFVSMESM-GCTHTVFSYSILINGYCKNKEIEGALSLYGE-----MLSKGIKPDVVIYNTLFVVL  330 (400)
Q Consensus       270 ~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~~~~~~~~~~~~l~~~~  330 (400)
                      .+++...... +...|...|..++..-...|+..-..++..+     +.+.++..+...-..+-+.+
T Consensus       222 ~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  222 FQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             HHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH
Confidence            8888777654 4456777888888888888887776666654     23445666655544444443

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.60  E-value=10  Score=34.53  Aligned_cols=100  Identities=16%  Similarity=0.116  Sum_probs=52.2

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHH
Q 040367          190 FCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRA  269 (400)
Q Consensus       190 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  269 (400)
                      ..+.|+.+.|.++..+.      .+..-|..|..+..+.+++..|.+.|.+...         +..|+-.+...|+.+..
T Consensus       647 al~lgrl~iA~~la~e~------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l  711 (794)
T KOG0276|consen  647 ALKLGRLDIAFDLAVEA------NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGL  711 (794)
T ss_pred             hhhcCcHHHHHHHHHhh------cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHH
Confidence            34556666665554332      2555666666666666666666666655432         33455555555665544


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 040367          270 KELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGE  310 (400)
Q Consensus       270 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  310 (400)
                      ..+-....+.| ..|     ....+|...|+++++.+++..
T Consensus       712 ~~la~~~~~~g-~~N-----~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  712 AVLASLAKKQG-KNN-----LAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHHHHHHhhc-ccc-----hHHHHHHHcCCHHHHHHHHHh
Confidence            44444444443 222     222344456666666665543

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=88.57  E-value=2.4  Score=24.49  Aligned_cols=22  Identities=18%  Similarity=-0.065  Sum_probs=10.3

Q ss_pred             HHHHHhcCcHHHHHHHHHHHHH
Q 040367          362 IDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       362 ~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      .-++.+.|++++|.+..+.+++
T Consensus         8 Aig~ykl~~Y~~A~~~~~~lL~   29 (53)
T PF14853_consen    8 AIGHYKLGEYEKARRYCDALLE   29 (53)
T ss_dssp             HHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHh
Confidence            3344455555555555555544

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=88.42  E-value=1.7  Score=21.87  Aligned_cols=26  Identities=27%  Similarity=0.277  Sum_probs=12.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          288 YSILINGYCKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       288 ~~~l~~~~~~~~~~~~a~~~~~~~~~  313 (400)
                      |..+...|...|++++|.+.|++..+
T Consensus         4 ~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    4 YYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            44444455555555555555554443

...

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=88.20  E-value=6  Score=27.63  Aligned_cols=44  Identities=5%  Similarity=0.203  Sum_probs=27.9

Q ss_pred             HHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          306 SLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      +-+..+...++.|++......+++|.+.+++..|.++|+-.+.+
T Consensus        70 kglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K  113 (149)
T KOG4077|consen   70 KGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK  113 (149)
T ss_pred             HHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            33444444556667777777777777777777777777666543

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=88.18  E-value=1.2  Score=22.14  Aligned_cols=23  Identities=26%  Similarity=0.192  Sum_probs=12.5

Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHH
Q 040367          361 FIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       361 l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      +..++.+.|++++|.+.|+++++
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHH
Confidence            44445555555555555555554

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.09  E-value=22  Score=32.99  Aligned_cols=84  Identities=13%  Similarity=0.099  Sum_probs=48.6

Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHH-----HHhcCChhhHHHHHHHHHh-------cCCCCChhhHHHHHHHHHhc
Q 040367           33 YDTVLSLFKRLNSTGLFPDLYTYNILINC-----FCKMGRVSHGFVVLGRILR-------SCFTPNAVTFTSLIKGLCAE  100 (400)
Q Consensus        33 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~  100 (400)
                      ...|.++++.....|   +......+..+     +....+.+.|...++.+.+       .+   .......+..+|.+.
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            456778887777765   33333333322     2345678888888887766       33   233445555555553


Q ss_pred             C-----CHHHHHHHHHHHHHcCCCCCHH
Q 040367          101 S-----RIMEAAALFTKLRVFGCEPNVF  123 (400)
Q Consensus       101 ~-----~~~~a~~~~~~~~~~~~~~~~~  123 (400)
                      .     +.+.|..++.+.-+.| .|+..
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g-~~~a~  328 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELG-NPDAQ  328 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcC-CchHH
Confidence            2     4566777777766665 34443

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.05  E-value=1.5  Score=24.10  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=11.9

Q ss_pred             HHHHHHhhCcHHHHHHHHHHHHH
Q 040367          326 LFVVLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       326 l~~~~~~~~~~~~a~~~~~~~~~  348 (400)
                      +..+|...|+.+.|.+++++...
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHH
Confidence            34455555555555555555553

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.

>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=87.76  E-value=0.88  Score=21.53  Aligned_cols=21  Identities=24%  Similarity=0.159  Sum_probs=11.4

Q ss_pred             HHHHHHHHhcCcHHHHHHHHH
Q 040367          359 RTFIDGLCKNSYIVEAVELFR  379 (400)
Q Consensus       359 ~~l~~~~~~~g~~~~a~~~~~  379 (400)
                      ..+..++...|++++|..+++
T Consensus         5 ~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    5 LALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHcCCHHHHHHHHh
Confidence            344555555666666655543

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

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=87.39  E-value=20  Score=31.75  Aligned_cols=126  Identities=10%  Similarity=-0.021  Sum_probs=85.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHH
Q 040367          188 RGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVN  267 (400)
Q Consensus       188 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  267 (400)
                      .--...|+...|-+-+....... +-++.........+...|+++.+.+.+...... +.....+..+++....+.|+++
T Consensus       297 ~k~~~~gd~~aas~~~~~~lr~~-~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~  374 (831)
T PRK15180        297 TKQLADGDIIAASQQLFAALRNQ-QQDPVLIQLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWR  374 (831)
T ss_pred             HHHhhccCHHHHHHHHHHHHHhC-CCCchhhHHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHH
Confidence            33445677777666555554431 223333333444567789999999988776654 3345667888899889999999


Q ss_pred             HHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 040367          268 RAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGI  316 (400)
Q Consensus       268 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  316 (400)
                      .|...-.-|....++ ++..........-..|-++++...|++....+.
T Consensus       375 ~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~  422 (831)
T PRK15180        375 EALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLNP  422 (831)
T ss_pred             HHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccCC
Confidence            999998888876544 444444444445567788999999999887643

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=87.32  E-value=6.5  Score=27.49  Aligned_cols=60  Identities=8%  Similarity=0.147  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHHHHhh
Q 040367          338 RAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLID  398 (400)
Q Consensus       338 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~  398 (400)
                      +..+-++.+....+.|++.+...-+++|.+.+|+.-|.++|+-+..+ +.+....|..+++
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            34555666777789999999999999999999999999999998753 3344445665553

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=87.24  E-value=4.8  Score=33.64  Aligned_cols=94  Identities=9%  Similarity=-0.032  Sum_probs=55.7

Q ss_pred             HHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH
Q 040367           24 FGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRI  103 (400)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  103 (400)
                      ...|.++|.+++|++.|....... +-|..++..-..+|.+.+++..|..=.+..+..+ ..-...|..-+.+-...|..
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~  181 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNN  181 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhH
Confidence            345677788888888887766652 2277777777777777777777766655555432 11222333333343445555


Q ss_pred             HHHHHHHHHHHHcCCCCC
Q 040367          104 MEAAALFTKLRVFGCEPN  121 (400)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~  121 (400)
                      .+|.+-++..++.  +|+
T Consensus       182 ~EAKkD~E~vL~L--EP~  197 (536)
T KOG4648|consen  182 MEAKKDCETVLAL--EPK  197 (536)
T ss_pred             HHHHHhHHHHHhh--Ccc
Confidence            6666666655544  444

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=87.09  E-value=5.2  Score=33.47  Aligned_cols=58  Identities=12%  Similarity=0.056  Sum_probs=44.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       256 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      -.+-|.++|.+++|+.+|....... +.|+.++..-..+|.+...+..|..--..++..
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaL  160 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIAL  160 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHh
Confidence            4567888999999999998887764 448888888888898888888777655555543

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=87.05  E-value=9.7  Score=27.71  Aligned_cols=64  Identities=9%  Similarity=-0.022  Sum_probs=40.3

Q ss_pred             HhHHHHHHH---HHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040367          251 FVYNTLMDG---FCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG  315 (400)
Q Consensus       251 ~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  315 (400)
                      .+.+.|+..   -...++++++..++..+.-.. |.....-..-...+...|++++|..++++..+.+
T Consensus         8 ~iv~gLi~~~~~aL~~~d~~D~e~lLdALrvLr-P~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561         8 RLLGGLIEVLMYALRSADPYDAQAMLDALRVLR-PNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            344444443   335688888888888887653 2222222223344677888999999988888764

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=86.80  E-value=1.6  Score=21.72  Aligned_cols=21  Identities=19%  Similarity=0.132  Sum_probs=9.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 040367           95 KGLCAESRIMEAAALFTKLRV  115 (400)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~  115 (400)
                      .++.+.|++++|.+.|+++.+
T Consensus         8 ~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    8 RCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHH
Confidence            334444444444444444443

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.78  E-value=33  Score=33.51  Aligned_cols=129  Identities=12%  Similarity=0.106  Sum_probs=78.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHcCC--CCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHH
Q 040367          124 TYNTLINGLYRTGHTIVALNLFEEMASGN--GEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKC  201 (400)
Q Consensus       124 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  201 (400)
                      -|..|+..|...|..++|++++.......  .+......++..++++....... .+-...|..+    .-..+.+...+
T Consensus       506 ~y~~Li~LY~~kg~h~~AL~ll~~l~d~~~~~d~~~~~~~e~ii~YL~~l~~~~-~~Li~~y~~w----vl~~~p~~gi~  580 (877)
T KOG2063|consen  506 KYRELIELYATKGMHEKALQLLRDLVDEDSDTDSFQLDGLEKIIEYLKKLGAEN-LDLILEYADW----VLNKNPEAGIQ  580 (877)
T ss_pred             cHHHHHHHHHhccchHHHHHHHHHHhccccccccchhhhHHHHHHHHHHhcccc-hhHHHHHhhh----hhccCchhhee
Confidence            37889999999999999999999987755  22223334444444444443321 0122223222    23556777777


Q ss_pred             HHHHH---HhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhc
Q 040367          202 LLIEM---MDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLT  263 (400)
Q Consensus       202 ~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  263 (400)
                      +|..-   ....+.++      .+-.|......+-+..+++.+....-.++....+.++..|...
T Consensus       581 Ift~~~~~~~~sis~~------~Vl~~l~~~~~~l~I~YLE~li~~~~~~~~~lht~ll~ly~e~  639 (877)
T KOG2063|consen  581 IFTSEDKQEAESISRD------DVLNYLKSKEPKLLIPYLEHLISDNRLTSTLLHTVLLKLYLEK  639 (877)
T ss_pred             eeeccChhhhccCCHH------HHHHHhhhhCcchhHHHHHHHhHhccccchHHHHHHHHHHHHH
Confidence            77661   11122222      1224566777888888888888776666777777777777643

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=86.54  E-value=15  Score=29.94  Aligned_cols=90  Identities=14%  Similarity=0.149  Sum_probs=64.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHh-
Q 040367          184 TSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCL-  262 (400)
Q Consensus       184 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-  262 (400)
                      ..=|.+++..++|.++....-+.-+.--+..+.+...-|-.|.+.+.+..+.++-....+....-+..-|..++..|.. 
T Consensus        87 vvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~  166 (309)
T PF07163_consen   87 VVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLH  166 (309)
T ss_pred             hhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHH
Confidence            3346788999999999888766654322334455666667789999999999998888775333334447777666554 


Q ss_pred             ----cCCHHHHHHHH
Q 040367          263 ----TGRVNRAKELF  273 (400)
Q Consensus       263 ----~~~~~~a~~~~  273 (400)
                          .|.+++|+++.
T Consensus       167 VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  167 VLLPLGHFSEAEELV  181 (309)
T ss_pred             HHhccccHHHHHHHH
Confidence                59999999877

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

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.17  E-value=15  Score=29.10  Aligned_cols=23  Identities=9%  Similarity=0.281  Sum_probs=14.1

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCC
Q 040367          295 YCKNKEIEGALSLYGEMLSKGIK  317 (400)
Q Consensus       295 ~~~~~~~~~a~~~~~~~~~~~~~  317 (400)
                      -...+++.+|+++|++.....+.
T Consensus       164 aa~leqY~~Ai~iyeqva~~s~~  186 (288)
T KOG1586|consen  164 AAQLEQYSKAIDIYEQVARSSLD  186 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcc
Confidence            34556677777777766665443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=85.72  E-value=26  Score=31.43  Aligned_cols=166  Identities=11%  Similarity=0.105  Sum_probs=94.9

Q ss_pred             CCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHH
Q 040367          177 NPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTL  256 (400)
Q Consensus       177 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  256 (400)
                      +.|.....+++..+..+..+.-...+..+|..-|  .+...|..++.+|..+ ..++...+++++.+..+. |...-..|
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReL  138 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGREL  138 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHH
Confidence            3455566667777777777777777777777654  4556677777777766 556666777777665332 33334444


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCC-----ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCchhhHHHHHHHH
Q 040367          257 MDGFCLTGRVNRAKELFVSMESMGCTH-----TVFSYSILINGYCKNKEIEGALSLYGEMLSK-GIKPDVVIYNTLFVVL  330 (400)
Q Consensus       257 ~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~  330 (400)
                      +..|.+ ++.+.+...|..+...-++.     -...|..|...-  ..+.+....+..+.... |...-...+.-+-.-|
T Consensus       139 a~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Y  215 (711)
T COG1747         139 ADKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKY  215 (711)
T ss_pred             HHHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHh
Confidence            444443 66677777776665432221     112344444311  23555556555555543 3222334444455666


Q ss_pred             HhhCcHHHHHHHHHHHHHc
Q 040367          331 FEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       331 ~~~~~~~~a~~~~~~~~~~  349 (400)
                      ....++++|++++....+.
T Consensus       216 s~~eN~~eai~Ilk~il~~  234 (711)
T COG1747         216 SENENWTEAIRILKHILEH  234 (711)
T ss_pred             ccccCHHHHHHHHHHHhhh
Confidence            6677777777777766654

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=85.71  E-value=22  Score=30.55  Aligned_cols=54  Identities=15%  Similarity=0.101  Sum_probs=32.4

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 040367           58 LINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRV  115 (400)
Q Consensus        58 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  115 (400)
                      ...+..+.|+++...+........  .++...+.++...  +.++++++....+....
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            345667788888854544444322  2344444444433  77888888887777664

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=85.58  E-value=18  Score=29.51  Aligned_cols=126  Identities=11%  Similarity=-0.018  Sum_probs=83.3

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHhCC-----C-CCC-------HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC
Q 040367           20 FNILFGCLAKNKHYDTVLSLFKRLNSTG-----L-FPD-------LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPN   86 (400)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~-~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   86 (400)
                      ...-.+.+.-..||..|++..++-.+.=     . .+.       ......=|++++..+++.+++.+.-+..+.--+..
T Consensus        38 Le~Aad~LvV~rdF~aal~tCerglqsL~~~a~~ee~~~~~~evK~sLcvvGIQALAEmnrWreVLsWvlqyYq~pEklP  117 (309)
T PF07163_consen   38 LEEAADLLVVHRDFQAALETCERGLQSLASDADAEEPAGSSLEVKCSLCVVGIQALAEMNRWREVLSWVLQYYQVPEKLP  117 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchhhhhhhhhhhhHHHHHHHhhHHHHHHHHHHHhcCcccCC
Confidence            3344455566789999999988765420     1 111       11233447889999999998887766655432334


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-----cCChHHHHHHH
Q 040367           87 AVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYR-----TGHTIVALNLF  145 (400)
Q Consensus        87 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~  145 (400)
                      ..+...-|-.|.+.+++..+.++-..-....-.-+..-|.+++..|..     .|.+++|.++.
T Consensus       118 pkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  118 PKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHhccccHHHHHHHH
Confidence            556666777789999999999888877765223344447777666654     58888887766

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

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.99  E-value=36  Score=32.32  Aligned_cols=167  Identities=13%  Similarity=0.155  Sum_probs=95.7

Q ss_pred             HHHHhccCChhHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 040367           24 FGCLAKNKHYDTVLSLFKRLNSTGLFP---DLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAE  100 (400)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  100 (400)
                      ++.+.+.+.+++|++.-+.....  .|   -......+|..+...|++++|-...-.|...    +..-|..-+..+...
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            56678888999999887655433  33   2345677888888999999998888888754    566677667666666


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCC-CCcccchHHHHHHHHHHHhCCCCCC
Q 040367          101 SRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGE-FGVEGFVDKAKELFLQMKDENINPD  179 (400)
Q Consensus       101 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~~~~~  179 (400)
                      ++......++   .......+...|..++..+.. .+...   +++....-.+. +...-..+.   .-.+..+.  .-+
T Consensus       437 ~~l~~Ia~~l---Pt~~~rL~p~vYemvLve~L~-~~~~~---F~e~i~~Wp~~Lys~l~iisa---~~~q~~q~--Se~  504 (846)
T KOG2066|consen  437 DQLTDIAPYL---PTGPPRLKPLVYEMVLVEFLA-SDVKG---FLELIKEWPGHLYSVLTIISA---TEPQIKQN--SES  504 (846)
T ss_pred             cccchhhccC---CCCCcccCchHHHHHHHHHHH-HHHHH---HHHHHHhCChhhhhhhHHHhh---cchHHHhh--ccc
Confidence            6655443332   222112356677777777766 22211   11111111100 000000000   11111111  112


Q ss_pred             hHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          180 VVTYTSVIRGFCYANDWNEAKCLLIEMMD  208 (400)
Q Consensus       180 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  208 (400)
                      ...-..|+..|...+++..|+..+-.+.+
T Consensus       505 ~~L~e~La~LYl~d~~Y~~Al~~ylklk~  533 (846)
T KOG2066|consen  505 TALLEVLAHLYLYDNKYEKALPIYLKLQD  533 (846)
T ss_pred             hhHHHHHHHHHHHccChHHHHHHHHhccC
Confidence            23344588899999999999998877654

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=84.98  E-value=33  Score=32.00  Aligned_cols=27  Identities=11%  Similarity=0.096  Sum_probs=18.0

Q ss_pred             hhhHHHHHHHHhccCChhHHHHHHHHHH
Q 040367           17 VCSFNILFGCLAKNKHYDTVLSLFKRLN   44 (400)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~   44 (400)
                      +.-|+ .+..+.-.|.++.|.+++....
T Consensus       149 p~FW~-~v~~lvlrG~~~~a~~lL~~~s  175 (566)
T PF07575_consen  149 PDFWD-YVQRLVLRGLFDQARQLLRLHS  175 (566)
T ss_dssp             HHHHH-HHHHHHHTT-HHHHHHHH-TTT
T ss_pred             hhHHH-HHHHHHHcCCHHHHHHHHHhcc
Confidence            44555 6777788889999998884443

Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.

>PRK09687 putative lyase; Provisional

Probab=84.91  E-value=21  Score=29.62  Aligned_cols=200  Identities=10%  Similarity=-0.018  Sum_probs=115.8

Q ss_pred             ChHhHHHHHHHHHhcCCH----HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCh-----HHHHHHHHHHHHcCCCCC
Q 040367          179 DVVTYTSVIRGFCYANDW----NEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKM-----DEASRLLDLMIQIGVRPN  249 (400)
Q Consensus       179 ~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~  249 (400)
                      |...-...+.++.+.|+.    .++...+..+...  .++..+-...+.++...+..     ..+...+.....   .++
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            444555556666666653    4566667666433  35666666666666555421     223333333332   335


Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCchhhHHHHHH
Q 040367          250 AFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNK-EIEGALSLYGEMLSKGIKPDVVIYNTLFV  328 (400)
Q Consensus       250 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  328 (400)
                      ..+-...+.++.+.++ .++...+-.+.+   .++..+-...+.++.+.+ +.+.+...+..+..   .++..+-...+.
T Consensus       142 ~~VR~~a~~aLg~~~~-~~ai~~L~~~L~---d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~  214 (280)
T PRK09687        142 TNVRFAVAFALSVIND-EAAIPLLINLLK---DPNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAII  214 (280)
T ss_pred             HHHHHHHHHHHhccCC-HHHHHHHHHHhc---CCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHH
Confidence            5566667777777776 456666666654   344445555555555543 23456666666664   346666677788


Q ss_pred             HHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHHHHhhc
Q 040367          329 VLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDG  399 (400)
Q Consensus       329 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~  399 (400)
                      ++.+.|+ ..++..+-+..+.+   +  .....+.++...|+. +|+..+..+.+.  .||..+-...+.+
T Consensus       215 aLg~~~~-~~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a  276 (280)
T PRK09687        215 GLALRKD-KRVLSVLIKELKKG---T--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDK  276 (280)
T ss_pred             HHHccCC-hhHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHH
Confidence            8888887 45666665555542   2  234677788888885 688888888753  3465554444443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=84.61  E-value=30  Score=31.11  Aligned_cols=166  Identities=13%  Similarity=0.136  Sum_probs=122.7

Q ss_pred             CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHH
Q 040367          212 QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSIL  291 (400)
Q Consensus       212 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  291 (400)
                      +.|.....+++..+..+-...-...+..+|...|  .+...+..++.+|... ..++-..+|+++.+..+ .|...-..|
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReL  138 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGREL  138 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHH
Confidence            4566677888999999988999999999999864  4677888999999887 66888999999998863 345555566


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCC-----chhhHHHHHHHHHhhCcHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHH
Q 040367          292 INGYCKNKEIEGALSLYGEMLSKGIKP-----DVVIYNTLFVVLFEIHQVERAFKLFDEMQRD-GVAADTWTYRTFIDGL  365 (400)
Q Consensus       292 ~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~  365 (400)
                      +.-|.+ ++.+.+..+|.++...-++.     -...|..+...-  ..+.+....+....... |..--...+.-+..-|
T Consensus       139 a~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Y  215 (711)
T COG1747         139 ADKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKY  215 (711)
T ss_pred             HHHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHh
Confidence            666655 88899999999887652221     123455544322  46778888888777654 4444566677777889


Q ss_pred             HhcCcHHHHHHHHHHHHHh
Q 040367          366 CKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       366 ~~~g~~~~a~~~~~~~~~~  384 (400)
                      ....++++|+++++.+++.
T Consensus       216 s~~eN~~eai~Ilk~il~~  234 (711)
T COG1747         216 SENENWTEAIRILKHILEH  234 (711)
T ss_pred             ccccCHHHHHHHHHHHhhh
Confidence            9999999999999977654

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=84.30  E-value=19  Score=28.48  Aligned_cols=66  Identities=12%  Similarity=0.014  Sum_probs=39.9

Q ss_pred             HHHHHHHHHHHHcCCCC-----CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHH
Q 040367          104 MEAAALFTKLRVFGCEP-----NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFL  169 (400)
Q Consensus       104 ~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~  169 (400)
                      ..|.+.|.+..+..-.|     +......+.....+.|+.++|.++|.++.............+.|.+.++
T Consensus       142 ~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~~s~~~~l~~~AR~~w~  212 (214)
T PF09986_consen  142 RKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKKASKEPKLKDMARDQWQ  212 (214)
T ss_pred             HHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCCCCCcHHHHHHHHHHHH
Confidence            45666666665543121     2344455667778889998888888888776655443334444544443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=84.25  E-value=22  Score=29.30  Aligned_cols=57  Identities=16%  Similarity=0.142  Sum_probs=31.8

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 040367          219 NVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSM  276 (400)
Q Consensus       219 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  276 (400)
                      ....+.|..+|.+.+|.++.++.+..+ +.+...+..++..+...||--.+..-++.+
T Consensus       283 gkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyery  339 (361)
T COG3947         283 GKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERY  339 (361)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHH
Confidence            344455566666666666666665542 334555555666666666655555555444

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=83.75  E-value=32  Score=30.79  Aligned_cols=212  Identities=8%  Similarity=0.076  Sum_probs=119.6

Q ss_pred             hHHHHHHHHHHHhCC-CCC-ChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC-ChHH-HHH
Q 040367          161 VDKAKELFLQMKDEN-INP-DVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNG-KMDE-ASR  236 (400)
Q Consensus       161 ~~~a~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~-a~~  236 (400)
                      +.....+++.....+ ..+ ....|..+.-.+...+...++.   ..+...++..+...|..-+....+.. +.+- ...
T Consensus       337 I~h~~~~~~~~~~~~~l~~~~~~~ys~~~l~~~t~~~~r~~a---~~l~~e~f~~s~k~~~~kl~~~~~s~sD~q~~f~~  413 (568)
T KOG2396|consen  337 ILHTMCVFRKAHELKLLSECLYKQYSVLLLCLNTLNEAREVA---VKLTTELFRDSGKMWQLKLQVLIESKSDFQMLFEE  413 (568)
T ss_pred             HHHHHHHHHHHHHhcccccchHHHHHHHHHHHhccchHhHHH---HHhhHHHhcchHHHHHHHHHHHHhhcchhHHHHHH
Confidence            444555555554332 222 2345555555555554433322   22222234456666666665555332 2222 222


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHHhcCC-HHH--HHHHHHHHHhcCCCCChhh-HHHHHHHHHhcCCHHHHHHHHHHHH
Q 040367          237 LLDLMIQIGVRPNAFVYNTLMDGFCLTGR-VNR--AKELFVSMESMGCTHTVFS-YSILINGYCKNKEIEGALSLYGEML  312 (400)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~--a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~  312 (400)
                      .+......-..+....+++..     .++ +..  -..++..+...+ .++..+ -+.++..+.+.|-..+|...+..+.
T Consensus       414 l~n~~r~~~~s~~~~~w~s~~-----~~dsl~~~~~~~Ii~a~~s~~-~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~  487 (568)
T KOG2396|consen  414 LFNHLRKQVCSELLISWASAS-----EGDSLQEDTLDLIISALLSVI-GADSVTLKSKYLDWAYESGGYKKARKVYKSLQ  487 (568)
T ss_pred             HHHHHHHHhcchhHHHHHHHh-----hccchhHHHHHHHHHHHHHhc-CCceeehhHHHHHHHHHhcchHHHHHHHHHHH
Confidence            333333321122222233222     233 222  122334444444 444444 4677888888999999999999998


Q ss_pred             hCCCCCchhhHHHHHHHHH--hhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          313 SKGIKPDVVIYNTLFVVLF--EIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       313 ~~~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      .. ++|+...|..+++.-.  ..-+...+.++++.|... +.-|+..|...+..-...|..+.+-.++.++++
T Consensus       488 ~l-pp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~-fg~d~~lw~~y~~~e~~~g~~en~~~~~~ra~k  558 (568)
T KOG2396|consen  488 EL-PPFSLDLFRKMIQFEKEQESCNLANIREYYDRALRE-FGADSDLWMDYMKEELPLGRPENCGQIYWRAMK  558 (568)
T ss_pred             hC-CCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHH-hCCChHHHHHHHHhhccCCCcccccHHHHHHHH
Confidence            86 5667777777775432  223378889999998865 236888888888877889999988888777764

>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=83.70  E-value=73  Score=34.85  Aligned_cols=117  Identities=16%  Similarity=0.103  Sum_probs=79.5

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 040367           22 ILFGCLAKNKHYDTVLSLFKRLNSTGL--FPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCA   99 (400)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (400)
                      .+..+-.+.+.+.+|+..++.-.....  ......|..+...|...++++....+...-..   .|+  .+ .-|.....
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a---~~s--l~-~qil~~e~ 1461 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFA---DPS--LY-QQILEHEA 1461 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhc---Ccc--HH-HHHHHHHh
Confidence            455566778899999999998421111  11233455555699999999998888775221   222  22 23444567


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 040367          100 ESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLF  145 (400)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  145 (400)
                      .|++..|...|+.+...+ ++....++.++......|.+...+...
T Consensus      1462 ~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~ 1506 (2382)
T KOG0890|consen 1462 SGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHL 1506 (2382)
T ss_pred             hccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhh
Confidence            899999999999999875 445778888888887888766555433

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=83.32  E-value=41  Score=31.76  Aligned_cols=198  Identities=17%  Similarity=0.152  Sum_probs=109.0

Q ss_pred             CCHHHHHHHHHHHHhcCChhhHHHHHHHHHh-cCCCCCh--hhHHHHHHHHH-hcCCHHHHHHHHHHHHHcCCCCCHH--
Q 040367           50 PDLYTYNILINCFCKMGRVSHGFVVLGRILR-SCFTPNA--VTFTSLIKGLC-AESRIMEAAALFTKLRVFGCEPNVF--  123 (400)
Q Consensus        50 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~--~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~--  123 (400)
                      .+...|..+|..         |+..++.+.+ ..++|..  .++-.+...+. ...+++.|+..+++.....-.++..  
T Consensus        28 ~~l~~Y~kLI~~---------ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~   98 (608)
T PF10345_consen   28 EQLKQYYKLIAT---------AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDL   98 (608)
T ss_pred             hhHHHHHHHHHH---------HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHH
Confidence            355667777744         4556666663 3333332  34455555555 7889999999999775443222221  


Q ss_pred             ---HHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHH-HHHHHhcCCHHHH
Q 040367          124 ---TYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSV-IRGFCYANDWNEA  199 (400)
Q Consensus       124 ---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a  199 (400)
                         .-..++..+.+.+... |.+.+++..+.                +   ...+..+-...|..+ +..+...+++..|
T Consensus        99 k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~----------------~---~~~~~~~w~~~frll~~~l~~~~~d~~~A  158 (608)
T PF10345_consen   99 KFRCQFLLARIYFKTNPKA-ALKNLDKAIED----------------S---ETYGHSAWYYAFRLLKIQLALQHKDYNAA  158 (608)
T ss_pred             HHHHHHHHHHHHHhcCHHH-HHHHHHHHHHH----------------H---hccCchhHHHHHHHHHHHHHHhcccHHHH
Confidence               2234556666666544 66665554321                1   112222233344444 3333344789999


Q ss_pred             HHHHHHHHhCC---CCCCHHHHHHHHHHHH--hCCChHHHHHHHHHHHHcCC---------CCCHHhHHHHHHHH--Hhc
Q 040367          200 KCLLIEMMDQG---VQPNVVTFNVIMDELC--KNGKMDEASRLLDLMIQIGV---------RPNAFVYNTLMDGF--CLT  263 (400)
Q Consensus       200 ~~~~~~~~~~~---~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~---------~~~~~~~~~l~~~~--~~~  263 (400)
                      .+.++.+...-   ..|...++..++.+..  +.+..+++.+.++++.....         .|...++..+++.+  ...
T Consensus       159 l~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~  238 (608)
T PF10345_consen  159 LENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQ  238 (608)
T ss_pred             HHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHc
Confidence            99988876432   2344445555555443  45666777777776643211         23445566666554  456


Q ss_pred             CCHHHHHHHHHHH
Q 040367          264 GRVNRAKELFVSM  276 (400)
Q Consensus       264 ~~~~~a~~~~~~~  276 (400)
                      |+++.+...++++
T Consensus       239 ~~~~~~~~~L~~l  251 (608)
T PF10345_consen  239 GDVKNSKQKLKQL  251 (608)
T ss_pred             CCHHHHHHHHHHH
Confidence            7766777666665

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 [].

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=82.33  E-value=30  Score=29.45  Aligned_cols=60  Identities=2%  Similarity=-0.096  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 040367          233 EASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILING  294 (400)
Q Consensus       233 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  294 (400)
                      .-+.+++++++.+ +.+......++..+.+..+.++..+.++++.... +-+...|...+..
T Consensus        49 ~klsilerAL~~n-p~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~-~~~~~LW~~yL~~  108 (321)
T PF08424_consen   49 RKLSILERALKHN-PDSERLLLGYLEEGEKVWDSEKLAKKWEELLFKN-PGSPELWREYLDF  108 (321)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCChHHHHHHHHH
Confidence            3344555555542 2344444455555555555555555555555443 2244444444443

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.55  E-value=25  Score=27.98  Aligned_cols=61  Identities=7%  Similarity=0.068  Sum_probs=29.2

Q ss_pred             HHHHHHHhc-CCHHHHHHHHHHHHhC--CCCCCHH---HHHHHHHHHHhCCChHHHHHHHHHHHHcC
Q 040367          185 SVIRGFCYA-NDWNEAKCLLIEMMDQ--GVQPNVV---TFNVIMDELCKNGKMDEASRLLDLMIQIG  245 (400)
Q Consensus       185 ~l~~~~~~~-~~~~~a~~~~~~~~~~--~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  245 (400)
                      .+...|-.. .++++|+..|++.-+-  |-..+..   .+.-+...-...+++.+|.++|+++....
T Consensus       118 ~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s  184 (288)
T KOG1586|consen  118 EIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSS  184 (288)
T ss_pred             hHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344444433 5566666666655431  1111111   22222333345566777777777766553

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=80.73  E-value=55  Score=31.42  Aligned_cols=189  Identities=9%  Similarity=-0.028  Sum_probs=105.5

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH---hcCChhhHHHHHHHHHhcCCCCChhhHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFC---KMGRVSHGFVVLGRILRSCFTPNAVTFTS   92 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   92 (400)
                      +...+..||..+.+.|++++...--..|.+.- +.++..|...+....   ..++..++..++++.+...  .++..|.-
T Consensus       112 ~~~~~v~Li~llrk~~dl~kl~~ar~~~~~~~-pl~~~lWl~Wl~d~~~mt~s~~~~~v~~~~ekal~dy--~~v~iw~e  188 (881)
T KOG0128|consen  112 KYAQMVQLIGLLRKLGDLEKLRQARLEMSEIA-PLPPHLWLEWLKDELSMTQSEERKEVEELFEKALGDY--NSVPIWEE  188 (881)
T ss_pred             chHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CCChHHHHHHHHHHHhhccCcchhHHHHHHHHHhccc--ccchHHHH
Confidence            56677888999999999998888777777653 556667766654433   3467778888888877653  34444444


Q ss_pred             HHHHHH-------hcCCHHHHHHHHHHHHHc-CCCCC-----HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc--
Q 040367           93 LIKGLC-------AESRIMEAAALFTKLRVF-GCEPN-----VFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV--  157 (400)
Q Consensus        93 l~~~~~-------~~~~~~~a~~~~~~~~~~-~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--  157 (400)
                      .+..+.       ..++++....+|.+.... |...+     ...|.-+-..|...-..++.+.++..-...+.+...  
T Consensus       189 ~~~y~~~~~~~~~~~~d~k~~R~vf~ral~s~g~~~t~G~~~we~~~E~e~~~l~n~~~~qv~a~~~~el~~~~D~~~~~  268 (881)
T KOG0128|consen  189 VVNYLVGFGNVAKKSEDYKKERSVFERALRSLGSHITEGAAIWEMYREFEVTYLCNVEQRQVIALFVRELKQPLDEDTRG  268 (881)
T ss_pred             HHHHHHhccccccccccchhhhHHHHHHHhhhhhhhcccHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhccchhhhhH
Confidence            444333       345677777777776643 22111     122222223333344344555555544443311111  


Q ss_pred             ---------------ccchHHHHHH-------HHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          158 ---------------EGFVDKAKEL-------FLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMD  208 (400)
Q Consensus       158 ---------------~~~~~~a~~~-------~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  208 (400)
                                     ....+.+..-       +....+. .++-...|..++..+...|++-.....++++..
T Consensus       269 ~~~~~~sk~h~~~~~~~~~~~a~~~l~~~~~~~e~~~q~-~~~~~q~~~~yidfe~~~G~p~ri~l~~eR~~~  340 (881)
T KOG0128|consen  269 WDLSEQSKAHVYDVETKKLDDALKNLAKILFKFERLVQK-EPIKDQEWMSYIDFEKKSGDPVRIQLIEERAVA  340 (881)
T ss_pred             HHHHHHHhcchHHHHhccHHHHHHHHHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHH
Confidence                           1122222222       2222222 133445677778888888887666666666543

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=80.54  E-value=9.3  Score=24.20  Aligned_cols=46  Identities=7%  Similarity=0.050  Sum_probs=23.4

Q ss_pred             hhCcHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCcHHHHHHH
Q 040367          332 EIHQVERAFKLFDEMQRDGVAAD--TWTYRTFIDGLCKNSYIVEAVEL  377 (400)
Q Consensus       332 ~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~  377 (400)
                      ...+.++|+..++..++.-..+.  ..++..++.+|+..|++.++++.
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            44555566666665555422211  23344555566666666555544

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=80.38  E-value=15  Score=33.42  Aligned_cols=96  Identities=7%  Similarity=-0.069  Sum_probs=47.6

Q ss_pred             HHHHHHHHhc-cCChhHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 040367           20 FNILFGCLAK-NKHYDTVLSLFKRLNSTGLFPD-LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGL   97 (400)
Q Consensus        20 ~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   97 (400)
                      +..+..+|.+ .|+..+|+.......-...+-. .....++...+.+.|...+|--++..+...-... ..-+-.+.+.+
T Consensus       215 lH~~as~YWR~~G~~~~A~~Ca~~a~hf~~~h~kdi~lLSlaTiL~RaG~sadA~iILhAA~~dA~~~-t~n~y~l~~i~  293 (886)
T KOG4507|consen  215 LHNMASFYWRIKGEPYQAVECAMRALHFSSRHNKDIALLSLATVLHRAGFSADAAVILHAALDDADFF-TSNYYTLGNIY  293 (886)
T ss_pred             HHHHHHHHHHHcCChhhhhHHHHHHhhhCCcccccchhhhHHHHHHHcccccchhheeehhccCCccc-cccceeHHHHH
Confidence            3344444433 6778888777766544311111 1234455566667777777666665544331100 01123344555


Q ss_pred             HhcCCHHHHHHHHHHHHHc
Q 040367           98 CAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~  116 (400)
                      +..+++......|+...+.
T Consensus       294 aml~~~N~S~~~ydha~k~  312 (886)
T KOG4507|consen  294 AMLGEYNHSVLCYDHALQA  312 (886)
T ss_pred             HHHhhhhhhhhhhhhhhcc
Confidence            5555555555555555444

>smart00028 TPR Tetratricopeptide repeats

Probab=80.11  E-value=4.3  Score=19.30  Aligned_cols=25  Identities=16%  Similarity=0.071  Sum_probs=13.3

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          358 YRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       358 ~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                      +..+...+...|++++|...++..+
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~   28 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKAL   28 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3444455555555555555555554

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.

---

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	400
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	9e-19
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-18
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-10
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-08
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	9e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-05

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 87.6 bits (215), Expect = 9e-19
 Identities = 24/219 (10%), Positives = 58/219 (26%), Gaps = 4/219 (1%)

Query: 164 AKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMD 223
           A  L    +    +P       +++        +  +    +     +            
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 224 ELCKNGKMDEASRLLDL---MIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMG 280
                 ++  A  LL +     Q        +YN +M G+   G       +   ++  G
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG 195

Query: 281 CTHTVFSYSILINGYCKNKEIEGALSLY-GEMLSKGIKPDVVIYNTLFVVLFEIHQVERA 339
            T  + SY+  +    +  +  G +     +M  +G+K   +    L         ++  
Sbjct: 196 LTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV 255

Query: 340 FKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELF 378
            K+                   +  +      V   +L 
Sbjct: 256 HKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLH 294

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 86.0 bits (211), Expect = 3e-18
 Identities = 24/206 (11%), Positives = 59/206 (28%), Gaps = 4/206 (1%)

Query: 197 NEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTL 256
             A CL          P       ++ E      +D          Q  +          
Sbjct: 74  QMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAF 133

Query: 257 MDGFCLTGRVNRAKELFVSMESM---GCTHTVFSYSILINGYCKNKEIEGALSLYGEMLS 313
                LT ++  A  L V            T+  Y+ ++ G+ +    +  + +   +  
Sbjct: 134 FKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD 193

Query: 314 KGIKPDVVIYNTLFVVLFEIHQVERAF-KLFDEMQRDGVAADTWTYRTFIDGLCKNSYIV 372
            G+ PD++ Y      +    Q      +  ++M ++G+          +    + + + 
Sbjct: 194 AGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLK 253

Query: 373 EAVELFRTLRILKCELDIRAYNCLID 398
              ++  T  +          + L+ 
Sbjct: 254 AVHKVKPTFSLPPQLPPPVNTSKLLR 279

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 71.8 bits (174), Expect = 2e-13
 Identities = 26/302 (8%), Positives = 70/302 (23%), Gaps = 39/302 (12%)

Query: 42  RLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVL---GRILRSCFTPNAVTFTSLIKGLC 98
           + +   L            C     ++     +L       +         + +++ G  
Sbjct: 117 QHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWA 176

Query: 99  AESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVE 158
            +    E   +   ++  G  P++ +Y   +  + R                        
Sbjct: 177 RQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQD-------------------- 216

Query: 159 GFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTF 218
                 +    QM  E +    +    ++     A        +          P  V  
Sbjct: 217 --AGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNT 274

Query: 219 NVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMES 278
           + ++ ++          +L   +  +       ++   M+       V+  K    S E 
Sbjct: 275 SKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLH---MELASRVCVVSVEKPTLPSKEV 331

Query: 279 MGCT----------HTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFV 328
                               ++        +E+          L   +    V+   L V
Sbjct: 332 KHARKTLKTLRDQWEKALCRALRETKNRLEREVYEGRFSLYPFLCL-LDEREVVRMLLQV 390

Query: 329 VL 330
           + 
Sbjct: 391 LQ 392

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 62.9 bits (151), Expect = 1e-10
 Identities = 22/207 (10%), Positives = 64/207 (30%), Gaps = 3/207 (1%)

Query: 3   IFDYMLNM--RPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILIN 60
           +         +     +  +N +    A+   +  ++ +   +   GL PDL +Y   + 
Sbjct: 149 LLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ 208

Query: 61  CFCKMGRVSHGFV-VLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCE 119
           C  +  + +      L ++ +      A+    L+      + +     +     +    
Sbjct: 209 CMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQL 268

Query: 120 PNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPD 179
           P     + L+  +Y     +    L   + +    F  +  ++ A  + +   ++   P 
Sbjct: 269 PPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPS 328

Query: 180 VVTYTSVIRGFCYANDWNEAKCLLIEM 206
                +        + W +A C  +  
Sbjct: 329 KEVKHARKTLKTLRDQWEKALCRALRE 355

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 58.7 bits (140), Expect = 2e-09
 Identities = 14/134 (10%), Positives = 38/134 (28%), Gaps = 4/134 (2%)

Query: 19  SFNILFGCLAKNKHYD---TVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVL 75
                F C            +L +            L  YN ++  + + G       VL
Sbjct: 129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVL 188

Query: 76  GRILRSCFTPNAVTFTSLIKGLCAESRIMEAAA-LFTKLRVFGCEPNVFTYNTLINGLYR 134
             +  +  TP+ +++ + ++ +  + +          ++   G +        L++   R
Sbjct: 189 FMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR 248

Query: 135 TGHTIVALNLFEEM 148
                    +    
Sbjct: 249 ATVLKAVHKVKPTF 262

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 55.2 bits (131), Expect = 2e-08
 Identities = 14/135 (10%), Positives = 34/135 (25%), Gaps = 3/135 (2%)

Query: 269 AKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFV 328
           A  L         +      + L+        ++   +  G+     +          F 
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 329 VLFEIHQVERAFKLFD---EMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILK 385
                 Q+  A  L       ++         Y   + G  +     E V +   ++   
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG 195

Query: 386 CELDIRAYNCLIDGL 400
              D+ +Y   +  +
Sbjct: 196 LTPDLLSYAAALQCM 210

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 45.9 bits (108), Expect = 9e-06
 Identities = 33/228 (14%), Positives = 72/228 (31%), Gaps = 20/228 (8%)

Query: 141 ALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDE--------NINPDVVTYTSVIRGFCY 192
            +N  + +   + E  VE  V   +    Q K          +  P++            
Sbjct: 18  CINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPSSAPELQAVRMFAEYLAS 77

Query: 193 ANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDE-LCKNGKMDEASRLLDLMIQIGVRPN-A 250
            +  +     L   M + V     TF ++       +   D A R L     +       
Sbjct: 78  HSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQGDSLECMAMTV 137

Query: 251 FVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSI-LINGYCKNKEIEGALSLYG 309
            +   L        R++ A++    M+      T+   +   ++     ++++ A  ++ 
Sbjct: 138 QILLKL-------DRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQ 190

Query: 310 EMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDE-MQRDGVAADTW 356
           EM  K   P +++ N          + E A  +  E + +D    +T 
Sbjct: 191 EMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETL 237

>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 = 45.2 bits (106), Expect = 4e-05
 Identities = 63/457 (13%), Positives = 128/457 (28%), Gaps = 138/457 (30%)

Query: 4   FDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFC 63
            D+++    S   V     LF  L  +K  + V    ++     L  +   Y  L++   
Sbjct: 51  IDHIIM---SKDAVSGTLRLFWTL-LSKQEEMV----QKFVEEVLRIN---YKFLMS--- 96

Query: 64  KMGRVSHGFVVLGRILRSCFTPNAVT--FTSLIKGLCAESRIMEAAALFTKLRVFGCEPN 121
                         I      P+ +T  +      L  ++++      F K  V   +P 
Sbjct: 97  -------------PIKTEQRQPSMMTRMYIEQRDRLYNDNQV------FAKYNVSRLQP- 136

Query: 122 VFTYNTLINGLYR-TGHTIVALNLFEEMASGNGEFGVEGFVDK---AKELFLQMKDENIN 177
              Y  L   L        V ++       G    G      K   A ++ L  K +   
Sbjct: 137 ---YLKLRQALLELRPAKNVLID-------GVLGSG------KTWVALDVCLSYKVQCKM 180

Query: 178 PDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ---GVQPNVVTFNVIMDELCKNGKMDEA 234
              + + ++    C + +       ++EM+ +    + PN  + +     + K       
Sbjct: 181 DFKIFWLNL--KNCNSPE------TVLEMLQKLLYQIDPNWTSRSDHSSNI-KLRIHSIQ 231

Query: 235 SRLLDLMIQIGVRPNAF-----VYN-TLMDGF---C---LTGR---------VNRAKELF 273
           + L  L+       N       V N    + F   C   LT R               + 
Sbjct: 232 AELRRLLKS-KPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS 290

Query: 274 VSMESMGCTHTVFSYSILINGYCKNKEIEG-----------ALSLYGEMLSKGIKPDVVI 322
           +   SM  T      S+L+     +   +             LS+  E +  G+      
Sbjct: 291 LDHHSMTLTPDE-VKSLLLK--YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLA----T 343

Query: 323 YNTLFVVLFEIHQVERAFKLF------DEMQ---------RDGV--AADT----WTY--- 358
           ++    V  +  ++    +         E +                       W     
Sbjct: 344 WDNWKHVNCD--KLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK 401

Query: 359 ---RTFIDGLCKNSYIVEAVELFRTLRILKCELDIRA 392
                 ++ L K S + +  +   T+ I    L+++ 
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKES-TISIPSIYLELKV 437

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	400
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	100.0
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.97
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.96
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.94
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.94
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.92
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.92
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.92
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.91
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.91
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.9
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.89
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.88
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.88
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.88
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.87
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.87
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.87
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.86
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.86
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.84
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.83
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.8
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.8
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.79
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.78
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.78
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.77
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.76
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.76
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.76
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.76
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.75
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.75
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.75
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.75
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.74
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.74
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.74
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.73
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.73
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.73
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.72
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.72
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.71
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.71
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.71
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.71
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.71
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.7
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.7
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.7
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.69
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.68
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.68
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.68
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.67
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.66
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.66
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.65
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.64
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.63
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.62
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.62
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.6
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.59
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.58
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.58
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.58
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.53
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.53
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.52
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.51
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.51
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.51
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.5
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.47
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.39
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.38
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.38
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.37
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.35
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.35
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.34
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.34
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.33
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.31
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.31
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.29
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.28
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.27
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.26
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.26
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.24
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.23
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.23
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.22
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.22
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.21
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.21
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.2
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.2
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.18
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.18
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.17
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.14
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.13
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.13
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.04
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.04
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.04
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.03
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.03
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.02
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.02
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.0
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.0
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.98
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.98
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.98
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.97
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.96
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.96
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.96
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.96
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.94
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.94
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.93
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.93
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.92
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.92
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.91
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.91
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.9
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.9
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.89
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.89
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.88
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.87
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.83
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.82
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.82
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.8
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.79
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.78
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.77
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.76
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.76
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.74
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.74
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.72
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.71
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.71
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.7
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.69
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.69
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.69
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.69
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.67
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.65
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.63
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.63
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.63
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.62
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.61
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.56
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.56
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.53
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.52
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.52
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.51
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.51
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.51
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.49
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.48
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.48
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.42
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.42
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.41
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.39
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.37
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.35
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.34
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.33
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.3
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.3
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.27
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.26
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.25
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.13
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.12
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.11
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.1
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.08
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.99
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.99
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.99
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.85
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.85
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.81
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.63
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.54
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.51
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.49
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.49
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.47
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.37
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.36
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.18
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.15
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.15
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.11
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.08
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.07
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.06
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.95
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.93
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.91
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.82
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.81
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.78
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.76
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.76
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.57
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.18
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.05
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.92
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.81
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	95.71
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	95.66
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.41
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	95.22
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.17
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.12
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.18
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	94.17
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.01
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.0
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.48
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.05
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	92.26
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.44
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.32
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	91.32
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	90.68
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	90.2
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	90.12
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	90.09
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	89.6
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	88.91
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	88.07
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	88.06
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	86.77
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	84.35
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	84.23
2p58_C	116	Putative type III secretion protein YSCG; type III	83.63
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	83.11
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	82.89
2p58_C	116	Putative type III secretion protein YSCG; type III	82.42
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	81.23
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	80.7

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.2e-36  Score=278.51  Aligned_cols=374  Identities=9%  Similarity=0.027  Sum_probs=331.3

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLI   94 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (400)
                      +++..|+.++..+.+.|++++|+.+|+++...  .|+..++..++.+|...|++++|..+++.+...  +++..+++.++
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~  157 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAA  157 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHH
Confidence            57888999999999999999999999999864  578899999999999999999999999998654  67899999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc---------------CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCC-----
Q 040367           95 KGLCAESRIMEAAALFTKLRVF---------------GCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGE-----  154 (400)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----  154 (400)
                      .+|.+.|++++|.++|+++...               +.+++..+|+.++.+|.+.|++++|++.|+++...++.     
T Consensus       158 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  237 (597)
T 2xpi_A          158 FCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAF  237 (597)
T ss_dssp             HHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHH
Confidence            9999999999999999953211               22335889999999999999999999999999776543     


Q ss_pred             --------------------------------------------CCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHH
Q 040367          155 --------------------------------------------FGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGF  190 (400)
Q Consensus       155 --------------------------------------------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  190 (400)
                                                                  +...|++++|.++|+++.+.  +++..+++.++.+|
T Consensus       238 ~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~  315 (597)
T 2xpi_A          238 DQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTL  315 (597)
T ss_dssp             HHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHH
T ss_pred             HHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHH
Confidence                                                        22367889999999998876  57899999999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHH
Q 040367          191 CYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAK  270 (400)
Q Consensus       191 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  270 (400)
                      .+.|++++|.++|+++.+.+ +.+..++..++.++.+.|++++|..+++++.+.. +.+..++..++.+|.+.|++++|.
T Consensus       316 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~  393 (597)
T 2xpi_A          316 FVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEAR  393 (597)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHH
Confidence            99999999999999999875 4577889999999999999999999999998763 457889999999999999999999


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcC
Q 040367          271 ELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDG  350 (400)
Q Consensus       271 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  350 (400)
                      .+|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|..++.+|.+.|++++|.++|+++.+..
T Consensus       394 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  471 (597)
T 2xpi_A          394 RYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF  471 (597)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999998875 5578899999999999999999999999999875 3478899999999999999999999999999863


Q ss_pred             CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh----cccch--hHHHHHHhhc
Q 040367          351 VAADTWTYRTFIDGLCKNSYIVEAVELFRTLRIL----KCELD--IRAYNCLIDG  399 (400)
Q Consensus       351 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~p~--~~~~~~ll~~  399 (400)
                       +.+..+|..++..|.+.|++++|.++|+++.+.    +..|+  ..+|..+..+
T Consensus       472 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~  525 (597)
T 2xpi_A          472 -QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHA  525 (597)
T ss_dssp             -CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHH
T ss_pred             -CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHH
Confidence             447899999999999999999999999999876    66787  6788877654

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2.2e-35  Score=270.24  Aligned_cols=384  Identities=11%  Similarity=-0.006  Sum_probs=294.2

Q ss_pred             hhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc-
Q 040367            3 IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRS-   81 (400)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-   81 (400)
                      +|+.+....   |+..++..++.++.+.|++++|+.+|+.+...  +++..+++.++.+|.+.|++++|.++|+++... 
T Consensus       106 ~~~~~~~~~---p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  180 (597)
T 2xpi_A          106 VGEKVLDIT---GNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFR  180 (597)
T ss_dssp             HHHHHHHHH---CCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC
T ss_pred             HHHHHHhhC---CCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCcc
Confidence            455555333   34455666666666666666666666665432  455666666666666666666666666532111 


Q ss_pred             --------------CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-----------------------------
Q 040367           82 --------------CFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGC-----------------------------  118 (400)
Q Consensus        82 --------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------------------------  118 (400)
                                    +.+++..+|+.++.+|.+.|++++|.++|+++.+.+.                             
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~  260 (597)
T 2xpi_A          181 KDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNY  260 (597)
T ss_dssp             ----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCT
T ss_pred             ccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCC
Confidence                          1122355666666666666666666666666543321                             


Q ss_pred             -----------------------------------------CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc
Q 040367          119 -----------------------------------------EPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV  157 (400)
Q Consensus       119 -----------------------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  157 (400)
                                                               +++..+++.++..+.+.|++++|..+|+++...++....
T Consensus       261 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  340 (597)
T 2xpi_A          261 STYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLD  340 (597)
T ss_dssp             HHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCT
T ss_pred             cccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHH
Confidence                                                     367788888999999999999999999998876554322


Q ss_pred             -----------ccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 040367          158 -----------EGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELC  226 (400)
Q Consensus       158 -----------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  226 (400)
                                 .|+.++|.++++++.+.. +.+..+++.++.+|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.
T Consensus       341 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  418 (597)
T 2xpi_A          341 VYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFA  418 (597)
T ss_dssp             THHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence                       788899999999988654 5678899999999999999999999999998753 456889999999999


Q ss_pred             hCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 040367          227 KNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALS  306 (400)
Q Consensus       227 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  306 (400)
                      +.|++++|.++|+++.+.+ +.+..++..++.+|.+.|++++|..+|+++.+.. +.+..+|..++..|.+.|++++|.+
T Consensus       419 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  496 (597)
T 2xpi_A          419 IEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAIN  496 (597)
T ss_dssp             HHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHH
Confidence            9999999999999998864 4477889999999999999999999999998876 5678899999999999999999999


Q ss_pred             HHHHHHhC----CCCCc--hhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHH
Q 040367          307 LYGEMLSK----GIKPD--VVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRT  380 (400)
Q Consensus       307 ~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  380 (400)
                      +|+++.+.    +..|+  ..+|..++.+|.+.|++++|.++++++.+.+ +.+..+|..+..+|.+.|++++|.+.|++
T Consensus       497 ~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  575 (597)
T 2xpi_A          497 HFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHE  575 (597)
T ss_dssp             HHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            99999876    55677  6789999999999999999999999998874 44789999999999999999999999999


Q ss_pred             HHHhcccchh-HHHHHHhh
Q 040367          381 LRILKCELDI-RAYNCLID  398 (400)
Q Consensus       381 ~~~~~~~p~~-~~~~~ll~  398 (400)
                      +.+.  .|+. ..+..|-.
T Consensus       576 ~l~~--~p~~~~~~~~l~~  592 (597)
T 2xpi_A          576 SLAI--SPNEIMASDLLKR  592 (597)
T ss_dssp             HHHH--CTTCHHHHHHHHH
T ss_pred             HHhc--CCCChHHHHHHHH
Confidence            9874  4544 44444433

>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=100.00  E-value=1.6e-30  Score=225.17  Aligned_cols=356  Identities=12%  Similarity=0.056  Sum_probs=297.0

Q ss_pred             HHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH
Q 040367           24 FGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRI  103 (400)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  103 (400)
                      ...+.+.|++++|+..++.+.+.. +.+...+..+...+...|++++|...++...+.. +.+..+|..+...+.+.|++
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCH
Confidence            455677888888888888877663 4456667777777888888888888888877764 44677788888888888888


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc-----------ccchHHHHHHHHHHH
Q 040367          104 MEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV-----------EGFVDKAKELFLQMK  172 (400)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~~a~~~~~~~~  172 (400)
                      ++|...|+++.+.. +.+..+|..+..++.+.|++++|...|+++....+....           .|++++|.+.|+++.
T Consensus        84 ~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  162 (388)
T 1w3b_A           84 QEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            88888888887764 445667888888888888888888888888776654332           577888888888887


Q ss_pred             hCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHh
Q 040367          173 DENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFV  252 (400)
Q Consensus       173 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  252 (400)
                      ... +.+..+|..+..++...|++++|+..|+++.+.+ +.+...+..+...+...|++++|...+++..+.. +.+..+
T Consensus       163 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~  239 (388)
T 1w3b_A          163 ETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVV  239 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHH
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHH
Confidence            764 4567899999999999999999999999999874 4567889999999999999999999999998864 336788


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE  332 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  332 (400)
                      +..+..++...|++++|...|+++.+.+ +.+..+|..+...+.+.|++++|.+.++++.+.. +.+..++..+...+..
T Consensus       240 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  317 (388)
T 1w3b_A          240 HGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKRE  317 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHH
Confidence            8999999999999999999999999876 5578889999999999999999999999999874 4578899999999999


Q ss_pred             hCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchh
Q 040367          333 IHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDI  390 (400)
Q Consensus       333 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  390 (400)
                      .|++++|...++++.+. .+.+..++..+...+.+.|++++|.+.|+++.+  +.|+.
T Consensus       318 ~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~--~~p~~  372 (388)
T 1w3b_A          318 QGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTF  372 (388)
T ss_dssp             TTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTC
T ss_pred             cCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCC
Confidence            99999999999999886 345688999999999999999999999999987  45653

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=4.4e-33  Score=244.81  Aligned_cols=208  Identities=15%  Similarity=0.187  Sum_probs=172.3

Q ss_pred             HHHHHHHHHHHhCCCCCCh-HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC---------h
Q 040367          162 DKAKELFLQMKDENINPDV-VTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGK---------M  231 (400)
Q Consensus       162 ~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~  231 (400)
                      ..+..+.+++.+.+..+.+ ..++.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.+.         .
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            4455666777766655443 45788899999999999999999999999999999999999999987654         6


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 040367          232 DEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEM  311 (400)
Q Consensus       232 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  311 (400)
                      +.|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|
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            78899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 040367          312 LSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNS  369 (400)
Q Consensus       312 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  369 (400)
                      .+.|+.||..+|+.|+.+|++.|+.++|.++|++|.+.|..|+..||+.++..|...+
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~  224 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEV  224 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHH
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCc
Confidence            9999999999999999999999999999999999999999999999999888887654

>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=1.3e-32  Score=241.95  Aligned_cols=203  Identities=16%  Similarity=0.189  Sum_probs=178.1

Q ss_pred             HHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCC---------H
Q 040367          197 NEAKCLLIEMMDQGVQPNV-VTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGR---------V  266 (400)
Q Consensus       197 ~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~  266 (400)
                      ..+..+.+++.+.+..+.+ ..++.+|++|++.|++++|.++|++|.+.|+.||..+|++||.+|++.+.         .
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            3445556677766655544 46888999999999999999999999999999999999999999987654         6


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHH
Q 040367          267 NRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEM  346 (400)
Q Consensus       267 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  346 (400)
                      ++|.++|++|...|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|
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             HHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHHHHhhc
Q 040367          347 QRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLIDG  399 (400)
Q Consensus       347 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~~  399 (400)
                      .+.|+.||..+|+.|+.+|++.|+.++|.+++++|++.|..|+..||+.+++.
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~  219 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEW  219 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHH
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999998864

>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=100.00  E-value=2.1e-29  Score=218.06  Aligned_cols=357  Identities=15%  Similarity=0.069  Sum_probs=310.9

Q ss_pred             chhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 040367            2 CIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRS   81 (400)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (400)
                      +.|+.+....|.  +...+..+...+.+.|++++|...++...+.. +.+..+|..+..++...|++++|.+.|+++.+.
T Consensus        20 ~~~~~~~~~~p~--~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   96 (388)
T 1w3b_A           20 RHCMQLWRQEPD--NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRL   96 (388)
T ss_dssp             HHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            356777777766  77888889999999999999999999998764 568899999999999999999999999999987


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCC-----
Q 040367           82 CFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFG-----  156 (400)
Q Consensus        82 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----  156 (400)
                      . +.+..+|..+..++...|++++|.+.|+++.+.+ +.+...+..+...+...|++++|...|+++....+...     
T Consensus        97 ~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~  174 (388)
T 1w3b_A           97 K-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSN  174 (388)
T ss_dssp             C-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             C-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            4 3456789999999999999999999999999875 44667788899999999999999999999988766532     


Q ss_pred             ------cccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC
Q 040367          157 ------VEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGK  230 (400)
Q Consensus       157 ------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  230 (400)
                            ..|++++|...|+++.+.+ +.+...+..+...+...|++++|+..+++..... +.+..++..+..++.+.|+
T Consensus       175 l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  252 (388)
T 1w3b_A          175 LGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGL  252 (388)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCC
Confidence                  3888999999999998875 5567889999999999999999999999998864 4568899999999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 040367          231 MDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGE  310 (400)
Q Consensus       231 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  310 (400)
                      +++|...++++.+.. +.+..++..+..++.+.|++++|...++++.+.. +.+..++..+...+...|++++|.+.+++
T Consensus       253 ~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  330 (388)
T 1w3b_A          253 IDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRK  330 (388)
T ss_dssp             HHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999999999864 3357789999999999999999999999999876 67889999999999999999999999999


Q ss_pred             HHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 040367          311 MLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNS  369 (400)
Q Consensus       311 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  369 (400)
                      +.+.. +.+..++..+..++.+.|++++|...++++.+.. +.+...|..+...+...|
T Consensus       331 al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~a~~~lg~~~~~~~  387 (388)
T 1w3b_A          331 ALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             HTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTC
T ss_pred             HHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHhHHHHHHHcc
Confidence            99864 3467889999999999999999999999999852 335777887777776655

>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=99.97  E-value=3.2e-26  Score=202.22  Aligned_cols=356  Identities=14%  Similarity=0.060  Sum_probs=275.7

Q ss_pred             hHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCC
Q 040367            4 FDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCF   83 (400)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   83 (400)
                      |..++...|.  ++..+..+...+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|...++++.+.+ 
T Consensus        15 ~~~~~~~~p~--~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-   90 (450)
T 2y4t_A           15 TENLYFQSMA--DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-   90 (450)
T ss_dssp             --------CH--HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             ccccccccHH--HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-
Confidence            4455555554  88899999999999999999999999998764 5578999999999999999999999999999875 


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccc
Q 040367           84 TPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNV---FTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGF  160 (400)
Q Consensus        84 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  160 (400)
                      +.+..++..++.+|...|++++|.+.|+++.+.. +.+.   ..+..++..+...+....|...+.           .|+
T Consensus        91 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-----------~~~  158 (450)
T 2y4t_A           91 MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFG-----------SGD  158 (450)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HTC
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHH-----------cCC
Confidence            4468889999999999999999999999999764 3344   666666555322222222222221           123


Q ss_pred             hHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHH
Q 040367          161 VDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDL  240 (400)
Q Consensus       161 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  240 (400)
                      +++|+..++++.+.. +.+...+..+..++...|++++|+..++++.+.. +.+..++..+..++...|++++|...+++
T Consensus       159 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  236 (450)
T 2y4t_A          159 YTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRE  236 (450)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            555555555555443 4577889999999999999999999999998763 56788999999999999999999999999


Q ss_pred             HHHcCCCCCHHhHHHH------------HHHHHhcCCHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHhcCCHHHH
Q 040367          241 MIQIGVRPNAFVYNTL------------MDGFCLTGRVNRAKELFVSMESMGCTHT----VFSYSILINGYCKNKEIEGA  304 (400)
Q Consensus       241 ~~~~~~~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a  304 (400)
                      +.+.. +.+...+..+            +..+...|++++|...|+++.+.. +.+    ...+..++.++.+.|++++|
T Consensus       237 ~~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~l~~~~~~~g~~~~A  314 (450)
T 2y4t_A          237 CLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSIAEYTVRSKERICHCFSKDEKPVEA  314 (450)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHhC-CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHHHCCCHHHH
Confidence            98863 2244444444            788999999999999999998864 223    34788889999999999999


Q ss_pred             HHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHH------------HHhcC---
Q 040367          305 LSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDG------------LCKNS---  369 (400)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~------------~~~~g---  369 (400)
                      ...++++.+.. +.+...|..++.+|...|++++|...++++.+.. +.+...+..+..+            |...|   
T Consensus       315 ~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~  392 (450)
T 2y4t_A          315 IRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHN-ENDQQIREGLEKAQRLLKQSQKRDYYKILGVKR  392 (450)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSST
T ss_pred             HHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHhhcccchhHHHHhCCCc
Confidence            99999998864 3367899999999999999999999999999852 3356666666633            44444   


Q ss_pred             --cHHHHHHHHHHH
Q 040367          370 --YIVEAVELFRTL  381 (400)
Q Consensus       370 --~~~~a~~~~~~~  381 (400)
                        +.+++.+.++++
T Consensus       393 ~~~~~~~~~~y~~~  406 (450)
T 2y4t_A          393 NAKKQEIIKAYRKL  406 (450)
T ss_dssp             TCCTTHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHH
Confidence              567778888874

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.96  E-value=1.1e-25  Score=202.18  Aligned_cols=360  Identities=14%  Similarity=0.032  Sum_probs=301.8

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      +...+......+.+.|++++|+..|+++....  |+..++..+..++...|++++|...++++.+.+ +.+..++..++.
T Consensus         5 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~   81 (514)
T 2gw1_A            5 YALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRAS   81 (514)
T ss_dssp             HHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHH
Confidence            34567788889999999999999999999874  789999999999999999999999999999875 446778999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCC------------------------------------------------------
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCEPN------------------------------------------------------  121 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~------------------------------------------------------  121 (400)
                      ++...|++++|...|+++...+ +++                                                      
T Consensus        82 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (514)
T 2gw1_A           82 ANEGLGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPS  160 (514)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCC
T ss_pred             HHHHHhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCch
Confidence            9999999999999999987664 211                                                      


Q ss_pred             -------------------------HHHHHHHHHHHHh---cCChHHHHHHHHHHHc-----C--CCCC-----------
Q 040367          122 -------------------------VFTYNTLINGLYR---TGHTIVALNLFEEMAS-----G--NGEF-----------  155 (400)
Q Consensus       122 -------------------------~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~--~~~~-----------  155 (400)
                                               ...+......+..   .|++++|+..|+++..     .  .+..           
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  240 (514)
T 2gw1_A          161 VTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISL  240 (514)
T ss_dssp             HHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHH
Confidence                                     3333344444444   8999999999999887     3  2211           


Q ss_pred             -------CcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC
Q 040367          156 -------GVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKN  228 (400)
Q Consensus       156 -------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  228 (400)
                             ...|++++|...++++.+...  +...+..+..++...|++++|...++++.+.. +.+...+..+...+...
T Consensus       241 ~~~~~~~~~~~~~~~A~~~~~~~l~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  317 (514)
T 2gw1_A          241 EHTGIFKFLKNDPLGAHEDIKKAIELFP--RVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFIL  317 (514)
T ss_dssp             HHHHHHHHHSSCHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCc--cHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHh
Confidence                   117889999999999988753  38888999999999999999999999998864 45677889999999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 040367          229 GKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLY  308 (400)
Q Consensus       229 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  308 (400)
                      |++++|...++++.+.. +.+...+..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|.+.+
T Consensus       318 ~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~  395 (514)
T 2gw1_A          318 QNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQY  395 (514)
T ss_dssp             TCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            99999999999999874 3366788889999999999999999999998875 557788999999999999999999999


Q ss_pred             HHHHhCCCC-Cc----hhhHHHHHHHHHh---hCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHH
Q 040367          309 GEMLSKGIK-PD----VVIYNTLFVVLFE---IHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRT  380 (400)
Q Consensus       309 ~~~~~~~~~-~~----~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  380 (400)
                      +++.+.... ++    ...+..+...+..   .|++++|...++++.+.. +.+..++..+...+.+.|++++|.+.|++
T Consensus       396 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~  474 (514)
T 2gw1_A          396 DLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEE  474 (514)
T ss_dssp             HHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            998875322 11    3378889999999   999999999999999863 44688889999999999999999999999


Q ss_pred             HHHhc
Q 040367          381 LRILK  385 (400)
Q Consensus       381 ~~~~~  385 (400)
                      +.+..
T Consensus       475 a~~~~  479 (514)
T 2gw1_A          475 SADLA  479 (514)
T ss_dssp             HHHHC
T ss_pred             HHHhc
Confidence            99753

>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=99.96  E-value=8.4e-25  Score=193.11  Aligned_cols=337  Identities=10%  Similarity=0.027  Sum_probs=264.6

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 040367           36 VLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRV  115 (400)
Q Consensus        36 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  115 (400)
                      +...+....... +.+...+..++..+.+.|++++|+.+|+++.+.. +.+..++..++.++...|++++|...|+++.+
T Consensus        11 ~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~   88 (450)
T 2y4t_A           11 VDLGTENLYFQS-MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQ   88 (450)
T ss_dssp             -------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccccccccc-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            344444444443 4567889999999999999999999999999874 45788999999999999999999999999998


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCC
Q 040367          116 FGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYAND  195 (400)
Q Consensus       116 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  195 (400)
                      .+ +.+..++..++.++.+.|++++|...|+++....+....   ...+...+....      ....+..+...+...|+
T Consensus        89 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~~~l~~~~------~~~~~~~~a~~~~~~~~  158 (450)
T 2y4t_A           89 LK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENE---EKEAQSQLIKSD------EMQRLRSQALNAFGSGD  158 (450)
T ss_dssp             HC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHH---HHHHHHHHHHHH------HHHHHHHHHHHHHHHTC
T ss_pred             cC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChh---hHHHHHHHHHHH------HHHHHHHHHHHHHHcCC
Confidence            86 557889999999999999988888888877664432100   001111111110      01123344566899999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHH
Q 040367          196 WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVS  275 (400)
Q Consensus       196 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  275 (400)
                      +++|+..++++.+.. +.+...+..+..++.+.|++++|...++++.+.. +.+..++..++.+|...|++++|...|++
T Consensus       159 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  236 (450)
T 2y4t_A          159 YTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRE  236 (450)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999999999864 5678899999999999999999999999998863 44788999999999999999999999999


Q ss_pred             HHhcCCCCChhhHHHH------------HHHHHhcCCHHHHHHHHHHHHhCCCCCc----hhhHHHHHHHHHhhCcHHHH
Q 040367          276 MESMGCTHTVFSYSIL------------INGYCKNKEIEGALSLYGEMLSKGIKPD----VVIYNTLFVVLFEIHQVERA  339 (400)
Q Consensus       276 ~~~~~~~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a  339 (400)
                      +.... +.+...+..+            +..+...|++++|...++++.+.... +    ...+..+..++.+.|++++|
T Consensus       237 ~~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~l~~~~~~~g~~~~A  314 (450)
T 2y4t_A          237 CLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-IAEYTVRSKERICHCFSKDEKPVEA  314 (450)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHhC-CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHHHHCCCHHHH
Confidence            98875 4455555555            88899999999999999999986322 2    34778889999999999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhH
Q 040367          340 FKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIR  391 (400)
Q Consensus       340 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  391 (400)
                      ...++++.+. .+.+...|..+..+|...|++++|.+.++++.+  +.|+..
T Consensus       315 ~~~~~~a~~~-~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~  363 (450)
T 2y4t_A          315 IRVCSEVLQM-EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQE--HNENDQ  363 (450)
T ss_dssp             HHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TSSSCH
T ss_pred             HHHHHHHHHh-CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCcchH
Confidence            9999999886 244789999999999999999999999999997  456543

>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=99.95  E-value=4.7e-24  Score=192.66  Aligned_cols=362  Identities=11%  Similarity=0.041  Sum_probs=286.5

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      ....|..+...+.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|++.++++.+.+ +.+..++..+..
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~  101 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHH
Confidence            34567888899999999999999999998875 5578899999999999999999999999998875 446788889999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCC------------------------------------CCCHH----------------
Q 040367           96 GLCAESRIMEAAALFTKLRVFGC------------------------------------EPNVF----------------  123 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~------------------------------------~~~~~----------------  123 (400)
                      ++...|++++|...|+.+....-                                    .|+..                
T Consensus       102 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVS  181 (537)
T ss_dssp             HHHHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHH
Confidence            99999999999998864321110                                    01100                


Q ss_pred             --------------HHHHHHHHHH--------hcCChHHHHHHHHHHHcCCCCCCc------------------ccchHH
Q 040367          124 --------------TYNTLINGLY--------RTGHTIVALNLFEEMASGNGEFGV------------------EGFVDK  163 (400)
Q Consensus       124 --------------~~~~l~~~~~--------~~~~~~~a~~~~~~~~~~~~~~~~------------------~~~~~~  163 (400)
                                    ....+...+.        ..|++++|..+++++....+....                  .|++++
T Consensus       182 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~  261 (537)
T 3fp2_A          182 SVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLD  261 (537)
T ss_dssp             TSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHH
Confidence                          1111111111        124788899999998887665321                  678899


Q ss_pred             HHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 040367          164 AKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQ  243 (400)
Q Consensus       164 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  243 (400)
                      |...+++.....  |+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+
T Consensus       262 A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  338 (537)
T 3fp2_A          262 AQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQS  338 (537)
T ss_dssp             HHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            999999998864  457888889999999999999999999998864 45788899999999999999999999999998


Q ss_pred             cCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-----C
Q 040367          244 IGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIK-----P  318 (400)
Q Consensus       244 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~  318 (400)
                      .. +.+...+..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+....     .
T Consensus       339 ~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  416 (537)
T 3fp2_A          339 LN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHV  416 (537)
T ss_dssp             HC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSS
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHH
Confidence            74 3356788889999999999999999999998875 567788999999999999999999999998874211     1


Q ss_pred             chhhHHHHHHHHHhh----------CcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhc
Q 040367          319 DVVIYNTLFVVLFEI----------HQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILK  385 (400)
Q Consensus       319 ~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  385 (400)
                      ....+......+...          |++++|...++++.+.. +.+...+..+...|.+.|++++|.+.|++..+..
T Consensus       417 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          417 GIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             TTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            122234455677777          99999999999999863 4468889999999999999999999999998753

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=1.6e-23  Score=188.19  Aligned_cols=326  Identities=13%  Similarity=0.048  Sum_probs=279.4

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 040367           52 LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLING  131 (400)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  131 (400)
                      ...+......+.+.|++++|+..|+++.+.+  |+...+..+..++...|++++|.+.++++.+.+ +.+..++..++.+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHH
Confidence            4567788899999999999999999999874  689999999999999999999999999999886 5678899999999


Q ss_pred             HHhcCChHHHHHHHHHHHcCCCCC--------------------------------------------------------
Q 040367          132 LYRTGHTIVALNLFEEMASGNGEF--------------------------------------------------------  155 (400)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~~~~~--------------------------------------------------------  155 (400)
                      +.+.|++++|...|+++...++..                                                        
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVT  162 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHH
T ss_pred             HHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhH
Confidence            999999999999999987665411                                                        


Q ss_pred             -------------------------------------CcccchHHHHHHHHHHHh-----CCC--------CCChHhHHH
Q 040367          156 -------------------------------------GVEGFVDKAKELFLQMKD-----ENI--------NPDVVTYTS  185 (400)
Q Consensus       156 -------------------------------------~~~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~~~  185 (400)
                                                           ...|++++|...++++.+     ..-        +.+...+..
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (514)
T 2gw1_A          163 SMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEH  242 (514)
T ss_dssp             HHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHH
Confidence                                                 126889999999999887     311        223567888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCC
Q 040367          186 VIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGR  265 (400)
Q Consensus       186 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  265 (400)
                      +...+...|++++|...++++.+.+  |+...+..+..++...|++++|...++++.+.. +.+..++..+..++...|+
T Consensus       243 ~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~  319 (514)
T 2gw1_A          243 TGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQN  319 (514)
T ss_dssp             HHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCC
Confidence            8899999999999999999998865  338888899999999999999999999998864 3467788899999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHH
Q 040367          266 VNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDE  345 (400)
Q Consensus       266 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  345 (400)
                      +++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...+++
T Consensus       320 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~  397 (514)
T 2gw1_A          320 YDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDL  397 (514)
T ss_dssp             TTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999999999876 5577889999999999999999999999998864 33677888999999999999999999999


Q ss_pred             HHHcCCC-CC----HHHHHHHHHHHHh---cCcHHHHHHHHHHHHHhc
Q 040367          346 MQRDGVA-AD----TWTYRTFIDGLCK---NSYIVEAVELFRTLRILK  385 (400)
Q Consensus       346 ~~~~~~~-~~----~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~  385 (400)
                      +.+.... ++    ...+..+...+..   .|++++|.+.++++.+..
T Consensus       398 a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~  445 (514)
T 2gw1_A          398 AIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD  445 (514)
T ss_dssp             HHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC
Confidence            8875211 11    3488899999999   999999999999998753

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.94  E-value=1.8e-22  Score=172.51  Aligned_cols=201  Identities=13%  Similarity=0.029  Sum_probs=125.0

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      ++..+..+...+.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|...++++.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            45677788888888888888888888887764 4467788888888888888888888888888764 336677888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCC---CCHHHHHHH------------HHHHHhcCChHHHHHHHHHHHcCCCCCCcccc
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCE---PNVFTYNTL------------INGLYRTGHTIVALNLFEEMASGNGEFGVEGF  160 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  160 (400)
                      ++...|++++|...++++.+.. +   .+...+..+            ...+...|++++|+..++++            
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~------------  146 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKI------------  146 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH------------
T ss_pred             HHHHcCChHHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHH------------
Confidence            8888888888888888887663 2   234444433            23334444433333332222            


Q ss_pred             hHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHH
Q 040367          161 VDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDL  240 (400)
Q Consensus       161 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  240 (400)
                                 .+.. +.+...+..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|...+++
T Consensus       147 -----------~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~  213 (359)
T 3ieg_A          147 -----------LEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRE  213 (359)
T ss_dssp             -----------HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             -----------HHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                       2211 2234445555555555555555555555555432 33444555555555555555555555555


Q ss_pred             HHHc
Q 040367          241 MIQI  244 (400)
Q Consensus       241 ~~~~  244 (400)
                      +.+.
T Consensus       214 a~~~  217 (359)
T 3ieg_A          214 CLKL  217 (359)
T ss_dssp             HHHH
T ss_pred             HHhh
Confidence            5443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.94  E-value=6.5e-22  Score=169.09  Aligned_cols=323  Identities=10%  Similarity=0.024  Sum_probs=260.3

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 040367           51 DLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLIN  130 (400)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (400)
                      +...+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++|...++++.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            45678889999999999999999999999875 4468899999999999999999999999999875 557889999999


Q ss_pred             HHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040367          131 GLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQG  210 (400)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  210 (400)
                      .+...|++++|...++++....+..   +....+...+..+..      ...+..+...+...|++++|+..++++.+..
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~~~~l~~~~~------~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~  150 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSE---QEEKEAESQLVKADE------MQRLRSQALDAFDGADYTAAITFLDKILEVC  150 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCH---HHHHHHHHHHHHHHH------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcc---cChHHHHHHHHHHHH------HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            9999999888888888877654310   001111111111110      1223344678999999999999999998864


Q ss_pred             CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHH
Q 040367          211 VQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSI  290 (400)
Q Consensus       211 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  290 (400)
                       +.+...+..+..++...|++++|...++++.+.. +.+..++..+...+...|++++|...++...+.. +.+...+..
T Consensus       151 -~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~  227 (359)
T 3ieg_A          151 -VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAH  227 (359)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             -CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHH
Confidence             5678889999999999999999999999999874 4477889999999999999999999999998875 444444432


Q ss_pred             ------------HHHHHHhcCCHHHHHHHHHHHHhCCCCCch----hhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCC
Q 040367          291 ------------LINGYCKNKEIEGALSLYGEMLSKGIKPDV----VIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAAD  354 (400)
Q Consensus       291 ------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  354 (400)
                                  +...+...|++++|.+.++++.+.... +.    ..+..+..++...|++++|...++++.+. .+.+
T Consensus       228 ~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~  305 (359)
T 3ieg_A          228 YKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQM-EPDN  305 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-Cccc
Confidence                        366788999999999999999986433 33    23456778899999999999999999986 3447


Q ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhH
Q 040367          355 TWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIR  391 (400)
Q Consensus       355 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  391 (400)
                      ..++..+...+...|++++|.+.|+++.+.  .|+..
T Consensus       306 ~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~--~p~~~  340 (359)
T 3ieg_A          306 VNALKDRAEAYLIEEMYDEAIQDYEAAQEH--NENDQ  340 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCh
Confidence            889999999999999999999999999974  56543

>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=99.92  E-value=1.6e-21  Score=176.14  Aligned_cols=324  Identities=13%  Similarity=0.102  Sum_probs=264.5

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 040367           52 LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLING  131 (400)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  131 (400)
                      ...+..+...+.+.|++++|+..|+++.+.. +.+...+..+..++...|++++|.+.++++.+.+ +.+..++..+..+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHH
Confidence            4567888999999999999999999999875 4578899999999999999999999999999886 5678999999999


Q ss_pred             HHhcCChHHHHHHHHHHHcCCCCCCc------------------------------------------------------
Q 040367          132 LYRTGHTIVALNLFEEMASGNGEFGV------------------------------------------------------  157 (400)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~~~~~~~------------------------------------------------------  157 (400)
                      +...|++++|+..|+.+ ...+....                                                      
T Consensus       103 ~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVL-SLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVS  181 (537)
T ss_dssp             HHHHTCHHHHHHHHHHH-C-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHH
Confidence            99999999999998643 22111100                                                      


Q ss_pred             ---------------------------------ccchHHHHHHHHHHHhCCCCCC-------hHhHHHHHHHHHhcCCHH
Q 040367          158 ---------------------------------EGFVDKAKELFLQMKDENINPD-------VVTYTSVIRGFCYANDWN  197 (400)
Q Consensus       158 ---------------------------------~~~~~~a~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~  197 (400)
                                                       .+.+++|...++++.+.. +.+       ..++..+...+...|+++
T Consensus       182 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~  260 (537)
T 3fp2_A          182 SVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN-TVDDPLRENAALALCYTGIFHFLKNNLL  260 (537)
T ss_dssp             TSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC-CCcchhhHHHHHHHHHHHHHHHhcccHH
Confidence                                             136788888888888764 223       234667777888999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040367          198 EAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSME  277 (400)
Q Consensus       198 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  277 (400)
                      +|...++++.+..  |+...+..+...+...|++++|...++++.+.. +.+..++..+..++...|++++|...++++.
T Consensus       261 ~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  337 (537)
T 3fp2_A          261 DAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQ  337 (537)
T ss_dssp             HHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            9999999999864  557888889999999999999999999998874 3467888999999999999999999999998


Q ss_pred             hcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcC-----CC
Q 040367          278 SMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDG-----VA  352 (400)
Q Consensus       278 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~  352 (400)
                      +.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+..     ..
T Consensus       338 ~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~  415 (537)
T 3fp2_A          338 SLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIH  415 (537)
T ss_dssp             HHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCS
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhH
Confidence            876 5567889999999999999999999999999874 3367788889999999999999999999987642     11


Q ss_pred             CCHHHHHHHHHHHHhc----------CcHHHHHHHHHHHHHh
Q 040367          353 ADTWTYRTFIDGLCKN----------SYIVEAVELFRTLRIL  384 (400)
Q Consensus       353 ~~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~  384 (400)
                      .....+..+...+...          |++++|...++++.+.
T Consensus       416 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  457 (537)
T 3fp2_A          416 VGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACEL  457 (537)
T ss_dssp             STTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHh
Confidence            1223345556677777          9999999999999875

>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=1.9e-21  Score=164.25  Aligned_cols=293  Identities=12%  Similarity=0.008  Sum_probs=172.8

Q ss_pred             CCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 040367           50 PDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLI  129 (400)
Q Consensus        50 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  129 (400)
                      .+...+..+...+...|++++|.++++++.+.. +.+...+..++.++...|++++|...++++.+.. +.+...+..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            344455555556666666666666666665543 2244455555556666666666666666666553 33555666666


Q ss_pred             HHHHhcC-ChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          130 NGLYRTG-HTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMD  208 (400)
Q Consensus       130 ~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  208 (400)
                      ..+...| ++++|...|+++..                       .. +.+...|..+..++...|++++|+..++++.+
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~-----------------------~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  153 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATT-----------------------LE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQ  153 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHT-----------------------TC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHH-----------------------hC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            6666666 54444444444332                       11 22345566666666666666666666666665


Q ss_pred             CCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcC--------
Q 040367          209 QGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMG--------  280 (400)
Q Consensus       209 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------  280 (400)
                      .. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+..        
T Consensus       154 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~  231 (330)
T 3hym_B          154 LM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVT  231 (330)
T ss_dssp             HT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCT
T ss_pred             hc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhcccccc
Confidence            43 2234455556666666666666666666666643 2345566666666666777777776666665431        


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHH
Q 040367          281 CTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRT  360 (400)
Q Consensus       281 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  360 (400)
                      .+.....+..+...+...|++++|.+.++++.+... .+...+..+..++...|++++|.+.++++.+.. +.+...+..
T Consensus       232 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~  309 (330)
T 3hym_B          232 VDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIP-QNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTM  309 (330)
T ss_dssp             TTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCc-cchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHH
Confidence            122345666777777777777777777777766532 255666677777777777777777777766542 235666666


Q ss_pred             HHHHH-HhcCcHH
Q 040367          361 FIDGL-CKNSYIV  372 (400)
Q Consensus       361 l~~~~-~~~g~~~  372 (400)
                      +..++ ...|+.+
T Consensus       310 l~~~~~~~~g~~~  322 (330)
T 3hym_B          310 LGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHTTTTC--
T ss_pred             HHHHHHHHhCchh
Confidence            66666 3445543

>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=2.1e-21  Score=163.91  Aligned_cols=292  Identities=10%  Similarity=0.007  Sum_probs=202.8

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLI   94 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (400)
                      .++..+..+...+...|++++|+.+|+++.+.. +.+...+..++.++...|++++|...++++.+.. +.+...+..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            356667777777777788888888887777654 3355566667777777778888888777777654 33566777777


Q ss_pred             HHHHhcC-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHh
Q 040367           95 KGLCAES-RIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKD  173 (400)
Q Consensus        95 ~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  173 (400)
                      ..+...| ++++|.+.+++..+.. +.+...|..+...+...|+                       +++|...+++..+
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~-----------------------~~~A~~~~~~a~~  153 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESE-----------------------HDQAMAAYFTAAQ  153 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTC-----------------------HHHHHHHHHHHHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccC-----------------------HHHHHHHHHHHHH
Confidence            7777777 7777888877777654 4456677777777777776                       6677777777766


Q ss_pred             CCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcC--------
Q 040367          174 ENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIG--------  245 (400)
Q Consensus       174 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------  245 (400)
                      .. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+..        
T Consensus       154 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~  231 (330)
T 3hym_B          154 LM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVT  231 (330)
T ss_dssp             HT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCT
T ss_pred             hc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhcccccc
Confidence            53 3345566667777777788888888887777653 4456777777777777788888887777776641        


Q ss_pred             CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHH
Q 040367          246 VRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNT  325 (400)
Q Consensus       246 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  325 (400)
                      .+....++..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..
T Consensus       232 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~  309 (330)
T 3hym_B          232 VDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTM  309 (330)
T ss_dssp             TTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHH
Confidence            12334567777777777788888888887777665 4466677777777777788888888777777653 225556666


Q ss_pred             HHHHH-HhhCcH
Q 040367          326 LFVVL-FEIHQV  336 (400)
Q Consensus       326 l~~~~-~~~~~~  336 (400)
                      +..++ ...|+.
T Consensus       310 l~~~~~~~~g~~  321 (330)
T 3hym_B          310 LGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHTTTTC-
T ss_pred             HHHHHHHHhCch
Confidence            66665 344443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.91  E-value=3.4e-19  Score=158.69  Aligned_cols=346  Identities=12%  Similarity=0.052  Sum_probs=293.7

Q ss_pred             CChhhHHHHHHHHhc----cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHhcCCCCC
Q 040367           15 PPVCSFNILFGCLAK----NKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCK----MGRVSHGFVVLGRILRSCFTPN   86 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~   86 (400)
                      .++.++..+...+..    .+++++|+..|++..+.|   +...+..+...|..    .+++++|.+.|++..+.+   +
T Consensus        37 g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~  110 (490)
T 2xm6_A           37 GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---L  110 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---C
T ss_pred             CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---C
Confidence            367788888888888    899999999999998875   67888899999998    899999999999998864   6


Q ss_pred             hhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHcCCCC----
Q 040367           87 AVTFTSLIKGLCA----ESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYR----TGHTIVALNLFEEMASGNGE----  154 (400)
Q Consensus        87 ~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~----  154 (400)
                      ...+..|...|..    .+++++|...|++..+.|   +...+..+...|..    .++.++|+.+|++....+..    
T Consensus       111 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~  187 (490)
T 2xm6_A          111 PQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCN  187 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            6777888888888    889999999999998865   67788888888887    78999999999998776432    


Q ss_pred             ---------CCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 040367          155 ---------FGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCY----ANDWNEAKCLLIEMMDQGVQPNVVTFNVI  221 (400)
Q Consensus       155 ---------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  221 (400)
                               ....++.++|.+.|++..+.+   +...+..+...|..    .+++++|..+|++..+.+   +...+..+
T Consensus       188 ~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~l  261 (490)
T 2xm6_A          188 QLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRL  261 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHH
T ss_pred             HHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHH
Confidence                     122678999999999998875   56678888888876    889999999999998865   55667777


Q ss_pred             HHHHHh----CCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhc-----CCHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 040367          222 MDELCK----NGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLT-----GRVNRAKELFVSMESMGCTHTVFSYSILI  292 (400)
Q Consensus       222 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  292 (400)
                      ...|..    .+++++|...|++..+.+   +...+..+...|...     +++++|...|++..+.+   +...+..+.
T Consensus       262 g~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg  335 (490)
T 2xm6_A          262 GYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLG  335 (490)
T ss_dssp             HHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHH
Confidence            777877    899999999999998764   556777788888877     89999999999998865   456778888


Q ss_pred             HHHHhcC---CHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh----hCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 040367          293 NGYCKNK---EIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE----IHQVERAFKLFDEMQRDGVAADTWTYRTFIDGL  365 (400)
Q Consensus       293 ~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  365 (400)
                      ..|...|   ++++|.+++++..+.+   +...+..+...+..    .+++++|..+|++..+.+   +...+..+...|
T Consensus       336 ~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y  409 (490)
T 2xm6_A          336 AIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIY  409 (490)
T ss_dssp             HHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHH
Confidence            8888766   8899999999999874   67788888998888    899999999999999864   577888899999


Q ss_pred             Hh----cCcHHHHHHHHHHHHHhccc
Q 040367          366 CK----NSYIVEAVELFRTLRILKCE  387 (400)
Q Consensus       366 ~~----~g~~~~a~~~~~~~~~~~~~  387 (400)
                      .+    .+++++|...|++..+.+..
T Consensus       410 ~~g~g~~~d~~~A~~~~~~A~~~~~~  435 (490)
T 2xm6_A          410 YYGLGVERDYVQAWAWFDTASTNDMN  435 (490)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHHHCC
T ss_pred             HcCCCCCCCHHHHHHHHHHHHHCCCC
Confidence            88    89999999999999987743

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.91  E-value=2.3e-19  Score=161.37  Aligned_cols=371  Identities=13%  Similarity=0.083  Sum_probs=243.6

Q ss_pred             hhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcC
Q 040367            3 IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSC   82 (400)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   82 (400)
                      +|+..++..|.  +..+|..++.. .+.|++++|..+|+++.+.. |.+...|..++..+.+.|++++|..+|++++.. 
T Consensus         1 ~le~al~~~P~--~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~-   75 (530)
T 2ooe_A            1 MAEKKLEENPY--DLDAWSILIRE-AQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK-   75 (530)
T ss_dssp             CHHHHHHHCTT--CHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT-
T ss_pred             ChhhHhhhCCC--CHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-
Confidence            57788888877  99999999984 78899999999999999874 567889999999999999999999999999987 


Q ss_pred             CCCChhhHHHHHHHH-HhcCCHHHHHH----HHHHHHHc-CCC-CCHHHHHHHHHHHHh---------cCChHHHHHHHH
Q 040367           83 FTPNAVTFTSLIKGL-CAESRIMEAAA----LFTKLRVF-GCE-PNVFTYNTLINGLYR---------TGHTIVALNLFE  146 (400)
Q Consensus        83 ~~~~~~~~~~l~~~~-~~~~~~~~a~~----~~~~~~~~-~~~-~~~~~~~~l~~~~~~---------~~~~~~a~~~~~  146 (400)
                       .|+...|...+... ...|+.+.|.+    +|++.... |.. ++...|...+....+         .|+++.|..+|+
T Consensus        76 -~p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~  154 (530)
T 2ooe_A           76 -VLHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQ  154 (530)
T ss_dssp             -CCCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHH
T ss_pred             -CCChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHH
Confidence             36777777777533 34566666554    67666543 433 356777777776654         678889999999


Q ss_pred             HHHcCCCCCC--------------------------cccchHHHHHHHHHH------HhCC---CCCC--------hHhH
Q 040367          147 EMASGNGEFG--------------------------VEGFVDKAKELFLQM------KDEN---INPD--------VVTY  183 (400)
Q Consensus       147 ~~~~~~~~~~--------------------------~~~~~~~a~~~~~~~------~~~~---~~~~--------~~~~  183 (400)
                      +.... +...                          ..+.+..|..++...      .+..   ++|+        ...|
T Consensus       155 ~al~~-P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w  233 (530)
T 2ooe_A          155 RGCVN-PMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMW  233 (530)
T ss_dssp             HHTTS-CCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHH
T ss_pred             HHHhc-hhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHH
Confidence            98873 2211                          112334444444431      1111   2333        1344


Q ss_pred             HHHHHHHHhc----CCH----HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-------CCChH-------HHHHHHHHH
Q 040367          184 TSVIRGFCYA----NDW----NEAKCLLIEMMDQGVQPNVVTFNVIMDELCK-------NGKMD-------EASRLLDLM  241 (400)
Q Consensus       184 ~~l~~~~~~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~  241 (400)
                      ...+......    ++.    +.+..+|++++... +.+...|..+...+.+       .|+++       +|..++++.
T Consensus       234 ~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~A  312 (530)
T 2ooe_A          234 KKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERA  312 (530)
T ss_dssp             HHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHH
Confidence            4444332221    122    35666777776642 4456667666666654       57765       777777777


Q ss_pred             HHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCch
Q 040367          242 IQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTV-FSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDV  320 (400)
Q Consensus       242 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  320 (400)
                      .+.-.+.+...+..++..+.+.|++++|..+|+++.+.. +.+. ..|..++..+.+.|++++|.++|+++.+... .+.
T Consensus       313 l~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~  390 (530)
T 2ooe_A          313 ISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRH  390 (530)
T ss_dssp             TTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSS-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCT
T ss_pred             HHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCcc-ccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC-Cch
Confidence            652123356667777777777777777777777777653 2222 4677777777777777777777777776521 122


Q ss_pred             hhHHHHHHH-HHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Q 040367          321 VIYNTLFVV-LFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       321 ~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                      ..|...+.. +...|++++|..+|+++++. .+.+...|..++..+.+.|+.++|..+|++....
T Consensus       391 ~~~~~~a~~~~~~~~~~~~A~~~~e~al~~-~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~  454 (530)
T 2ooe_A          391 HVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  454 (530)
T ss_dssp             HHHHHHHHHHHHHTCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhc
Confidence            222222211 23467777777777777765 2335677777777777777777777777777764

>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=99.90  E-value=1.5e-21  Score=167.54  Aligned_cols=315  Identities=10%  Similarity=0.014  Sum_probs=226.6

Q ss_pred             ccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHH-HHHHHHhcCCC---CChhhHHHHHHHHHhcCCHH
Q 040367           29 KNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFV-VLGRILRSCFT---PNAVTFTSLIKGLCAESRIM  104 (400)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~  104 (400)
                      ..+.++.+...++.+...+  |+         ++...|++++|.+ .+++.......   .+...+..+...+...|+++
T Consensus        13 ~~~~~~~~~~~~~~~~~~~--~~---------~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~   81 (368)
T 1fch_A           13 DVDFWDKLQAELEEMAKRD--AE---------AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLP   81 (368)
T ss_dssp             --------------------------------------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHH
T ss_pred             CcccHHHHHHHHHHHHcCC--ch---------hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHH
Confidence            3445556666666665542  22         2334578888888 87766554211   13566888889999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHH
Q 040367          105 EAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYT  184 (400)
Q Consensus       105 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  184 (400)
                      +|...|+++.+.. +.+..++..+..++...|++++|+..|+++..                       .. +.+..++.
T Consensus        82 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~-----------------------~~-~~~~~~~~  136 (368)
T 1fch_A           82 NAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLE-----------------------LK-PDNQTALM  136 (368)
T ss_dssp             HHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-----------------------HC-TTCHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHh-----------------------cC-CCCHHHHH
Confidence            9999999999875 56788999999999999997777766665533                       22 44677889


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH---------------HHHHHHhCCChHHHHHHHHHHHHcCCCC-
Q 040367          185 SVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNV---------------IMDELCKNGKMDEASRLLDLMIQIGVRP-  248 (400)
Q Consensus       185 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~-  248 (400)
                      .+..++...|++++|...++++.+.. +.+...+..               .+..+...|++++|...++++.+..... 
T Consensus       137 ~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~  215 (368)
T 1fch_A          137 ALAVSFTNESLQRQACEILRDWLRYT-PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSI  215 (368)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTS-TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcc
Confidence            99999999999999999999998864 222222221               2334448899999999999999864322 


Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHH
Q 040367          249 NAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFV  328 (400)
Q Consensus       249 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  328 (400)
                      +..++..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+..
T Consensus       216 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~  293 (368)
T 1fch_A          216 DPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGI  293 (368)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            57888999999999999999999999998875 5578899999999999999999999999998864 346788899999


Q ss_pred             HHHhhCcHHHHHHHHHHHHHcCCCC----------CHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          329 VLFEIHQVERAFKLFDEMQRDGVAA----------DTWTYRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       329 ~~~~~~~~~~a~~~~~~~~~~~~~~----------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                      ++...|++++|...++++.+.....          ...+|..+..+|...|++++|..++++.+
T Consensus       294 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          294 SCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARDL  357 (368)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTCH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHHH
Confidence            9999999999999999988752111          26889999999999999999999887544

>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=1.9e-20  Score=160.66  Aligned_cols=309  Identities=10%  Similarity=-0.032  Sum_probs=227.9

Q ss_pred             HHhccCChhHHHH-HHHHHHhCCCC-C--CHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC
Q 040367           26 CLAKNKHYDTVLS-LFKRLNSTGLF-P--DLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAES  101 (400)
Q Consensus        26 ~~~~~~~~~~a~~-~~~~~~~~~~~-~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (400)
                      ++...|++++|++ .|++....... |  +...+..+...+...|++++|...++++.+.. +.+..++..+..++...|
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  112 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENE  112 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCc
Confidence            3445588899998 88876654211 1  34567788889999999999999999998875 447778888999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChH
Q 040367          102 RIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVV  181 (400)
Q Consensus       102 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  181 (400)
                      ++++|...++++.+.. +.+..++..+...+...|++++|...++++....+.....-...      ...... ..+ ..
T Consensus       113 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~------~~~~~~-~~~-~~  183 (368)
T 1fch_A          113 QELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPA------EEGAGG-AGL-GP  183 (368)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------------
T ss_pred             CHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHH------HHHhhh-hcc-cH
Confidence            9999999999998875 55788899999999999999999999999988765543311100      000000 011 11


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 040367          182 TYTSVIRGFCYANDWNEAKCLLIEMMDQGVQP-NVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGF  260 (400)
Q Consensus       182 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  260 (400)
                      .+..+...+ ..|++++|+..++++.+..... +..++..+...+...|++++|...++++.+.. +.+..++..+..++
T Consensus       184 ~~~~~~~~~-~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~  261 (368)
T 1fch_A          184 SKRILGSLL-SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATL  261 (368)
T ss_dssp             --CTTHHHH-HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHh-hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHH
Confidence            222233333 8899999999999998764221 57888999999999999999999999998863 34678888999999


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC----------chhhHHHHHHHH
Q 040367          261 CLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKP----------DVVIYNTLFVVL  330 (400)
Q Consensus       261 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----------~~~~~~~l~~~~  330 (400)
                      ...|++++|...++++.+.. +.+...+..+..+|...|++++|...++++.+.....          ...+|..+..++
T Consensus       262 ~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~  340 (368)
T 1fch_A          262 ANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLAL  340 (368)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHH
Confidence            99999999999999998875 5678889999999999999999999999888753221          157889999999


Q ss_pred             HhhCcHHHHHHHHHHHH
Q 040367          331 FEIHQVERAFKLFDEMQ  347 (400)
Q Consensus       331 ~~~~~~~~a~~~~~~~~  347 (400)
                      ...|++++|..++++..
T Consensus       341 ~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          341 SMLGQSDAYGAADARDL  357 (368)
T ss_dssp             HHHTCGGGHHHHHTTCH
T ss_pred             HHhCChHhHHHhHHHHH
Confidence            99999999998887544

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.88  E-value=4.9e-18  Score=151.21  Aligned_cols=351  Identities=14%  Similarity=0.044  Sum_probs=282.5

Q ss_pred             hhHHHHhcCCCCCChhhHHHHHHHHhc----cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhhHHHH
Q 040367            3 IFDYMLNMRPSPPPVCSFNILFGCLAK----NKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCK----MGRVSHGFVV   74 (400)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~   74 (400)
                      .|+...+.    .++.++..+...+..    .+++++|+..|++..+.|   +...+..+...|..    .+++++|...
T Consensus        65 ~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~  137 (490)
T 2xm6_A           65 WFRRAAEQ----GYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKW  137 (490)
T ss_dssp             HHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            45555544    256788889999988    899999999999999875   67788889888988    8899999999


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHH
Q 040367           75 LGRILRSCFTPNAVTFTSLIKGLCA----ESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYR----TGHTIVALNLFE  146 (400)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~  146 (400)
                      |++..+.+   +...+..+...|..    .+++++|.+.|++..+.|   +...+..+...|..    .+++++|..+|+
T Consensus       138 ~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~  211 (490)
T 2xm6_A          138 FRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYR  211 (490)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHH
Confidence            99998865   67778888888887    789999999999998864   78888899999988    899999999999


Q ss_pred             HHHcCCCCC-------------CcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHh----cCCHHHHHHHHHHHHhC
Q 040367          147 EMASGNGEF-------------GVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCY----ANDWNEAKCLLIEMMDQ  209 (400)
Q Consensus       147 ~~~~~~~~~-------------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~  209 (400)
                      +....+...             ...++.++|...|++..+.+   +...+..+...+..    .+++++|+..|++..+.
T Consensus       212 ~a~~~~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~  288 (490)
T 2xm6_A          212 KSATSGDELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQ  288 (490)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTT
T ss_pred             HHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHc
Confidence            987765321             12678999999999998865   55677778888877    89999999999999876


Q ss_pred             CCCCCHHHHHHHHHHHHhC-----CChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcC---CHHHHHHHHHHHHhcCC
Q 040367          210 GVQPNVVTFNVIMDELCKN-----GKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTG---RVNRAKELFVSMESMGC  281 (400)
Q Consensus       210 ~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~  281 (400)
                      |   +...+..+...|...     +++++|...+++..+.+   +...+..+...|...|   ++++|...|++..+.+ 
T Consensus       289 ~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~-  361 (490)
T 2xm6_A          289 G---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG-  361 (490)
T ss_dssp             T---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT-
T ss_pred             C---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC-
Confidence            5   566777788888877     89999999999999875   4567777888887766   8899999999998864 


Q ss_pred             CCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh----hCcHHHHHHHHHHHHHcCCC-
Q 040367          282 THTVFSYSILINGYCK----NKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE----IHQVERAFKLFDEMQRDGVA-  352 (400)
Q Consensus       282 ~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-  352 (400)
                        ++..+..+...|..    .+++++|.+.|++..+.+   +...+..+...|..    .+++++|..+|++..+.+.. 
T Consensus       362 --~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~  436 (490)
T 2xm6_A          362 --EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMNL  436 (490)
T ss_dssp             --CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCH
T ss_pred             --CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCC
Confidence              67788899999998    899999999999999875   56778888888887    89999999999999987532 


Q ss_pred             C-CHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          353 A-DTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       353 ~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      | +......+...+.  .+.+.+.+..++..+
T Consensus       437 ~~~~~a~~~l~~~~~--~~~~~a~~~a~~~~~  466 (490)
T 2xm6_A          437 FGTENRNITEKKLTA--KQLQQAELLSQQYIE  466 (490)
T ss_dssp             HHHHHHHHHHTTSCH--HHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHhcCH--hHHHHHHHHHHHHHH
Confidence            2 3333333333322  344555544444443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.88  E-value=5.4e-21  Score=163.90  Aligned_cols=266  Identities=9%  Similarity=-0.042  Sum_probs=214.5

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHH
Q 040367           86 NAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAK  165 (400)
Q Consensus        86 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~  165 (400)
                      +...+..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|++++|+..|+++..               
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---------------  127 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLE---------------  127 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---------------
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---------------
Confidence            45568888999999999999999999999875 56888999999999999997777776666543               


Q ss_pred             HHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-----------HHHHHHHHHHHHhCCChHHH
Q 040367          166 ELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPN-----------VVTFNVIMDELCKNGKMDEA  234 (400)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----------~~~~~~l~~~~~~~~~~~~a  234 (400)
                              .. +.+..++..+..++...|++++|+..++++.+..  |+           ...+..+...+...|++++|
T Consensus       128 --------~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  196 (365)
T 4eqf_A          128 --------LQ-PNNLKALMALAVSYTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGV  196 (365)
T ss_dssp             --------HC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHH
T ss_pred             --------cC-CCCHHHHHHHHHHHHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHH
Confidence                    21 4467889999999999999999999999998753  22           22334457788999999999


Q ss_pred             HHHHHHHHHcCCC-CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          235 SRLLDLMIQIGVR-PNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       235 ~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  313 (400)
                      ...++++.+.... ++..++..+..++...|++++|...++++.+.. +.+..+|..+..+|...|++++|.+.++++.+
T Consensus       197 ~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  275 (365)
T 4eqf_A          197 KELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALE  275 (365)
T ss_dssp             HHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9999999987432 167889999999999999999999999999876 56788999999999999999999999999998


Q ss_pred             CCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCC-----------CCHHHHHHHHHHHHhcCcHHHHHHHHHH
Q 040367          314 KGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVA-----------ADTWTYRTFIDGLCKNSYIVEAVELFRT  380 (400)
Q Consensus       314 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----------~~~~~~~~l~~~~~~~g~~~~a~~~~~~  380 (400)
                      .. +.+..++..+..++...|++++|...|+++.+....           .+...|..+..++...|+.+.+.++.++
T Consensus       276 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          276 IQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             cC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            74 335788999999999999999999999998874211           1357889999999999999988877665

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.88  E-value=3e-20  Score=159.21  Aligned_cols=275  Identities=12%  Similarity=-0.031  Sum_probs=136.1

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 040367           18 CSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGL   97 (400)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   97 (400)
                      ..|..+...+.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|+..++++.+.. +.+..++..+..+|
T Consensus        66 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  143 (365)
T 4eqf_A           66 PGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSY  143 (365)
T ss_dssp             TTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            345555555555555555555555555443 3345555555555555555555555555555543 22344555555555


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCC
Q 040367           98 CAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENIN  177 (400)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  177 (400)
                      ...|++++|...++++.+.. +.+...+..+                                                .
T Consensus       144 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~------------------------------------------------~  174 (365)
T 4eqf_A          144 TNTSHQQDACEALKNWIKQN-PKYKYLVKNK------------------------------------------------K  174 (365)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-HHHHCC-----------------------------------------------------
T ss_pred             HccccHHHHHHHHHHHHHhC-ccchHHHhhh------------------------------------------------c
Confidence            55555555555555555432 1111111111                                                0


Q ss_pred             CChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHH
Q 040367          178 PDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQ-PNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTL  256 (400)
Q Consensus       178 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  256 (400)
                      .....+..+...+...|++++|+..++++.+.... ++..++..+...+...|++++|...++++.+.. +.+..++..+
T Consensus       175 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  253 (365)
T 4eqf_A          175 GSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRL  253 (365)
T ss_dssp             --------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            01223344445555555555555555555554211 135555555555555566666666665555542 2245555556


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-----------CchhhHHH
Q 040367          257 MDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIK-----------PDVVIYNT  325 (400)
Q Consensus       257 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----------~~~~~~~~  325 (400)
                      ..+|...|++++|...|+++.+.. +.+...+..+..+|...|++++|...++++.+....           .+...|..
T Consensus       254 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~  332 (365)
T 4eqf_A          254 GATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAA  332 (365)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHH
Confidence            666666666666666666655543 334555556666666666666666666655543110           02455666


Q ss_pred             HHHHHHhhCcHHHHHHHHHH
Q 040367          326 LFVVLFEIHQVERAFKLFDE  345 (400)
Q Consensus       326 l~~~~~~~~~~~~a~~~~~~  345 (400)
                      +..++...|+.+.+..+.++
T Consensus       333 l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          333 LRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHcCcHHHHHHHHHh
Confidence            66666666666666665543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.87  E-value=1e-17  Score=150.70  Aligned_cols=374  Identities=12%  Similarity=0.052  Sum_probs=276.0

Q ss_pred             chhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH-HhcCChhhHHH----HHH
Q 040367            2 CIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCF-CKMGRVSHGFV----VLG   76 (400)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~----~~~   76 (400)
                      .+|+.+++..|.  +...|...+..+.+.|++++|..+|+++....  |+...|...+... ...|+.+.|.+    +|+
T Consensus        33 ~~~e~al~~~P~--~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~  108 (530)
T 2ooe_A           33 KTYERLVAQFPS--SGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYLSYVRETKGKLPSYKEKMAQAYD  108 (530)
T ss_dssp             HHHHHHHTTCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHHCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHHHHHHHHccchhhHHHHHHHHHH
Confidence            478888888877  88899999999999999999999999999874  6888887777533 45688887765    777


Q ss_pred             HHHhc-CCC-CChhhHHHHHHHHHh---------cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-------------
Q 040367           77 RILRS-CFT-PNAVTFTSLIKGLCA---------ESRIMEAAALFTKLRVFGCEPNVFTYNTLINGL-------------  132 (400)
Q Consensus        77 ~~~~~-~~~-~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-------------  132 (400)
                      +.+.. |.. ++...|...+.....         .|+++.|..+|++.......+....|.......             
T Consensus       109 ~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~  188 (530)
T 2ooe_A          109 FALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINIHLAKKMIE  188 (530)
T ss_dssp             HHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhchhHHHHHHH
Confidence            76653 433 356778877776654         789999999999998731111123444332211             


Q ss_pred             HhcCChHHHHHHHHHH------HcCCC---CCCc------------------------ccc----hHHHHHHHHHHHhCC
Q 040367          133 YRTGHTIVALNLFEEM------ASGNG---EFGV------------------------EGF----VDKAKELFLQMKDEN  175 (400)
Q Consensus       133 ~~~~~~~~a~~~~~~~------~~~~~---~~~~------------------------~~~----~~~a~~~~~~~~~~~  175 (400)
                      .+.+++..|..+++..      .....   .+..                        .++    ..++...|++.....
T Consensus       189 ~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~  268 (530)
T 2ooe_A          189 DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL  268 (530)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC
Confidence            1234566666666552      22110   0000                        011    135667788777653


Q ss_pred             CCCChHhHHHHHHHHHh-------cCCHH-------HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 040367          176 INPDVVTYTSVIRGFCY-------ANDWN-------EAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLM  241 (400)
Q Consensus       176 ~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  241 (400)
                       |.+...|..++..+.+       .|+++       +|..++++..+.-.+.+...|..++..+.+.|++++|..+|+++
T Consensus       269 -p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~a  347 (530)
T 2ooe_A          269 -GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRL  347 (530)
T ss_dssp             -TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence             5567888888888775       69987       89999999987323456888999999999999999999999999


Q ss_pred             HHcCCCCC-H-HhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHH-HHhcCCHHHHHHHHHHHHhCCCCC
Q 040367          242 IQIGVRPN-A-FVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILING-YCKNKEIEGALSLYGEMLSKGIKP  318 (400)
Q Consensus       242 ~~~~~~~~-~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~  318 (400)
                      ++.  .|+ . ..|..++..+.+.|++++|..+|++..+.. +.+...|...+.. +...|++++|..+|++.++.. +.
T Consensus       348 l~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~  423 (530)
T 2ooe_A          348 LAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GD  423 (530)
T ss_dssp             HHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TT
T ss_pred             hCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CC
Confidence            985  343 2 578888888899999999999999998763 3333334333322 346899999999999998864 33


Q ss_pred             chhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCC-CC--CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Q 040367          319 DVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGV-AA--DTWTYRTFIDGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       319 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                      +...|..++..+.+.|+.++|..+|+++...+. .|  ....|...+......|+.+.+..+++++.+.
T Consensus       424 ~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          424 IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            678899999999999999999999999998632 33  2558888888888899999999999999864

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.87  E-value=1.1e-18  Score=155.01  Aligned_cols=363  Identities=12%  Similarity=-0.049  Sum_probs=181.7

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhC--------CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcC----
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNST--------GLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSC----   82 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----   82 (400)
                      .....||.+...+...|++++|++.|++..+.        .-+....+|..+..+|...|++++|...++++.+..    
T Consensus        49 ~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           49 FKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcc
Confidence            45667999999999999999999999987542        113346789999999999999999999998876531    


Q ss_pred             --CC-CChhhHHHHHHHHHh--cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH---HhcCChHHHHHHHHHHHcCCCC
Q 040367           83 --FT-PNAVTFTSLIKGLCA--ESRIMEAAALFTKLRVFGCEPNVFTYNTLINGL---YRTGHTIVALNLFEEMASGNGE  154 (400)
Q Consensus        83 --~~-~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~  154 (400)
                        .. ....++.....++..  .+++++|++.|++..+.. |-++..+..+..++   ...++.++|++.+++....++.
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~  207 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD  207 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc
Confidence              11 124456555555554  457999999999998874 44566666665554   3456666677766665544332


Q ss_pred             CC---------------cccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 040367          155 FG---------------VEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFN  219 (400)
Q Consensus       155 ~~---------------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  219 (400)
                      ..               ..+..++|.+.+++..... +.+...+..+...+...|++++|+..+++..+.. +.+..++.
T Consensus       208 ~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~  285 (472)
T 4g1t_A          208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHC  285 (472)
T ss_dssp             CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHH
T ss_pred             chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHH
Confidence            11               1233444455554444332 2334444445555555555555555555544432 22333444


Q ss_pred             HHHHHHHhC-------------------CChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 040367          220 VIMDELCKN-------------------GKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMG  280 (400)
Q Consensus       220 ~l~~~~~~~-------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  280 (400)
                      .+..+|...                   +.++.|...+++..+.. +.+...+..+..+|...|++++|...|++..+..
T Consensus       286 ~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~  364 (472)
T 4g1t_A          286 QIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKE  364 (472)
T ss_dssp             HHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcC
Confidence            443333221                   11233444444443332 1123334444444445555555555554444432


Q ss_pred             CCCChh--hHHHHHH-HHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHH
Q 040367          281 CTHTVF--SYSILIN-GYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWT  357 (400)
Q Consensus       281 ~~~~~~--~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  357 (400)
                      ..+...  .+..+.. .....|++++|+..+++.++..  |+....         .+....+..+++...+. -+.+..+
T Consensus       365 ~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~--~~~~~~---------~~~~~~l~~~~~~~l~~-~p~~~~~  432 (472)
T 4g1t_A          365 LTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKIN--QKSREK---------EKMKDKLQKIAKMRLSK-NGADSEA  432 (472)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSC--CCCHHH---------HHHHHHHHHHHHHHHHH-CC-CTTH
T ss_pred             CCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--cccHHH---------HHHHHHHHHHHHHHHHh-CCCCHHH
Confidence            111110  1111111 1123444445555544444432  121111         11112223333333333 2346778


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHhcc-cchhHHH
Q 040367          358 YRTFIDGLCKNSYIVEAVELFRTLRILKC-ELDIRAY  393 (400)
Q Consensus       358 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~p~~~~~  393 (400)
                      |..+...|...|++++|++.|++.++.+- .|+..+|
T Consensus       433 ~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          433 LHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             HHHHHHHHHHHHHCC----------------------
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence            99999999999999999999999987542 4555444

>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=99.87  E-value=1.3e-19  Score=152.70  Aligned_cols=268  Identities=12%  Similarity=-0.008  Sum_probs=199.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHH
Q 040367           87 AVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKE  166 (400)
Q Consensus        87 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~  166 (400)
                      ...+..+...+...|++++|..+++++.+.. +.+..++..+...+...|++++|...++++..                
T Consensus        21 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~----------------   83 (327)
T 3cv0_A           21 HENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARM----------------   83 (327)
T ss_dssp             SSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH----------------
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh----------------
Confidence            3445566667777777777777777777654 44666777777777777776555555554432                


Q ss_pred             HHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH--------------HH-HHHhCCCh
Q 040367          167 LFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVI--------------MD-ELCKNGKM  231 (400)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~  231 (400)
                             .. +.+..++..+...+...|++++|.+.++++.+.. +.+...+..+              .. .+...|++
T Consensus        84 -------~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (327)
T 3cv0_A           84 -------LD-PKDIAVHAALAVSHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEY  154 (327)
T ss_dssp             -------HC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHH
T ss_pred             -------cC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccH
Confidence                   11 3356677777777788888888888888877653 2222222222              22 36777889


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 040367          232 DEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEM  311 (400)
Q Consensus       232 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  311 (400)
                      ++|...++++.+.. +.+..++..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++
T Consensus       155 ~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  232 (327)
T 3cv0_A          155 RECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRA  232 (327)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999998864 3367888889999999999999999999998875 556788899999999999999999999998


Q ss_pred             HhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCC-----------CHHHHHHHHHHHHhcCcHHHHHHHHHH
Q 040367          312 LSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAA-----------DTWTYRTFIDGLCKNSYIVEAVELFRT  380 (400)
Q Consensus       312 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~a~~~~~~  380 (400)
                      .+.. +.+...+..+..++...|++++|.+.++++.+.....           +...+..+..++.+.|++++|..++++
T Consensus       233 ~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  311 (327)
T 3cv0_A          233 LDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQ  311 (327)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTC
T ss_pred             HHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            8864 3367788889999999999999999999988753221           477888999999999999999999876


Q ss_pred             HHH
Q 040367          381 LRI  383 (400)
Q Consensus       381 ~~~  383 (400)
                      ..+
T Consensus       312 ~l~  314 (327)
T 3cv0_A          312 NVE  314 (327)
T ss_dssp             CSH
T ss_pred             HHH
Confidence            653

>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=99.86  E-value=3.3e-19  Score=150.22  Aligned_cols=281  Identities=9%  Similarity=-0.005  Sum_probs=191.7

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      +...+..+...+...|++++|+.+|+++.+.. +.+..++..+..++...|++++|...++++.+.. +.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            34455666666677777777777777766553 3355666666666666666666666666666553 234555666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCC
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDEN  175 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  175 (400)
                      .+...|++++|.+.++++.+.. +.+...+..+...                                            
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~--------------------------------------------  132 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQA--------------------------------------------  132 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTS-TTTTTC---------------------------------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHH--------------------------------------------
Confidence            6666666666666666665542 1122111111100                                            


Q ss_pred             CCCChHhHHHH-HH-HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhH
Q 040367          176 INPDVVTYTSV-IR-GFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVY  253 (400)
Q Consensus       176 ~~~~~~~~~~l-~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  253 (400)
                       .|+......+ .. .+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++
T Consensus       133 -~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  209 (327)
T 3cv0_A          133 -DVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLW  209 (327)
T ss_dssp             --------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             -HHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHH
Confidence             0111111122 22 3677888899999999888764 4467888888888999999999999999888764 3467788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-----------chhh
Q 040367          254 NTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKP-----------DVVI  322 (400)
Q Consensus       254 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------~~~~  322 (400)
                      ..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+.....           +...
T Consensus       210 ~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  288 (327)
T 3cv0_A          210 NKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSM  288 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHH
Confidence            888899999999999999999988775 5567888889999999999999999999888753321           4678


Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHH
Q 040367          323 YNTLFVVLFEIHQVERAFKLFDEMQ  347 (400)
Q Consensus       323 ~~~l~~~~~~~~~~~~a~~~~~~~~  347 (400)
                      |..+..++...|++++|..++++..
T Consensus       289 ~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          289 WDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            8888999999999999999887543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.86  E-value=7.6e-19  Score=144.65  Aligned_cols=160  Identities=13%  Similarity=0.073  Sum_probs=84.6

Q ss_pred             hHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhH---HHH
Q 040367          180 VVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVY---NTL  256 (400)
Q Consensus       180 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l  256 (400)
                      ...+..+..++...|++++|++.+++      +.+...+..+...+.+.|++++|.+.++++.+..  |+....   ...
T Consensus       101 ~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~  172 (291)
T 3mkr_A          101 TTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAW  172 (291)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHH
Confidence            33444444555555666666555554      2345555555555666666666666666655542  222111   112


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcH
Q 040367          257 MDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQV  336 (400)
Q Consensus       257 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  336 (400)
                      +..+...|++++|..+|+++.+.. +.+...++.+..++.+.|++++|.+.++++++... .+..++..++..+...|+.
T Consensus       173 ~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p-~~~~~l~~l~~~~~~~g~~  250 (291)
T 3mkr_A          173 VSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDS-GHPETLINLVVLSQHLGKP  250 (291)
T ss_dssp             HHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCC
Confidence            222333456666666666665553 44555566666666666666666666666555432 2455555555555556655


Q ss_pred             HH-HHHHHHHHHHc
Q 040367          337 ER-AFKLFDEMQRD  349 (400)
Q Consensus       337 ~~-a~~~~~~~~~~  349 (400)
                      ++ +.++++++.+.
T Consensus       251 ~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          251 PEVTNRYLSQLKDA  264 (291)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            43 34555555553

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.84  E-value=4.3e-18  Score=140.14  Aligned_cols=275  Identities=10%  Similarity=0.025  Sum_probs=214.9

Q ss_pred             HHHHhccCChhHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC
Q 040367           24 FGCLAKNKHYDTVLSLFKRLNSTGLFPD--LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAES  101 (400)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (400)
                      ++.....|+++.|+..++.....  .|+  ......+.++|...|+++.|+..++.    .-+|+..++..+...+...+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCC
Confidence            45567789999999999887654  333  34566778999999999999986654    23567788889999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCCh
Q 040367          102 RIMEAAALFTKLRVFGCEP-NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDV  180 (400)
Q Consensus       102 ~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  180 (400)
                      +.++|++.++++...+..| +...+..+...+...|++++|++.+++                             +.+.
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~-----------------------------~~~~  130 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ-----------------------------GDSL  130 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT-----------------------------CCSH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC-----------------------------CCCH
Confidence            9999999999998876434 677788888999999996666655433                             3577


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH---HHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 040367          181 VTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTF---NVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLM  257 (400)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  257 (400)
                      ..+..++.++.+.|++++|.+.++++.+..  |+....   ...+..+...|++++|..+|+++.+. .+.+...++.+.
T Consensus       131 ~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la  207 (291)
T 3mkr_A          131 ECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQA  207 (291)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHH
Confidence            789999999999999999999999999864  443211   22334445568999999999999997 456888999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHH-HHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcH
Q 040367          258 DGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEG-ALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQV  336 (400)
Q Consensus       258 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  336 (400)
                      .++.+.|++++|...|+++.+.. +.++.++..++..+...|+.++ +.++++++.+..  |+...   +.....+.+.+
T Consensus       208 ~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~--P~~~~---~~d~~~~~~~f  281 (291)
T 3mkr_A          208 ACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH--RSHPF---IKEYRAKENDF  281 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--TTCHH---HHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC--CCChH---HHHHHHHHHHH
Confidence            99999999999999999999886 6688899999999999999876 678999998864  33321   23334455555


Q ss_pred             HHHHHH
Q 040367          337 ERAFKL  342 (400)
Q Consensus       337 ~~a~~~  342 (400)
                      +++..-
T Consensus       282 d~~~~~  287 (291)
T 3mkr_A          282 DRLVLQ  287 (291)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555443

>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=99.83  E-value=8.8e-19  Score=147.45  Aligned_cols=267  Identities=11%  Similarity=0.062  Sum_probs=110.1

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      ++.+|..++.++.+.|++++|++.|.+.      +|..+|..++..+...|++++|+..++...+.  .+++.+.+.++.
T Consensus        31 ~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~  102 (449)
T 1b89_A           31 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIF  102 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHH
Confidence            3458888888888888888888888642      46668888888888888888888877766654  445677778888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCC
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDEN  175 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  175 (400)
                      +|.+.|+++++.++++       .|+..+|+.++..|...|.+++|..+|..+                           
T Consensus       103 ~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------------------------  148 (449)
T 1b89_A          103 ALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------------------------  148 (449)
T ss_dssp             ------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------------------------
T ss_pred             HHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------------------------
Confidence            8888888888877774       366678888888888888876666666543                           


Q ss_pred             CCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHH
Q 040367          176 INPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNT  255 (400)
Q Consensus       176 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  255 (400)
                           ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|...|+++.|......     +...+.-...
T Consensus       149 -----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~  212 (449)
T 1b89_A          149 -----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEE  212 (449)
T ss_dssp             -----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHH
T ss_pred             -----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHH
Confidence                 25777777777777777777777776      2567777777777777777777444433     2223333446


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCC------chhhHHHHHH
Q 040367          256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK-GIKP------DVVIYNTLFV  328 (400)
Q Consensus       256 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~------~~~~~~~l~~  328 (400)
                      ++..|.+.|++++|..+++...... +.....|+.|..+|++- ++++..+.++..... +++|      +...|.-+..
T Consensus       213 lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~  290 (449)
T 1b89_A          213 LINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVF  290 (449)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHH
Confidence            7777777777777777777777655 45566677776666654 334433333322221 2222      3456777777


Q ss_pred             HHHhhCcHHHHHHH
Q 040367          329 VLFEIHQVERAFKL  342 (400)
Q Consensus       329 ~~~~~~~~~~a~~~  342 (400)
                      .|...++++.|...
T Consensus       291 ly~~~~e~d~A~~t  304 (449)
T 1b89_A          291 LYDKYEEYDNAIIT  304 (449)
T ss_dssp             HHHHTTCHHHHHHH
T ss_pred             HHHhhchHHHHHHH
Confidence            77777777776653

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.82  E-value=1.9e-19  Score=151.47  Aligned_cols=283  Identities=12%  Similarity=0.094  Sum_probs=132.4

Q ss_pred             hccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHH
Q 040367           28 AKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAA  107 (400)
Q Consensus        28 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  107 (400)
                      .+.|++++|.++++++.      ++.+|..++.++.+.|++++|++.|.+.      +|..+|..++..+...|++++|+
T Consensus        14 ~~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi   81 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELV   81 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHH
Confidence            46788999999999983      3358999999999999999999999653      57779999999999999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHH
Q 040367          108 ALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVI  187 (400)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  187 (400)
                      ..++..++.  .+++.+.+.++.+|.+.|++.++.++++                              .|+..+|..+.
T Consensus        82 ~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~------------------------------~pn~~a~~~IG  129 (449)
T 1b89_A           82 KYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN------------------------------GPNNAHIQQVG  129 (449)
T ss_dssp             -----------------------------CHHHHTTTTT------------------------------CC---------
T ss_pred             HHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc------------------------------CCcHHHHHHHH
Confidence            988877764  5567888999999999999665544431                              35667999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHH
Q 040367          188 RGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVN  267 (400)
Q Consensus       188 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  267 (400)
                      ..|...|.+++|...|..+         ..|..++.++.+.|++++|.+.+.++      .++.+|..++.+|...|+++
T Consensus       130 d~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~  194 (449)
T 1b89_A          130 DRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFR  194 (449)
T ss_dssp             -------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHH
Confidence            9999999999999999976         37899999999999999999999988      27889999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh--hCcHHHHHHHHHH
Q 040367          268 RAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE--IHQVERAFKLFDE  345 (400)
Q Consensus       268 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~  345 (400)
                      .|......+.     ..+.....++..|.+.|.+++|..+++...... +-....|+-+..++++  .++..+.++.|..
T Consensus       195 lA~~~~l~L~-----~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~  268 (449)
T 1b89_A          195 LAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWS  268 (449)
T ss_dssp             HHHHTTTTTT-----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHST
T ss_pred             HHHHHHHHHH-----hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            9966655432     344446678999999999999999999998765 4467788888777765  3444455554432


Q ss_pred             HHHcCCCC------CHHHHHHHHHHHHhcCcHHHHHHH
Q 040367          346 MQRDGVAA------DTWTYRTFIDGLCKNSYIVEAVEL  377 (400)
Q Consensus       346 ~~~~~~~~------~~~~~~~l~~~~~~~g~~~~a~~~  377 (400)
                      -  ..++|      +...|..+.-.|.+.++++.|...
T Consensus       269 ~--ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t  304 (449)
T 1b89_A          269 R--VNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT  304 (449)
T ss_dssp             T--SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH
T ss_pred             H--hcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH
Confidence            1  12222      456688899999999999988763

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.80  E-value=2.3e-17  Score=129.90  Aligned_cols=200  Identities=11%  Similarity=0.015  Sum_probs=165.8

Q ss_pred             CCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHH
Q 040367          177 NPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTL  256 (400)
Q Consensus       177 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  256 (400)
                      |++...+..+...+.+.|++++|+..|++.++.. +.+...+..+..++.+.|++++|...+++..+.. +.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            5677889999999999999999999999999874 5678899999999999999999999999999874 3467788899


Q ss_pred             HHHHHhc-----------CCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHH
Q 040367          257 MDGFCLT-----------GRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNT  325 (400)
Q Consensus       257 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  325 (400)
                      ..++...           |++++|...+++..+.. +.+...+..+..++...|++++|+..++++++..  .+...+..
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           99999999999999886 5578889999999999999999999999999987  58888999


Q ss_pred             HHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          326 LFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       326 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                      +..++...|++++|+..++++.+.. +.+...+..+...+...|++++|++.+++..
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            9999999999999999999999863 4468889999999999999999999988764

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.80  E-value=9.1e-17  Score=130.40  Aligned_cols=227  Identities=12%  Similarity=0.084  Sum_probs=190.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHH
Q 040367          121 NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAK  200 (400)
Q Consensus       121 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  200 (400)
                      ....+..+...+...|++++|+..|+++                       .+..  .+...+..+..++...|++++|+
T Consensus         4 ~a~~~~~~g~~~~~~~~~~~A~~~~~~a-----------------------~~~~--~~~~~~~~~~~~~~~~~~~~~A~   58 (258)
T 3uq3_A            4 MADKEKAEGNKFYKARQFDEAIEHYNKA-----------------------WELH--KDITYLNNRAAAEYEKGEYETAI   58 (258)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHH-----------------------HHHS--CCTHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHH-----------------------HHhh--ccHHHHHHHHHHHHHcccHHHHH
Confidence            3467788888999999966666665554                       3333  46778999999999999999999


Q ss_pred             HHHHHHHhCCC--CCC----HHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHH
Q 040367          201 CLLIEMMDQGV--QPN----VVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFV  274 (400)
Q Consensus       201 ~~~~~~~~~~~--~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  274 (400)
                      ..++++.+...  .++    ..++..+..++...|++++|...++++.+..  |+.       ..+...|++++|...++
T Consensus        59 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~  129 (258)
T 3uq3_A           59 STLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAE  129 (258)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHH
Confidence            99999886431  112    5788899999999999999999999999863  442       45667789999999999


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCC
Q 040367          275 SMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAAD  354 (400)
Q Consensus       275 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  354 (400)
                      .+.... +.+...+..+...+...|++++|.+.++++.+... .+...+..+..++...|++++|...++++.+.. +.+
T Consensus       130 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~  206 (258)
T 3uq3_A          130 AEAYVN-PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNF  206 (258)
T ss_dssp             HHHHCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHcC-cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHH
Confidence            998875 55677889999999999999999999999998753 367889999999999999999999999999873 446


Q ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Q 040367          355 TWTYRTFIDGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       355 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                      ...+..+...+.+.|++++|.+.+++..+.
T Consensus       207 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          207 VRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            888999999999999999999999999864

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.79  E-value=4.8e-19  Score=161.06  Aligned_cols=120  Identities=13%  Similarity=0.177  Sum_probs=99.1

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHh---cCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHH
Q 040367          249 NAFVYNTLMDGFCLTGRVNRAKELFVSMES---MGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNT  325 (400)
Q Consensus       249 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  325 (400)
                      -..+|+++|++|++.|+.++|..+|..|.+   .|+.||..+||+||.+|++.|++++|.++|++|.+.|+.||..||++
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            456788888888888888888888877653   46788888888888888888888888888888888888888888888


Q ss_pred             HHHHHHhhCc-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 040367          326 LFVVLFEIHQ-VERAFKLFDEMQRDGVAADTWTYRTFIDGLCKN  368 (400)
Q Consensus       326 l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  368 (400)
                      ++.++++.|+ .++|.++|++|.+.|+.||..+|+.++.++.+.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~  249 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA  249 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH
Confidence            8888888887 477888888888888888888888887655544

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.78  E-value=4.2e-15  Score=131.83  Aligned_cols=306  Identities=11%  Similarity=-0.031  Sum_probs=172.3

Q ss_pred             CCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc--------CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----
Q 040367           50 PDLYTYNILINCFCKMGRVSHGFVVLGRILRS--------CFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVF-----  116 (400)
Q Consensus        50 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----  116 (400)
                      .....|+.+...+...|++++|++.|++..+.        ..+....+|+.+..+|...|++++|...+++..+.     
T Consensus        49 ~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           49 FKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcc
Confidence            34567999999999999999999999987652        11224567889999999999999999999987653     


Q ss_pred             C-C-CCCHHHHHHHHHHHHhcC--ChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHH---
Q 040367          117 G-C-EPNVFTYNTLINGLYRTG--HTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRG---  189 (400)
Q Consensus       117 ~-~-~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---  189 (400)
                      + . .....++..+..++...|  ++++|+..|++.....+.                        +...+..+..+   
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~------------------------~~~~~~~~~~~~~~  184 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK------------------------NPEFTSGLAIASYR  184 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT------------------------CHHHHHHHHHHHHH
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC------------------------CHHHHHHHHHHHHH
Confidence            1 0 123566666666666544  556666666655443322                        33333333333   


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCC
Q 040367          190 FCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCK----NGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGR  265 (400)
Q Consensus       190 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  265 (400)
                      +...++.++|++.+++..+.+ +.+...+..+...+..    .|++++|.+.+++..... +.+..++..+...|...|+
T Consensus       185 l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~  262 (472)
T 4g1t_A          185 LDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDE  262 (472)
T ss_dssp             HHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTC
T ss_pred             hcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCc
Confidence            223455556666666655542 2344444444333332    345556666666665543 2345555566666666666


Q ss_pred             HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc-------------------CCHHHHHHHHHHHHhCCCCCchhhHHHH
Q 040367          266 VNRAKELFVSMESMGCTHTVFSYSILINGYCKN-------------------KEIEGALSLYGEMLSKGIKPDVVIYNTL  326 (400)
Q Consensus       266 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l  326 (400)
                      +++|...++++.+.. +.+..++..+..+|...                   +.++.|...+++..+... .+..++..+
T Consensus       263 ~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l  340 (472)
T 4g1t_A          263 PDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAND-NLFRVCSIL  340 (472)
T ss_dssp             HHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCT-TTCCCHHHH
T ss_pred             hHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCC-chhhhhhhH
Confidence            666666666666553 33444555554444321                   224455555555555432 234455566


Q ss_pred             HHHHHhhCcHHHHHHHHHHHHHcCCCCCH--HHHHHHHH-HHHhcCcHHHHHHHHHHHHH
Q 040367          327 FVVLFEIHQVERAFKLFDEMQRDGVAADT--WTYRTFID-GLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       327 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~-~~~~~g~~~~a~~~~~~~~~  383 (400)
                      ...+...|++++|.+.|+++++....+..  ..+..+.. .....|++++|+..|++.++
T Consensus       341 g~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~  400 (472)
T 4g1t_A          341 ASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK  400 (472)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            66666666666666666666654222111  11222222 22345666666666666554

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.78  E-value=8.8e-17  Score=126.60  Aligned_cols=199  Identities=14%  Similarity=0.011  Sum_probs=104.4

Q ss_pred             CCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHH
Q 040367           14 PPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSL   93 (400)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (400)
                      |+++..+..+...+.+.|++++|+..|++..+.. +.+...+..+..++...|++++|+..+++.++.. +.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            3566677777777777777777777777777664 4466777777777777777777777777777664 3355666666


Q ss_pred             HHHHHhc-----------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchH
Q 040367           94 IKGLCAE-----------SRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVD  162 (400)
Q Consensus        94 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  162 (400)
                      ..++...           |++++|+..+++..+.. +.+...+..+..++...|++++|+..|++.              
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~a--------------  144 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQA--------------  144 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH--------------
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHH--------------
Confidence            6666666           55555555555555443 224444555555555555533333333322              


Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 040367          163 KAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLM  241 (400)
Q Consensus       163 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  241 (400)
                               .+..  .+...+..+..++...|++++|+..|++..+.. +.+...+..+...+...|++++|...+++.
T Consensus       145 ---------l~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          145 ---------LALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             ---------HHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC--------------
T ss_pred             ---------Hhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence                     1211  234444445555555555555555555554432 233444444444555555555555544443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.77  E-value=3.5e-16  Score=126.90  Aligned_cols=224  Identities=10%  Similarity=0.033  Sum_probs=107.4

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CCC----HHHHH
Q 040367           53 YTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGC--EPN----VFTYN  126 (400)
Q Consensus        53 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~  126 (400)
                      ..+..+...+...|++++|...++++.+..  .+...+..+..++...|++++|...+++..+...  .++    ..++.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            345555555556666666666666655554  4555555555666666666666666655554320  011    34455


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 040367          127 TLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEM  206 (400)
Q Consensus       127 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  206 (400)
                      .+...+...|++++|+                                                          ..++++
T Consensus        84 ~l~~~~~~~~~~~~A~----------------------------------------------------------~~~~~a  105 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTI----------------------------------------------------------EYYQKS  105 (258)
T ss_dssp             HHHHHHHHTTCHHHHH----------------------------------------------------------HHHHHH
T ss_pred             HHHHHHHHcccHHHHH----------------------------------------------------------HHHHHH
Confidence            5555555555544444                                                          444444


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChh
Q 040367          207 MDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVF  286 (400)
Q Consensus       207 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  286 (400)
                      .+..  |+.       ..+...|++++|...++++.... +.+...+..+...+...|++++|...++++.+.. +.+..
T Consensus       106 ~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~  174 (258)
T 3uq3_A          106 LTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDAR  174 (258)
T ss_dssp             HHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHH
Confidence            3321  221       12233344444444444444431 1123344444444445555555555555544443 33344


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHH
Q 040367          287 SYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       287 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  348 (400)
                      .+..+...+...|++++|.+.++++.+.. +.+...+..+..++...|++++|...++++.+
T Consensus       175 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  235 (258)
T 3uq3_A          175 GYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAART  235 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            45555555555555555555555554432 12344444555555555555555555555444

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.76  E-value=1.7e-18  Score=157.56  Aligned_cols=152  Identities=13%  Similarity=0.123  Sum_probs=121.9

Q ss_pred             CCHHHHHHHHHHHHhCCChHHHHHHHHHHHH---cCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHH
Q 040367          213 PNVVTFNVIMDELCKNGKMDEASRLLDLMIQ---IGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYS  289 (400)
Q Consensus       213 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  289 (400)
                      .-..||+++|++|++.|++++|.++|.+|.+   .|+.||..+||+||.+|++.|++++|.++|++|.+.|+.||..+|+
T Consensus       125 ~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYn  204 (1134)
T 3spa_A          125 GQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            3456899999999999999999999988764   4789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCC-HHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCC------HHHHHHHH
Q 040367          290 ILINGYCKNKE-IEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAAD------TWTYRTFI  362 (400)
Q Consensus       290 ~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~  362 (400)
                      ++|.++++.|+ .++|.++|++|.+.|+.||..+|+.++....+    +.+++..+++ ..++.|+      ..+...|.
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR----~~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~  279 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR----ATVLKAVHKV-KPTFSLPPQLPPPVNTSKLLR  279 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHH----HHHHHHHGGG-CCCCCCCCCCCCCCCCCTTTH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhH----HHHHHHHHHh-CcccCCCCCCcccccchHHHH
Confidence            99999999987 47899999999999999999999988865544    3444444444 2234443      33334455


Q ss_pred             HHHHhcC
Q 040367          363 DGLCKNS  369 (400)
Q Consensus       363 ~~~~~~g  369 (400)
                      +.|.+.+
T Consensus       280 dl~s~d~  286 (1134)
T 3spa_A          280 DVYAKDG  286 (1134)
T ss_dssp             HHHCCCS
T ss_pred             HHHccCC
Confidence            5555544

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.76  E-value=6.5e-16  Score=126.46  Aligned_cols=235  Identities=11%  Similarity=0.145  Sum_probs=121.7

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC--hhhHHHHHH
Q 040367           18 CSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPN--AVTFTSLIK   95 (400)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~   95 (400)
                      ..+......+.+.|++++|+..|+++.+.. +.+...+..+..++...|++++|++.++++.+....++  ...|..+..
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            345555666666777777777777666653 23444666666666666777777777666665321111  122556666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCC
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDEN  175 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  175 (400)
                      .+...|++++|.+.|++..+.. +.+..++..+...+...|++++|+..+++...                       ..
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~-----------------------~~  138 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIR-----------------------PT  138 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCC-----------------------SS
T ss_pred             HHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhh-----------------------cC
Confidence            6666666666666666666553 33445566666666666664444444433322                       11


Q ss_pred             CCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC---hHHHHHHHHHHHHcC-CCCC--
Q 040367          176 INPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGK---MDEASRLLDLMIQIG-VRPN--  249 (400)
Q Consensus       176 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~--  249 (400)
                       +.+...+..+...+...+++++|++.++++.+.. +.+...+..+..++...|+   +++|...++++.+.. ..|+  
T Consensus       139 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~  216 (272)
T 3u4t_A          139 -TTDPKVFYELGQAYYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKY  216 (272)
T ss_dssp             -CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGG
T ss_pred             -CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccc
Confidence             2234444444423333346666666666555542 2234444445555555454   555555555554431 0111  


Q ss_pred             ----HHhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 040367          250 ----AFVYNTLMDGFCLTGRVNRAKELFVSMESM  279 (400)
Q Consensus       250 ----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  279 (400)
                          ..++..+...|...|++++|...++++.+.
T Consensus       217 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  250 (272)
T 3u4t_A          217 KDELIEANEYIAYYYTINRDKVKADAAWKNILAL  250 (272)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence                123444444555555555555555555444

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.76  E-value=1.4e-15  Score=122.90  Aligned_cols=213  Identities=11%  Similarity=-0.025  Sum_probs=182.5

Q ss_pred             hHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 040367          180 VVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDG  259 (400)
Q Consensus       180 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  259 (400)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            5678888899999999999999999998864 5578889999999999999999999999998874 3467888899999


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHH
Q 040367          260 FCLTGRVNRAKELFVSMESMGC-THTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVER  338 (400)
Q Consensus       260 ~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  338 (400)
                      +...|++++|...++++.+.+. +.+...+..+...+...|++++|.+.++++.+... .+...+..+...+...|++++
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            9999999999999999987222 33567788899999999999999999999998743 367788899999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHHHHhh
Q 040367          339 AFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLID  398 (400)
Q Consensus       339 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~  398 (400)
                      |...++++.+. .+.+...+..+...+...|++++|.+.++++.+.  .|+...+..++.
T Consensus       194 A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~  250 (252)
T 2ho1_A          194 ARQYYDLFAQG-GGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL--YPGSLEYQEFQA  250 (252)
T ss_dssp             HHHHHHHHHTT-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSHHHHHHHT
T ss_pred             HHHHHHHHHHh-CcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCCHHHHHHHh
Confidence            99999999876 3457888889999999999999999999999874  566665555543

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.76  E-value=9.3e-15  Score=119.62  Aligned_cols=224  Identities=13%  Similarity=0.018  Sum_probs=163.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHh----cCCH
Q 040367          121 NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCY----ANDW  196 (400)
Q Consensus       121 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~  196 (400)
                      +..++..+...+...|++++|+..|++.                       .+   +.+...+..+...+..    .+++
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a-----------------------~~---~~~~~a~~~lg~~~~~g~~~~~~~   58 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKA-----------------------CD---LKENSGCFNLGVLYYQGQGVEKNL   58 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHH-----------------------HH---TTCHHHHHHHHHHHHHTSSSCCCH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHH-----------------------HH---CCCHHHHHHHHHHHHcCCCcCCCH
Confidence            5556666777777777755555554443                       22   1244566667777777    7888


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHh----cCCHHH
Q 040367          197 NEAKCLLIEMMDQGVQPNVVTFNVIMDELCK----NGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCL----TGRVNR  268 (400)
Q Consensus       197 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~  268 (400)
                      ++|+..|++..+.+   +...+..+...|..    .+++++|...+++..+.+   +...+..+...|..    .+++++
T Consensus        59 ~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~  132 (273)
T 1ouv_A           59 KKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKK  132 (273)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHH
Confidence            88888888877764   56677777777777    788888888888877764   56677777777777    788888


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh----hCcHHHHH
Q 040367          269 AKELFVSMESMGCTHTVFSYSILINGYCK----NKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE----IHQVERAF  340 (400)
Q Consensus       269 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  340 (400)
                      |...|++..+.+   +...+..+...|..    .+++++|.+.+++..+.+   +...+..+...+..    .+++++|.
T Consensus       133 A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~  206 (273)
T 1ouv_A          133 AVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEAL  206 (273)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHH
T ss_pred             HHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            888888887754   45666777777777    788888888888887764   45666777777777    88888888


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHh----cCcHHHHHHHHHHHHHhc
Q 040367          341 KLFDEMQRDGVAADTWTYRTFIDGLCK----NSYIVEAVELFRTLRILK  385 (400)
Q Consensus       341 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  385 (400)
                      ..+++..+.+   +...+..+...|..    .+++++|.+.|++..+.|
T Consensus       207 ~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          207 ARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHHHhCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            8888887763   36667777778877    888888888888888765

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.75  E-value=2e-15  Score=119.69  Aligned_cols=217  Identities=12%  Similarity=-0.058  Sum_probs=183.3

Q ss_pred             CCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHH
Q 040367          177 NPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTL  256 (400)
Q Consensus       177 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  256 (400)
                      +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   82 (225)
T 2vq2_A            5 NQVSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHH
Confidence            3456778889999999999999999999998864 4568889999999999999999999999999874 3467788899


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhC
Q 040367          257 MDGFCLT-GRVNRAKELFVSMESMGCTH-TVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIH  334 (400)
Q Consensus       257 ~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  334 (400)
                      ...+... |++++|...++++.+.+..| +...+..+...+...|++++|...++++.+... .+...+..+...+...|
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 99999999999998832223 367788899999999999999999999998643 35778889999999999


Q ss_pred             cHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHHHHhh
Q 040367          335 QVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCLID  398 (400)
Q Consensus       335 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~ll~  398 (400)
                      ++++|...++++.+.....+...+..+...+...|+.++|..+++.+.+.  .|+......++.
T Consensus       162 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~~l~  223 (225)
T 2vq2_A          162 QLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEELQTVLT  223 (225)
T ss_dssp             CHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHhc
Confidence            99999999999988632157778888888889999999999999999863  577666655553

>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=99.75  E-value=8.6e-16  Score=130.65  Aligned_cols=117  Identities=4%  Similarity=-0.018  Sum_probs=54.0

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-hhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGR-VSHGFVVLGRILRSCFTPNAVTFTSLIKGL   97 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   97 (400)
                      +|+.+...+.+.|++++|+..|+++.+.. +.+..+|..+..++...|+ +++|+..++++++.. +.+...|..+..++
T Consensus        99 a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~  176 (382)
T 2h6f_A           99 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
Confidence            44444444444555555555555544432 2234444444444444443 555555555544443 12344444444444


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 040367           98 CAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHT  138 (400)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  138 (400)
                      ...|++++|+..|+++++.. +-+..+|..+..++.+.|++
T Consensus       177 ~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~  216 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLW  216 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCC
T ss_pred             HHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCCh
Confidence            44444445544444444443 23444444444444444443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.75  E-value=2e-15  Score=123.53  Aligned_cols=242  Identities=12%  Similarity=0.015  Sum_probs=189.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHH
Q 040367          122 VFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKC  201 (400)
Q Consensus       122 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  201 (400)
                      ...+......+...|++++|+..|+++..                       .. +.+...+..+..++...|++++|+.
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~-----------------------~~-p~~~~~~~~l~~~~~~~~~~~~A~~   58 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEA-----------------------KK-YNSPYIYNRRAVCYYELAKYDLAQK   58 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHH-----------------------TT-CCCSTTHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHH-----------------------hC-CCcHHHHHHHHHHHHHHhhHHHHHH
Confidence            34556677888888886666666655543                       32 3355688889999999999999999


Q ss_pred             HHHHHHhCCCCC--CHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 040367          202 LLIEMMDQGVQP--NVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESM  279 (400)
Q Consensus       202 ~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  279 (400)
                      .++++.+.+..+  ....|..+..++...|++++|...++++.+.. +.+..++..+..+|...|++++|...+++..+.
T Consensus        59 ~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  137 (272)
T 3u4t_A           59 DIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP  137 (272)
T ss_dssp             HHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS
T ss_pred             HHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc
Confidence            999999843222  23458889999999999999999999999874 336688999999999999999999999999887


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCc---HHHHHHHHHHHHHcC-CCCC-
Q 040367          280 GCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQ---VERAFKLFDEMQRDG-VAAD-  354 (400)
Q Consensus       280 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~-  354 (400)
                      . +.+...+..+...+...+++++|.+.++++.+... .+...+..+..++...|+   +++|...++++.+.. ..|+ 
T Consensus       138 ~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~  215 (272)
T 3u4t_A          138 T-TTDPKVFYELGQAYYYNKEYVKADSSFVKVLELKP-NIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAK  215 (272)
T ss_dssp             S-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGG
T ss_pred             C-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhccccc
Confidence            4 55777888888344445699999999999998743 356777788888888888   888999999887642 1233 


Q ss_pred             -----HHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHH
Q 040367          355 -----TWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRA  392 (400)
Q Consensus       355 -----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  392 (400)
                           ...|..+...|...|++++|.+.++++.+.  .|+...
T Consensus       216 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~  256 (272)
T 3u4t_A          216 YKDELIEANEYIAYYYTINRDKVKADAAWKNILAL--DPTNKK  256 (272)
T ss_dssp             GHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHH
T ss_pred             chHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CccHHH
Confidence                 257888999999999999999999999984  565543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.75  E-value=1.9e-15  Score=132.60  Aligned_cols=337  Identities=12%  Similarity=0.031  Sum_probs=224.5

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh---hhHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 040367           22 ILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRV---SHGFVVLGRILRSCFTPNAVTFTSLIKGLC   98 (400)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (400)
                      .+...+.+.|++++|+++|++..+.|   +..++..+...|...|+.   ++|.++|++..+.    +...+..+...+.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            35677888999999999999998776   344556666777777887   8999999988854    5566677777555


Q ss_pred             hcC-----CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh---HHHHHHHHHHHcCCCCCC-------------c
Q 040367           99 AES-----RIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHT---IVALNLFEEMASGNGEFG-------------V  157 (400)
Q Consensus        99 ~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~-------------~  157 (400)
                      ..+     ++++|...|++..+.| .+  ..+..|...|...+..   .++.+.+......+....             .
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g-~~--~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~  157 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANG-EG--NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTY  157 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTT-CS--SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCG
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCC-CH--HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCc
Confidence            554     7889999999998876 23  3677777777766543   334444544443332111             1


Q ss_pred             ccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC----CC
Q 040367          158 EGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYAN---DWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKN----GK  230 (400)
Q Consensus       158 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~  230 (400)
                      ....+.+..+++.....    +...+..+...|...|   +.++|++.|++..+.| +++...+..+...|...    ++
T Consensus       158 ~~~~~~a~~~~~~a~~~----~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d  232 (452)
T 3e4b_A          158 DQHLDDVERICKAALNT----TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPD  232 (452)
T ss_dssp             GGGHHHHHHHHHHHTTT----CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCC
T ss_pred             ccCHHHHHHHHHHHHcC----CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCC
Confidence            22344455555554433    3337888888999999   9999999999999887 55666656677777554    78


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHhHHHHHHH-H--HhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC-----CHH
Q 040367          231 MDEASRLLDLMIQIGVRPNAFVYNTLMDG-F--CLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNK-----EIE  302 (400)
Q Consensus       231 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~  302 (400)
                      +++|...|++.. .|   ++..+..+... +  ...+++++|...|++..+.+   +...+..|...|. .|     +++
T Consensus       233 ~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~  304 (452)
T 3e4b_A          233 EKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAK  304 (452)
T ss_dssp             HHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHH
T ss_pred             HHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHH
Confidence            999999999987 33   55666677776 4  56899999999999998865   6777788888887 45     999


Q ss_pred             HHHHHHHHHHhCCCCCchhhHHHHHHHHHh----hCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCcHHHH
Q 040367          303 GALSLYGEMLSKGIKPDVVIYNTLFVVLFE----IHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCK----NSYIVEA  374 (400)
Q Consensus       303 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a  374 (400)
                      +|.++|++.. .|   +......+...|..    ..++++|..+|++..+.|.   ......|...|..    ..+.++|
T Consensus       305 ~A~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A  377 (452)
T 3e4b_A          305 AAEAHFEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNA  377 (452)
T ss_dssp             HHHHHHHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHH
T ss_pred             HHHHHHHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHH
Confidence            9999999888 43   66777777777765    3489999999999988763   3345566666654    4589999


Q ss_pred             HHHHHHHHHhcccc
Q 040367          375 VELFRTLRILKCEL  388 (400)
Q Consensus       375 ~~~~~~~~~~~~~p  388 (400)
                      ..+|+...+.|...
T Consensus       378 ~~~~~~A~~~g~~~  391 (452)
T 3e4b_A          378 YVFSQLAKAQDTPE  391 (452)
T ss_dssp             HHHHHHHHTTCCHH
T ss_pred             HHHHHHHHHCCCHH
Confidence            99999998877433

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.74  E-value=4.3e-15  Score=126.38  Aligned_cols=248  Identities=11%  Similarity=0.059  Sum_probs=181.6

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC-HHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 040367           52 LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESR-IMEAAALFTKLRVFGCEPNVFTYNTLIN  130 (400)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (400)
                      ..+|..+..++...|++++|++.++++++.. +.+...|+.+..++...|+ +++|+..|+++.... +-+...|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            4567888888888999999999999998875 3467788888888999996 999999999988875 557888888888


Q ss_pred             HHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040367          131 GLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQG  210 (400)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  210 (400)
                      ++...|++++|+..|++++..                       . +-+...|..+..++...|++++|+..++++++.+
T Consensus       175 ~~~~~g~~~eAl~~~~kal~l-----------------------d-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~  230 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQ-----------------------D-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED  230 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHH-----------------------C-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC
T ss_pred             HHHHccCHHHHHHHHHHHHHh-----------------------C-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC
Confidence            888888866666665555432                       2 4467788888888888899999999998888864


Q ss_pred             CCCCHHHHHHHHHHHHh-CCChHHH-----HHHHHHHHHcCCCCCHHhHHHHHHHHHhcC--CHHHHHHHHHHHHhcCCC
Q 040367          211 VQPNVVTFNVIMDELCK-NGKMDEA-----SRLLDLMIQIGVRPNAFVYNTLMDGFCLTG--RVNRAKELFVSMESMGCT  282 (400)
Q Consensus       211 ~~~~~~~~~~l~~~~~~-~~~~~~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~  282 (400)
                       +.+...|+.+..++.. .|..++|     +..++++++.. +-+...+..+..++...|  ++++|.+.+..+ +.. +
T Consensus       231 -P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p  306 (382)
T 2h6f_A          231 -VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-H  306 (382)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-C
T ss_pred             -CCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-C
Confidence             4567788888888888 5555776     47777777753 235667777777777777  577888877777 333 4


Q ss_pred             CChhhHHHHHHHHHhcC---------CHHHHHHHHHHH-HhCCCCCchhhHHHHHHHH
Q 040367          283 HTVFSYSILINGYCKNK---------EIEGALSLYGEM-LSKGIKPDVVIYNTLFVVL  330 (400)
Q Consensus       283 ~~~~~~~~l~~~~~~~~---------~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~  330 (400)
                      .+...+..++..|.+.|         ..++|.++++++ .+.. +.....|..+...+
T Consensus       307 ~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~D-P~r~~~w~~~~~~l  363 (382)
T 2h6f_A          307 SSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKD-TIRKEYWRYIGRSL  363 (382)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHTTC-GGGHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHhC-chhHHHHHHHHHHH
Confidence            55667777777777753         247788888877 5542 11334444444443

>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=99.74  E-value=1.8e-14  Score=117.98  Aligned_cols=223  Identities=12%  Similarity=-0.070  Sum_probs=128.3

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHhcCCCCChhhHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCK----MGRVSHGFVVLGRILRSCFTPNAVTFT   91 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   91 (400)
                      ++.++..+...+...|++++|+..|++..+.   .+..++..+...+..    .+++++|...+++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            5556666666777777777777777776663   245566666666666    677777777777766653   555666


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHcCCCCCCcccchHH
Q 040367           92 SLIKGLCA----ESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYR----TGHTIVALNLFEEMASGNGEFGVEGFVDK  163 (400)
Q Consensus        92 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  163 (400)
                      .+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|+..|++.               
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a---------------  140 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKA---------------  140 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHH---------------
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHH---------------
Confidence            66666666    666677776666666543   55556666666655    55544433333332               


Q ss_pred             HHHHHHHHHhCCCCCChHhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCChHHHH
Q 040367          164 AKELFLQMKDENINPDVVTYTSVIRGFCY----ANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCK----NGKMDEAS  235 (400)
Q Consensus       164 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  235 (400)
                              .+.+   +...+..+...+..    .+++++|+..+++..+.+   +...+..+...|..    .+++++|.
T Consensus       141 --------~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~  206 (273)
T 1ouv_A          141 --------CDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEAL  206 (273)
T ss_dssp             --------HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHH
T ss_pred             --------HhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence                    2222   33444555555555    556666666666655543   33445555555555    55556666


Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHhc
Q 040367          236 RLLDLMIQIGVRPNAFVYNTLMDGFCL----TGRVNRAKELFVSMESM  279 (400)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~  279 (400)
                      ..+++..+.+   +...+..+..+|..    .+++++|...|++..+.
T Consensus       207 ~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~  251 (273)
T 1ouv_A          207 ARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKL  251 (273)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHc
Confidence            5555555542   13444445555555    55555555555555544

>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=99.74  E-value=5.4e-14  Score=132.56  Aligned_cols=318  Identities=13%  Similarity=0.119  Sum_probs=206.8

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGL--FPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTS   92 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   92 (400)
                      .++.--...+.+|...|.+.+|++++++..-.+-  ..+...-+.++.+..+. +..+..+..++....    +   ...
T Consensus       983 ~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----d---~~e 1054 (1630)
T 1xi4_A          983 QDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----D---APD 1054 (1630)
T ss_pred             cCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc----c---HHH
Confidence            3455556778889999999999999999984421  12344555566555555 445555555544321    1   223


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCC------CCCCcccchHHHHH
Q 040367           93 LIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGN------GEFGVEGFVDKAKE  166 (400)
Q Consensus        93 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~~a~~  166 (400)
                      +...+...|.+++|..+|++..     ......+.++.   ..+++++|.++.+++....      ......|++++|++
T Consensus      1055 IA~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aervn~p~vWsqLAKAql~~G~~kEAId 1126 (1630)
T 1xi4_A         1055 IANIAISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERCNEPAVWSQLAKAQLQKGMVKEAID 1126 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCHHHHHH
Confidence            5566667777777777777642     11122222222   5566666666665542211      11122555666666


Q ss_pred             HHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCC
Q 040367          167 LFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV  246 (400)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  246 (400)
                      .|.+.      .|...|..++.++.+.|++++|++.+....+..  +++...+.++.+|++.+++++...+.    +   
T Consensus      1127 sYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~--- 1191 (1630)
T 1xi4_A         1127 SYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N--- 1191 (1630)
T ss_pred             HHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---
Confidence            66443      256677778888888888888888888777653  33333345777788887777544332    2   


Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHH
Q 040367          247 RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTL  326 (400)
Q Consensus       247 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  326 (400)
                      .++...+..+...|...|++++|..+|..+         ..|..++.++.+.|++++|.+.+++..      +..+|..+
T Consensus      1192 ~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~------n~~aWkev 1256 (1630)
T 1xi4_A         1192 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEV 1256 (1630)
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhC------CHHHHHHH
Confidence            335556667888888888888888888775         357888888888888888888887662      56777777


Q ss_pred             HHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          327 FVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       327 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      ..+|...|++..|......     +..++..+..++..|.+.|.+++|+.+++..+.
T Consensus      1257 ~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~ 1308 (1630)
T 1xi4_A         1257 CFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALG 1308 (1630)
T ss_pred             HHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            7778788887777776553     233566777888888888888888888877763

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.73  E-value=9.8e-16  Score=123.11  Aligned_cols=202  Identities=11%  Similarity=0.088  Sum_probs=160.6

Q ss_pred             CChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 040367          178 PDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLM  257 (400)
Q Consensus       178 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  257 (400)
                      .....|..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHH
Confidence            355678888889999999999999999999864 5578889999999999999999999999998874 34678888999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHH
Q 040367          258 DGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVE  337 (400)
Q Consensus       258 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  337 (400)
                      ..+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|+++
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            99999999999999999998876 5678889999999999999999999999998864 336778888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Q 040367          338 RAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       338 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                      +|...++++.+.. +.+..++..+...+...|++++|.+.++++.+.
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 446888999999999999999999999999874

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.73  E-value=3.7e-16  Score=128.09  Aligned_cols=247  Identities=10%  Similarity=-0.045  Sum_probs=164.6

Q ss_pred             hcCCHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCC
Q 040367           99 AESRIMEAAALFTKLRVFGC---EPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDEN  175 (400)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  175 (400)
                      ..|++++|+..++++.+...   +.+..++..+...+...|++++|...|+++..                       ..
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~-----------------------~~   73 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALA-----------------------IR   73 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-----------------------HC
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHH-----------------------cC
Confidence            44677777777777776521   12456677777777777776666555555432                       21


Q ss_pred             CCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHH
Q 040367          176 INPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNT  255 (400)
Q Consensus       176 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  255 (400)
                       +.+..++..+..++...|++++|+..++++.+.. +.+...+..+..++...|++++|...++++.+..  |+......
T Consensus        74 -~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~  149 (275)
T 1xnf_A           74 -PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSL  149 (275)
T ss_dssp             -CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHH
T ss_pred             -CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHH
Confidence             3456777778888888888888888888887753 3456777788888888888888888888887753  33333344


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---chhhHHHHHHHHHh
Q 040367          256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKP---DVVIYNTLFVVLFE  332 (400)
Q Consensus       256 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~  332 (400)
                      .+..+...|++++|...+.+..... +++...+ .++..+...++.++|.+.++++.+.....   +...+..+...+..
T Consensus       150 ~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~  227 (275)
T 1xnf_A          150 WLYLAEQKLDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLS  227 (275)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHH
Confidence            4445566788888888887776654 3444444 36666777777888888888776642211   14667778888888


Q ss_pred             hCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHH
Q 040367          333 IHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELF  378 (400)
Q Consensus       333 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  378 (400)
                      .|++++|...|+++.+..  |+.  +.....++...|++++|++.+
T Consensus       228 ~g~~~~A~~~~~~al~~~--p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          228 LGDLDSATALFKLAVANN--VHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             TTCHHHHHHHHHHHHTTC--CTT--CHHHHHHHHHHHHHHHC----
T ss_pred             cCCHHHHHHHHHHHHhCC--chh--HHHHHHHHHHHHHHHhhHHHH
Confidence            888888888888888752  322  223355667778888877765

>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=4.9e-16  Score=134.97  Aligned_cols=302  Identities=12%  Similarity=0.058  Sum_probs=198.3

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCC-CC
Q 040367           51 DLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPN----AVTFTSLIKGLCAESRIMEAAALFTKLRVF----GCE-PN  121 (400)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~  121 (400)
                      ....+......+...|++++|...++++.+.... +    ...+..+...+...|++++|...+++....    +-. ..
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~   86 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGE   86 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHH
Confidence            3444555555566666666666666666554211 2    234555666666666666666666654432    111 12


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCC------
Q 040367          122 VFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYAND------  195 (400)
Q Consensus       122 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------  195 (400)
                      ..++..+...+...|++++|...+++.                +++.......  .....++..+...+...|+      
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~a----------------l~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~~~~  148 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRH----------------LDISRELNDK--VGEARALYNLGNVYHAKGKSFGCPG  148 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH----------------HHHHHHHTCH--HHHHHHHHHHHHHHHHHHHTCC---
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH----------------HHHHHhcccc--cchHHHHHHHHHHHHHcCCcccccc
Confidence            445667777777778877777765544                2222222110  1124467778888888888      


Q ss_pred             --------------HHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCC-CCC----HH
Q 040367          196 --------------WNEAKCLLIEMMDQ----GV-QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV-RPN----AF  251 (400)
Q Consensus       196 --------------~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~  251 (400)
                                    +++|...+++..+.    +. +....++..+...+...|++++|...+++..+... .++    ..
T Consensus       149 ~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  228 (406)
T 3sf4_A          149 PQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERR  228 (406)
T ss_dssp             ----CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHH
Confidence                          89999988886542    11 11234677888889999999999999998876411 111    23


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-CC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-Cchh
Q 040367          252 VYNTLMDGFCLTGRVNRAKELFVSMESMGCT-HT----VFSYSILINGYCKNKEIEGALSLYGEMLSK----GIK-PDVV  321 (400)
Q Consensus       252 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~  321 (400)
                      ++..+..+|...|++++|...+++..+.... ++    ..++..+...|...|++++|.+.++++.+.    +.. ....
T Consensus       229 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  308 (406)
T 3sf4_A          229 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGR  308 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHH
Confidence            6778888999999999999999988653211 11    456788889999999999999999988763    111 1145


Q ss_pred             hHHHHHHHHHhhCcHHHHHHHHHHHHHc----CC-CCCHHHHHHHHHHHHhcCcH
Q 040367          322 IYNTLFVVLFEIHQVERAFKLFDEMQRD----GV-AADTWTYRTFIDGLCKNSYI  371 (400)
Q Consensus       322 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~  371 (400)
                      ++..+...+...|++++|...+++..+.    +. .....++..+...+...|+.
T Consensus       309 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          309 ACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence            6778889999999999999999987753    21 11245666777777777765

>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=99.72  E-value=2e-13  Score=123.87  Aligned_cols=145  Identities=14%  Similarity=0.114  Sum_probs=107.9

Q ss_pred             hhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---hhhHHHHHHHHH
Q 040367            3 IFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGR---VSHGFVVLGRIL   79 (400)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~   79 (400)
                      .|++.+..+|.  |..+|..++..+.+.++++.+..+|+++... ++.....|...+..-.+.++   .+.+.++|++.+
T Consensus        54 ~lE~~l~~np~--d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal  130 (679)
T 4e6h_A           54 KLNDMIEEQPT--DIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCL  130 (679)
T ss_dssp             HHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHCcC--CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHH
Confidence            46777778877  9999999999999999999999999999887 46678889999988888888   999999999998


Q ss_pred             hcC-CCCChhhHHHHHHHHHhcCCH--------HHHHHHHHHHHHc-CC-CC-CHHHHHHHHHHHHh---------cCCh
Q 040367           80 RSC-FTPNAVTFTSLIKGLCAESRI--------MEAAALFTKLRVF-GC-EP-NVFTYNTLINGLYR---------TGHT  138 (400)
Q Consensus        80 ~~~-~~~~~~~~~~l~~~~~~~~~~--------~~a~~~~~~~~~~-~~-~~-~~~~~~~l~~~~~~---------~~~~  138 (400)
                      ... ..|++..|...+....+.++.        +.+.++|+..... |. .+ +...|...+.....         .++.
T Consensus       131 ~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~  210 (679)
T 4e6h_A          131 SKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRV  210 (679)
T ss_dssp             CSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHH
T ss_pred             HhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHH
Confidence            864 137888888887766655543        3344677765543 55 44 45677777765432         3345


Q ss_pred             HHHHHHHHHHHc
Q 040367          139 IVALNLFEEMAS  150 (400)
Q Consensus       139 ~~a~~~~~~~~~  150 (400)
                      +.+..+|++++.
T Consensus       211 ~~~R~iy~raL~  222 (679)
T 4e6h_A          211 QYIRKLYKTLLC  222 (679)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            667777777764

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.72  E-value=2e-15  Score=123.69  Aligned_cols=245  Identities=11%  Similarity=-0.011  Sum_probs=145.6

Q ss_pred             CChhhHHHHHHHHHhcCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 040367           66 GRVSHGFVVLGRILRSCF---TPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVAL  142 (400)
Q Consensus        66 ~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  142 (400)
                      |++++|+..++++.+...   +.+..++..+...+...|++++|...|+++.+.. +.+..++..+...+...|++++|+
T Consensus        19 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~   97 (275)
T 1xnf_A           19 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAY   97 (275)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             chHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHH
Confidence            455556666665555421   1123455555666666666666666666666553 335566666666666666655555


Q ss_pred             HHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 040367          143 NLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIM  222 (400)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  222 (400)
                      ..|+++...                       . +.+...+..+..++...|++++|...++++.+..  |+.......+
T Consensus        98 ~~~~~al~~-----------------------~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~  151 (275)
T 1xnf_A           98 EAFDSVLEL-----------------------D-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWL  151 (275)
T ss_dssp             HHHHHHHHH-----------------------C-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             HHHHHHHhc-----------------------C-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHH
Confidence            554443321                       1 2345667777777777777777777777777643  3333333344


Q ss_pred             HHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC---CChhhHHHHHHHHHhcC
Q 040367          223 DELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCT---HTVFSYSILINGYCKNK  299 (400)
Q Consensus       223 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~  299 (400)
                      ..+...|++++|...+.+..... +++...+ .++..+...++.++|...+.........   .+...+..+...|...|
T Consensus       152 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g  229 (275)
T 1xnf_A          152 YLAEQKLDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLG  229 (275)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHhcCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcC
Confidence            44456677888888887766653 2233333 3666666777777787777776543211   11466777888888888


Q ss_pred             CHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHH
Q 040367          300 EIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLF  343 (400)
Q Consensus       300 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  343 (400)
                      ++++|...++++.+..  |+.  +.....++...|++++|++.+
T Consensus       230 ~~~~A~~~~~~al~~~--p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          230 DLDSATALFKLAVANN--VHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             CHHHHHHHHHHHHTTC--CTT--CHHHHHHHHHHHHHHHC----
T ss_pred             CHHHHHHHHHHHHhCC--chh--HHHHHHHHHHHHHHHhhHHHH
Confidence            8888888888888753  322  233355666777877777665

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.71  E-value=7e-16  Score=134.29  Aligned_cols=277  Identities=14%  Similarity=0.080  Sum_probs=198.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHH
Q 040367           89 TFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNV----FTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKA  164 (400)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a  164 (400)
                      .+..+...+...|++++|...|+++.+.+ +.+.    .++..+...+...|++++|...+++.                
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~a----------------  112 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHD----------------  112 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH----------------
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHH----------------
Confidence            34455667777888888888888887764 2233    46777888888888888887776554                


Q ss_pred             HHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----C-CCCCHHHHHHHHHHHHhCCC---------
Q 040367          165 KELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ----G-VQPNVVTFNVIMDELCKNGK---------  230 (400)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~---------  230 (400)
                      +++.+....  .+....++..+...+...|++++|...+++..+.    + .+....++..+...+...|+         
T Consensus       113 l~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~  190 (411)
T 4a1s_A          113 LTLAKSMND--RLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGK  190 (411)
T ss_dssp             HHHHHHTTC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHccC--chHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchh
Confidence            222222211  1224567788888999999999999999887653    1 12234567788888888999         


Q ss_pred             --------hHHHHHHHHHHHHc----CC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-CC----hhhHHHHH
Q 040367          231 --------MDEASRLLDLMIQI----GV-RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCT-HT----VFSYSILI  292 (400)
Q Consensus       231 --------~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~  292 (400)
                              +++|...+++..+.    +. .....++..+...|...|++++|...+++..+.... ++    ...+..+.
T Consensus       191 ~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  270 (411)
T 4a1s_A          191 FGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLG  270 (411)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHH
Confidence                    89998888877653    11 112346777888899999999999999988654211 11    23678888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCC--C---CchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc----CC-CCCHHHHHHHH
Q 040367          293 NGYCKNKEIEGALSLYGEMLSKGI--K---PDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD----GV-AADTWTYRTFI  362 (400)
Q Consensus       293 ~~~~~~~~~~~a~~~~~~~~~~~~--~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~  362 (400)
                      ..|...|++++|.+.++++.+...  .   ....++..+...+...|++++|...++++.+.    +. .....++..+.
T Consensus       271 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  350 (411)
T 4a1s_A          271 NSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLG  350 (411)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHH
Confidence            999999999999999988876411  0   11456778888999999999999999988754    11 11245778888


Q ss_pred             HHHHhcCcHHHHHHHHHHHHHh
Q 040367          363 DGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       363 ~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                      ..|.+.|++++|.+.+++..+.
T Consensus       351 ~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          351 NAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHH
Confidence            9999999999999999998754

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.71  E-value=1.9e-15  Score=131.17  Aligned_cols=281  Identities=14%  Similarity=0.071  Sum_probs=212.5

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCccc
Q 040367           84 TPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPN----VFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEG  159 (400)
Q Consensus        84 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  159 (400)
                      ......+......+...|++++|...|++..+.+ +.+    ..++..+...+...|++++|...+++.           
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a-----------   73 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHD-----------   73 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH-----------
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHH-----------
Confidence            3455566778888999999999999999999874 333    357888999999999999998886664           


Q ss_pred             chHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC----C-CCCHHHHHHHHHHHHhCCC----
Q 040367          160 FVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQG----V-QPNVVTFNVIMDELCKNGK----  230 (400)
Q Consensus       160 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~l~~~~~~~~~----  230 (400)
                           +.+......  .+....++..+...+...|++++|...+++..+..    . .....++..+...+...|+    
T Consensus        74 -----l~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~  146 (406)
T 3sf4_A           74 -----LTLARTIGD--QLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGC  146 (406)
T ss_dssp             -----HHHHHHTTC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-
T ss_pred             -----HHHHHhccc--cHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccc
Confidence                 233322211  11235578888899999999999999999887531    0 1114477888889999999    


Q ss_pred             ----------------hHHHHHHHHHHHHc----CCC-CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCC----
Q 040367          231 ----------------MDEASRLLDLMIQI----GVR-PNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGC-THT----  284 (400)
Q Consensus       231 ----------------~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----  284 (400)
                                      +++|...+.+..+.    +.. ....++..+...+...|++++|...+++..+... .++    
T Consensus       147 ~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  226 (406)
T 3sf4_A          147 PGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAE  226 (406)
T ss_dssp             ------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHH
Confidence                            99999999887653    111 1235677888999999999999999999875321 111    


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-chhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCC-CCC----
Q 040367          285 VFSYSILINGYCKNKEIEGALSLYGEMLSK----GIKP-DVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGV-AAD----  354 (400)
Q Consensus       285 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----  354 (400)
                      ...+..+...+...|++++|...+++..+.    +..+ ...++..+...+...|++++|...++++.+... .++    
T Consensus       227 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~  306 (406)
T 3sf4_A          227 RRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGE  306 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHH
Confidence            237888899999999999999999988753    1111 145778888999999999999999999876411 112    


Q ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          355 TWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       355 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      ..++..+...|...|++++|.+.+++..+
T Consensus       307 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          307 GRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            56788899999999999999999999874

>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=99.71  E-value=3e-14  Score=115.13  Aligned_cols=202  Identities=15%  Similarity=0.005  Sum_probs=108.2

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 040367           52 LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLING  131 (400)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  131 (400)
                      ...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            3445566666666666666666666666553 2345556666666666666666666666666553 3345555556666


Q ss_pred             HHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 040367          132 LYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGV  211 (400)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  211 (400)
                      +...|++++|...++++...+                     . .+.+...+..+..++...|++++|...++++.+.. 
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~---------------------~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-  171 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDT---------------------L-YPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-  171 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCT---------------------T-CTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHhHHHHHHHHHHHHHhCc---------------------c-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-
Confidence            666666444444444332200                     0 01233445555555555666666666665555442 


Q ss_pred             CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 040367          212 QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESM  279 (400)
Q Consensus       212 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  279 (400)
                      +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.
T Consensus       172 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          172 RNQPSVALEMADLLYKEREYVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            2334455555555555555555555555555432 223444445555555555555555555555544

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.71  E-value=3e-15  Score=120.22  Aligned_cols=201  Identities=14%  Similarity=0.099  Sum_probs=106.8

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      +..+|..+...+.+.|++++|+..|+++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            34456666666677777777777777776653 3356666666667777777777777777666653 235556666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCC
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDEN  175 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  175 (400)
                      .+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++..                       ..
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~-----------------------~~  155 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVE-----------------------LN  155 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHH-----------------------HC
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHH-----------------------hC
Confidence            6666677777777666666553 34555666666666666665544444444322                       11


Q ss_pred             CCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHc
Q 040367          176 INPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQI  244 (400)
Q Consensus       176 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  244 (400)
                       +.+...+..+..++...|++++|...++++.+.. +.+..++..+..++...|++++|...++++.+.
T Consensus       156 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          156 -ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             -CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence             2244455555666666666666666666655542 334555555555666666666666666665554

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.71  E-value=1.8e-15  Score=131.71  Aligned_cols=278  Identities=13%  Similarity=0.038  Sum_probs=211.4

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCCh----hhHHHHHHHHHhcCCHHHHHHHHHHHHHc----C-CCCCHH
Q 040367           53 YTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNA----VTFTSLIKGLCAESRIMEAAALFTKLRVF----G-CEPNVF  123 (400)
Q Consensus        53 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~  123 (400)
                      ..+..+...+...|++++|+..++++.+.+.. +.    ..+..+...+...|++++|...+++..+.    + .+....
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            34556777889999999999999999987422 33    46888889999999999999999987654    1 123456


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCC--------
Q 040367          124 TYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYAND--------  195 (400)
Q Consensus       124 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--------  195 (400)
                      ++..+...+...|++++|...+++.                +++......  .+....++..+...+...|+        
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~a----------------l~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~~~~~~  189 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERH----------------LTLARQLGD--RLSEGRALYNLGNVYHAKGKHLGQRNPG  189 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH----------------HHHHHHHTC--HHHHHHHHHHHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHH----------------HHHHHHhhc--hHHHHHHHHHHHHHHHHcCcccccccch
Confidence            7888999999999999999886654                333333221  12235578888899999999        


Q ss_pred             ---------HHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC-CC----HHhHHHH
Q 040367          196 ---------WNEAKCLLIEMMDQ----GV-QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVR-PN----AFVYNTL  256 (400)
Q Consensus       196 ---------~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l  256 (400)
                               +++|++.+++..+.    +. +....++..+...+...|++++|...+++..+.... .+    ..++..+
T Consensus       190 ~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  269 (411)
T 4a1s_A          190 KFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNL  269 (411)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHH
Confidence                     99999999887642    11 122357788888999999999999999998764211 11    2367888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCC-----CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-----CCCchhhHHHH
Q 040367          257 MDGFCLTGRVNRAKELFVSMESMGCT-----HTVFSYSILINGYCKNKEIEGALSLYGEMLSKG-----IKPDVVIYNTL  326 (400)
Q Consensus       257 ~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l  326 (400)
                      ..+|...|++++|...+++..+....     ....++..+...+...|++++|.+.+++..+..     ......++..+
T Consensus       270 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  349 (411)
T 4a1s_A          270 GNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSL  349 (411)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            99999999999999999988764211     124677889999999999999999999887641     11123477788


Q ss_pred             HHHHHhhCcHHHHHHHHHHHHHc
Q 040367          327 FVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       327 ~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      ...+...|++++|...++++.+.
T Consensus       350 a~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          350 GNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHH
Confidence            89999999999999999998875

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.70  E-value=3e-14  Score=112.83  Aligned_cols=205  Identities=9%  Similarity=-0.023  Sum_probs=171.8

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHH
Q 040367          119 EPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNE  198 (400)
Q Consensus       119 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  198 (400)
                      +.+...+..+...+...|++++|...++++..                       .. +.+...+..+..++...|++++
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~-----------------------~~-~~~~~~~~~l~~~~~~~~~~~~   60 (225)
T 2vq2_A            5 NQVSNIKTQLAMEYMRGQDYRQATASIEDALK-----------------------SD-PKNELAWLVRAEIYQYLKVNDK   60 (225)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-----------------------HC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHH-----------------------hC-ccchHHHHHHHHHHHHcCChHH
Confidence            33577888899999999997777776666533                       21 3457788999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhC-CChHHHHHHHHHHHHcCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 040367          199 AKCLLIEMMDQGVQPNVVTFNVIMDELCKN-GKMDEASRLLDLMIQIGVRP-NAFVYNTLMDGFCLTGRVNRAKELFVSM  276 (400)
Q Consensus       199 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~  276 (400)
                      |.+.++++.+.. +.+..++..+...+... |++++|...++++.+.+..| +...+..+..++...|++++|...++++
T Consensus        61 A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  139 (225)
T 2vq2_A           61 AQESFRQALSIK-PDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRS  139 (225)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999998864 45788899999999999 99999999999999832233 3677888999999999999999999999


Q ss_pred             HhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          277 ESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       277 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      .+.. +.+...+..+...+...|++++|.+.++++.+.....+...+..+...+...|+.+.|..+++.+.+.
T Consensus       140 ~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          140 LAAQ-PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            8875 55688899999999999999999999999988653246777788888889999999999999998865

>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=99.70  E-value=4.1e-13  Score=126.77  Aligned_cols=312  Identities=12%  Similarity=0.086  Sum_probs=192.9

Q ss_pred             ccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 040367           29 KNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAA  108 (400)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  108 (400)
                      ..+++++|.++.++.      -+..+|..+..++...|++++|.+.|.+.      .|...|..++.++.+.|++++|.+
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            455666666666544      13556666666666666666666666443      255556666666666666666666


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH-----HHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhH
Q 040367          109 LFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEE-----MASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTY  183 (400)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  183 (400)
                      .+...++..  +++.....++.+|++.++++....+.+.     ....+..+...|++++|...|...         ..|
T Consensus      1156 yL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI~~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny 1224 (1630)
T 1xi4_A         1156 YLQMARKKA--RESYVETELIFALAKTNRLAELEEFINGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNF 1224 (1630)
T ss_pred             HHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHHhCCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHH
Confidence            666655542  2222233466666666665533222210     000111112255566666666653         367


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhc
Q 040367          184 TSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLT  263 (400)
Q Consensus       184 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  263 (400)
                      ..+..++.+.|++++|++.+++.      .+..+|..+..+|...|++..|......+     ..++..+..++..|.+.
T Consensus      1225 ~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~ 1293 (1630)
T 1xi4_A         1225 GRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDR 1293 (1630)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHc
Confidence            88888888888888888888776      25577888888888888888887766542     23556677888888888


Q ss_pred             CCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCCC------chhhHHHHHHHHHhhCc
Q 040367          264 GRVNRAKELFVSMESMGCTHTVFSYSILINGYCKN--KEIEGALSLYGEMLSKGIKP------DVVIYNTLFVVLFEIHQ  335 (400)
Q Consensus       264 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~  335 (400)
                      |.+++|+.+++...... +.....|+.+...|++.  ++..++.+.|..-..  +++      +...|.-+...|.+.|+
T Consensus      1294 G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~peklmEhlk~f~~rin--i~k~~r~~e~~~lW~elv~LY~~~~e 1370 (1630)
T 1xi4_A         1294 GYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRVN--IPKVLRAAEQAHLWAELVFLYDKYEE 1370 (1630)
T ss_pred             CCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc--cchHhHHHHHHHHHHHHHHHHHhccc
Confidence            99999999998887665 45566777777777664  234444444443222  222      45678888888888888


Q ss_pred             HHHHHHHH-------------HHHHHcCCCCCHHHHHHHHHHHHhcC---------------cHHHHHHHHH
Q 040367          336 VERAFKLF-------------DEMQRDGVAADTWTYRTFIDGLCKNS---------------YIVEAVELFR  379 (400)
Q Consensus       336 ~~~a~~~~-------------~~~~~~~~~~~~~~~~~l~~~~~~~g---------------~~~~a~~~~~  379 (400)
                      ++.|....             +..+.  ...+...|...+..|...+               +++++.++|+
T Consensus      1371 ~dnA~~tm~~h~~~a~~~~~Fk~~i~--kv~n~elyykai~Fyl~~~P~~lndLl~~l~~rlD~~R~V~l~~ 1440 (1630)
T 1xi4_A         1371 YDNAIITMMNHPTDAWKEGQFKDIIT--KVANVELYYRAIQFYLEFKPLLLNDLLMVLSPRLDHTRAVNYFS 1440 (1630)
T ss_pred             HHHHHHHHHhccHhhhhhHHHHHHhc--ccccHHHHHHHHHHHHhhChHHHHHHHHHhhhcCChHHHHHHHH
Confidence            88887322             22111  2346777777777766655               6666666655

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.70  E-value=3.3e-15  Score=126.13  Aligned_cols=277  Identities=14%  Similarity=0.077  Sum_probs=197.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHH
Q 040367           89 TFTSLIKGLCAESRIMEAAALFTKLRVFGCEPN----VFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKA  164 (400)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a  164 (400)
                      .+......+...|++++|...|+++.+.. +.+    ...+..+...+...|++++|...+++.                
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a----------------   69 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHD----------------   69 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH----------------
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH----------------
Confidence            34445566777788888888888877763 223    356777788888888888877776554                


Q ss_pred             HHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhCCC---------
Q 040367          165 KELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGV-QPN----VVTFNVIMDELCKNGK---------  230 (400)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~---------  230 (400)
                      +++......  .+....++..+...+...|++++|...+++..+... .++    ..++..+...+...|+         
T Consensus        70 l~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  147 (338)
T 3ro2_A           70 LTLARTIGD--QLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQD  147 (338)
T ss_dssp             HHHHHHHTC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC-
T ss_pred             HHHhhcccc--cHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhh
Confidence            222222211  112355778888899999999999999988765310 112    3467778888888899         


Q ss_pred             -----------hHHHHHHHHHHHHc----CCC-CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-C----ChhhHH
Q 040367          231 -----------MDEASRLLDLMIQI----GVR-PNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCT-H----TVFSYS  289 (400)
Q Consensus       231 -----------~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~  289 (400)
                                 +++|...+++....    +.. ....++..+...+...|++++|...+++..+.... +    ....+.
T Consensus       148 ~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  227 (338)
T 3ro2_A          148 TGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYS  227 (338)
T ss_dssp             ---CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHH
Confidence                       89999888877543    111 12346777888999999999999999988653100 1    123678


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCC----CCC-chhhHHHHHHHHHhhCcHHHHHHHHHHHHHc----CC-CCCHHHHH
Q 040367          290 ILINGYCKNKEIEGALSLYGEMLSKG----IKP-DVVIYNTLFVVLFEIHQVERAFKLFDEMQRD----GV-AADTWTYR  359 (400)
Q Consensus       290 ~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~  359 (400)
                      .+...+...|++++|.+.+++..+..    ..+ ...++..+...+...|++++|...++++.+.    +. .....++.
T Consensus       228 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  307 (338)
T 3ro2_A          228 NLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACW  307 (338)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHH
Confidence            88899999999999999999887531    111 1456778888999999999999999988754    11 11245777


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHh
Q 040367          360 TFIDGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       360 ~l~~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                      .+...|.+.|++++|.+.+++..+.
T Consensus       308 ~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          308 SLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHH
Confidence            8999999999999999999999863

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.69  E-value=4.1e-15  Score=125.53  Aligned_cols=275  Identities=13%  Similarity=0.071  Sum_probs=182.6

Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhcCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCC-CCHHHHH
Q 040367           56 NILINCFCKMGRVSHGFVVLGRILRSCFTPN----AVTFTSLIKGLCAESRIMEAAALFTKLRVF----GCE-PNVFTYN  126 (400)
Q Consensus        56 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~  126 (400)
                      ......+...|++++|...++++.+.... +    ...+..+...+...|++++|.+.+++....    +.. ....++.
T Consensus         9 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   87 (338)
T 3ro2_A            9 ALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASG   87 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHH
Confidence            33445555666666666666666554211 2    244555666666666666666666654432    111 1245666


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCC-----------
Q 040367          127 TLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYAND-----------  195 (400)
Q Consensus       127 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-----------  195 (400)
                      .+...+...|++++|...+++..                ++......  ......++..+...+...|+           
T Consensus        88 ~l~~~~~~~g~~~~A~~~~~~al----------------~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~  149 (338)
T 3ro2_A           88 NLGNTLKVLGNFDEAIVCCQRHL----------------DISRELND--KVGEARALYNLGNVYHAKGKSFGCPGPQDTG  149 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH----------------HHHHHTTC--HHHHHHHHHHHHHHHHHHHHTSSSSSCC---
T ss_pred             HHHHHHHHccCHHHHHHHHHHHH----------------HHHHHhcC--chHHHHHHHHHHHHHHHcCcccccchhhhhh
Confidence            77777777888777777655542                22222110  01123467777888888888           


Q ss_pred             ---------HHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCC-----CCCHHhHHHH
Q 040367          196 ---------WNEAKCLLIEMMDQ----GV-QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV-----RPNAFVYNTL  256 (400)
Q Consensus       196 ---------~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l  256 (400)
                               +++|...+++....    +. +.....+..+...+...|++++|...+++..+...     .....++..+
T Consensus       150 ~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  229 (338)
T 3ro2_A          150 EFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNL  229 (338)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHH
Confidence                     88998888876542    11 11234677788889999999999999998876411     1112367788


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCC-CC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC----C-CCchhhHHHH
Q 040367          257 MDGFCLTGRVNRAKELFVSMESMGCT-HT----VFSYSILINGYCKNKEIEGALSLYGEMLSKG----I-KPDVVIYNTL  326 (400)
Q Consensus       257 ~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~l  326 (400)
                      ...+...|++++|...+++..+.... .+    ..++..+...+...|++++|...++++.+..    . .....++..+
T Consensus       230 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  309 (338)
T 3ro2_A          230 GNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSL  309 (338)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHH
Confidence            88999999999999999988653211 11    4567888899999999999999999887641    1 1113467788


Q ss_pred             HHHHHhhCcHHHHHHHHHHHHHc
Q 040367          327 FVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       327 ~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      ...+...|++++|...++++.+.
T Consensus       310 a~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          310 GNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCChHHHHHHHHHHHHH
Confidence            89999999999999999998875

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.68  E-value=1.5e-14  Score=127.66  Aligned_cols=215  Identities=15%  Similarity=0.018  Sum_probs=186.7

Q ss_pred             hHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCH-HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHH
Q 040367          161 VDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDW-NEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLD  239 (400)
Q Consensus       161 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  239 (400)
                      +++++..++...... +.+...+..+..++...|++ ++|++.|++..+.. +.+...|..+..+|...|++++|...|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            567777777766553 45788899999999999999 99999999999874 4568899999999999999999999999


Q ss_pred             HHHHcCCCCCHHhHHHHHHHHHhc---------CCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc--------CCHH
Q 040367          240 LMIQIGVRPNAFVYNTLMDGFCLT---------GRVNRAKELFVSMESMGCTHTVFSYSILINGYCKN--------KEIE  302 (400)
Q Consensus       240 ~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~  302 (400)
                      ++.+.  .|+...+..+..++...         |++++|...++++.+.. +.+...|..+..+|...        |+++
T Consensus       162 ~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            99986  46678899999999999         99999999999999886 56788999999999998        9999


Q ss_pred             HHHHHHHHHHhCCCC--CchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHH
Q 040367          303 GALSLYGEMLSKGIK--PDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRT  380 (400)
Q Consensus       303 ~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  380 (400)
                      +|.+.|+++.+....  .+...|..+..++...|++++|.+.|+++.+.. +.+...+..+...+...|++++|++.+.+
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            999999999986421  377889999999999999999999999999863 34677889999999999999999986655


Q ss_pred             H
Q 040367          381 L  381 (400)
Q Consensus       381 ~  381 (400)
                      +
T Consensus       318 ~  318 (474)
T 4abn_A          318 T  318 (474)
T ss_dssp             C
T ss_pred             c
Confidence            4

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.68  E-value=1.9e-14  Score=123.86  Aligned_cols=300  Identities=10%  Similarity=0.019  Sum_probs=180.8

Q ss_pred             HhccCChhHHHHHHHHHHhC--CCCCCHH--HHHHHHHH--HHhcCChhhHH-----------HHHHHHHhcCCCCChhh
Q 040367           27 LAKNKHYDTVLSLFKRLNST--GLFPDLY--TYNILINC--FCKMGRVSHGF-----------VVLGRILRSCFTPNAVT   89 (400)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~~~--~~~~~~~--~~~~l~~~--~~~~~~~~~a~-----------~~~~~~~~~~~~~~~~~   89 (400)
                      +.+.+++++|..+++++.+.  .+..+..  .|-.++..  ....++.+.+.           +.++.+....  .+...
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~--~~~~~   99 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQ--ARLTG   99 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHT--HHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcC--CCchh
Confidence            46789999999999998654  2323433  33333322  22334444444           6677665431  12222


Q ss_pred             ------HHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcc
Q 040367           90 ------FTSLIKGLCAESRIMEAAALFTKLRVF----GCEP-NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVE  158 (400)
Q Consensus        90 ------~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  158 (400)
                            +......+...|++++|...+++..+.    +-++ ...++..+...+...|+++.|+..+++.          
T Consensus       100 ~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~a----------  169 (383)
T 3ulq_A          100 LLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQA----------  169 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH----------
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH----------
Confidence                  223566788999999999999998764    1111 3567889999999999999998886554          


Q ss_pred             cchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhCCChHH
Q 040367          159 GFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGV-QPN----VVTFNVIMDELCKNGKMDE  233 (400)
Q Consensus       159 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~  233 (400)
                            ++++...... .+....+++.+..+|...|++++|+..+++..+... .++    ..++..+..+|...|++++
T Consensus       170 ------l~~~~~~~~~-~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~  242 (383)
T 3ulq_A          170 ------YEIYKEHEAY-NIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYED  242 (383)
T ss_dssp             ------HHHHHTCSTT-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             ------HHHHHhCccc-hHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHH
Confidence                  3343332110 011245788888899999999999999988775310 011    2366677777888888888


Q ss_pred             HHHHHHHHHHc----CC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcC----CCCChhhHHHHHHHHHhcCC---H
Q 040367          234 ASRLLDLMIQI----GV-RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMG----CTHTVFSYSILINGYCKNKE---I  301 (400)
Q Consensus       234 a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~---~  301 (400)
                      |...+++..+.    +. +....++..+..+|...|++++|...+++..+..    -+.....+..+...+...|+   +
T Consensus       243 A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  322 (383)
T 3ulq_A          243 AIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAI  322 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHH
T ss_pred             HHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHH
Confidence            88888777662    22 2234556667777777777777777777665421    01111223445555555555   4


Q ss_pred             HHHHHHHHHHHhCCCCC-chhhHHHHHHHHHhhCcHHHHHHHHHHHHH
Q 040367          302 EGALSLYGEMLSKGIKP-DVVIYNTLFVVLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       302 ~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  348 (400)
                      ++|+.++++.   +..| ....+..+...+...|++++|...++++.+
T Consensus       323 ~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          323 QGFFDFLESK---MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHC---cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4444444433   1111 122344455555556666666665555543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.68  E-value=4.4e-14  Score=108.16  Aligned_cols=173  Identities=16%  Similarity=0.101  Sum_probs=103.9

Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367          214 NVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILIN  293 (400)
Q Consensus       214 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  293 (400)
                      ++.+|..+...+...|++++|...|+++++.. +.+..++..+..+|...|++++|...+....... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            44555566666666666666666666665543 2245555566666666666666666666665554 334555555566


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHH
Q 040367          294 GYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVE  373 (400)
Q Consensus       294 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  373 (400)
                      .+...++++.+.+.+.+..+... .+...+..+..++...|++++|++.|+++.+.. +.+...|..+..+|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~-~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNT-VYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            66666666666666666665432 245556666666666666666666666666642 2356666666666777777777


Q ss_pred             HHHHHHHHHHhcccchhHH
Q 040367          374 AVELFRTLRILKCELDIRA  392 (400)
Q Consensus       374 a~~~~~~~~~~~~~p~~~~  392 (400)
                      |++.|++.++  +.|+...
T Consensus       160 A~~~~~~al~--~~p~~a~  176 (184)
T 3vtx_A          160 AVKYFKKALE--KEEKKAK  176 (184)
T ss_dssp             HHHHHHHHHH--TTHHHHH
T ss_pred             HHHHHHHHHh--CCccCHH
Confidence            7777776665  3454433

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.67  E-value=5.1e-14  Score=121.21  Aligned_cols=298  Identities=7%  Similarity=-0.050  Sum_probs=207.9

Q ss_pred             HHhcCChhhHHHHHHHHHhc--CCCCCh--hhHHHHHHH--HHhcCCHHHHH-----------HHHHHHHHcCCCCCHH-
Q 040367           62 FCKMGRVSHGFVVLGRILRS--CFTPNA--VTFTSLIKG--LCAESRIMEAA-----------ALFTKLRVFGCEPNVF-  123 (400)
Q Consensus        62 ~~~~~~~~~a~~~~~~~~~~--~~~~~~--~~~~~l~~~--~~~~~~~~~a~-----------~~~~~~~~~~~~~~~~-  123 (400)
                      +.+.+++++|..+++++.+.  ....+.  ..|-.++..  ....+.++.+.           +.++.+....  .+.. 
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~--~~~~~   99 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQ--ARLTG   99 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHT--HHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcC--CCchh
Confidence            46789999999999998764  222333  333333322  22234444444           6666665432  2222 


Q ss_pred             -----HHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCC-ChHhHHHHHHHHHhcCCHH
Q 040367          124 -----TYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINP-DVVTYTSVIRGFCYANDWN  197 (400)
Q Consensus       124 -----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  197 (400)
                           .+......+...|++++|+..+++.....                   ...+-++ ...++..+..++...|+++
T Consensus       100 ~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-------------------~~~~~~~~~a~~~~~lg~~~~~~~~~~  160 (383)
T 3ulq_A          100 LLEYYFNFFRGMYELDQREYLSAIKFFKKAESKL-------------------IFVKDRIEKAEFFFKMSESYYYMKQTY  160 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTG-------------------GGCCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH-------------------hhCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence                 22236677788899888888777664421                   0111011 3467888999999999999


Q ss_pred             HHHHHHHHHHhCC--C----CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC-CC----HHhHHHHHHHHHhcCCH
Q 040367          198 EAKCLLIEMMDQG--V----QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVR-PN----AFVYNTLMDGFCLTGRV  266 (400)
Q Consensus       198 ~a~~~~~~~~~~~--~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~  266 (400)
                      +|+..+++..+.-  .    +....++..+..+|...|++++|...++++.+.... ++    ..++..+..+|...|++
T Consensus       161 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~  240 (383)
T 3ulq_A          161 FSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQY  240 (383)
T ss_dssp             HHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCH
Confidence            9999999987531  1    112457888889999999999999999998764111 11    24778899999999999


Q ss_pred             HHHHHHHHHHHhc----CC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCchhhHHHHHHHHHhhCc--
Q 040367          267 NRAKELFVSMESM----GC-THTVFSYSILINGYCKNKEIEGALSLYGEMLSK----GIKPDVVIYNTLFVVLFEIHQ--  335 (400)
Q Consensus       267 ~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~--  335 (400)
                      ++|...+++..+.    +. +....++..+...+...|++++|.+.+++..+.    +-+.....+..+...+...|+  
T Consensus       241 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  320 (383)
T 3ulq_A          241 EDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEE  320 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHH
T ss_pred             HHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHH
Confidence            9999999998772    22 334667889999999999999999999988764    111122335667788888898  


Q ss_pred             -HHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          336 -VERAFKLFDEMQRDGVAA-DTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       336 -~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                       +++|+.++++.   +..| ....+..+...|...|++++|.+.+++..+
T Consensus       321 ~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          321 AIQGFFDFLESK---MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHC---cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             77777777665   2222 355677899999999999999999999975

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.66  E-value=1.7e-13  Score=114.13  Aligned_cols=218  Identities=10%  Similarity=0.021  Sum_probs=175.8

Q ss_pred             HHHHHHHHHHHhCCCCCChHhHHHHHHHHHh-------cCCH-------HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 040367          162 DKAKELFLQMKDENINPDVVTYTSVIRGFCY-------ANDW-------NEAKCLLIEMMDQGVQPNVVTFNVIMDELCK  227 (400)
Q Consensus       162 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  227 (400)
                      ++|...|++..... |.+...|..++..+..       .|++       ++|..+|++.++.-.+.+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            56666777766643 5577788888877753       5886       8999999999983124466789999999999


Q ss_pred             CCChHHHHHHHHHHHHcCCCCC-HH-hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH-hcCCHHHH
Q 040367          228 NGKMDEASRLLDLMIQIGVRPN-AF-VYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYC-KNKEIEGA  304 (400)
Q Consensus       228 ~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a  304 (400)
                      .|++++|..+|+++++.  .|+ .. ++..++..+.+.|++++|..+|++..+.. +.+...|...+.... ..|++++|
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999985  343 43 78899999999999999999999999875 445555554443322 36999999


Q ss_pred             HHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcC-CCC--CHHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 040367          305 LSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDG-VAA--DTWTYRTFIDGLCKNSYIVEAVELFRTL  381 (400)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~  381 (400)
                      .++|+++++... .+...|..++..+.+.|++++|..+|+++.+.. ++|  ....|..++....+.|+.+.|..+++++
T Consensus       189 ~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          189 FKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999988643 367888999999999999999999999999863 344  4778899999999999999999999999


Q ss_pred             HHh
Q 040367          382 RIL  384 (400)
Q Consensus       382 ~~~  384 (400)
                      .+.
T Consensus       268 ~~~  270 (308)
T 2ond_A          268 FTA  270 (308)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            874

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.66  E-value=1.2e-13  Score=121.18  Aligned_cols=307  Identities=9%  Similarity=-0.038  Sum_probs=207.2

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH---HHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 040367           57 ILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRI---MEAAALFTKLRVFGCEPNVFTYNTLINGLY  133 (400)
Q Consensus        57 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  133 (400)
                      .+...+.+.|++++|.++|++..+.|   +...+..+...|...|+.   ++|...|++..+.    ++..+..+...+.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            35677788999999999999998875   344555666777778888   8999999998853    6667777777666


Q ss_pred             hcC-----ChHHHHHHHHHHHcCCCCCCc---------ccc---hHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCH
Q 040367          134 RTG-----HTIVALNLFEEMASGNGEFGV---------EGF---VDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDW  196 (400)
Q Consensus       134 ~~~-----~~~~a~~~~~~~~~~~~~~~~---------~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  196 (400)
                      ..+     ++++|+.+|++....+.....         .+.   -..+.+.+......+   +...+..+...|...+.+
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~  157 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTY  157 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCG
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCc
Confidence            665     778999999999886654322         111   134555555555544   345667778888888866


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC---ChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhc----CCHHHH
Q 040367          197 NEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNG---KMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLT----GRVNRA  269 (400)
Q Consensus       197 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a  269 (400)
                      +++......+.+.-...++..+..+...|...|   +.++|...|++..+.|. ++...+..+...|...    +++++|
T Consensus       158 ~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~~A  236 (452)
T 3e4b_A          158 DQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEKTA  236 (452)
T ss_dssp             GGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHHHH
Confidence            555555333332211223337888888899999   99999999999999863 4555556677777655    799999


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHH-H--HhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhC-----cHHHHHH
Q 040367          270 KELFVSMESMGCTHTVFSYSILING-Y--CKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIH-----QVERAFK  341 (400)
Q Consensus       270 ~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~  341 (400)
                      ...|++.. .   -++..+..|... +  ...+++++|.++|++..+.|   +...+..+...|. .|     ++++|..
T Consensus       237 ~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~  308 (452)
T 3e4b_A          237 QALLEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEA  308 (452)
T ss_dssp             HHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHH
T ss_pred             HHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHH
Confidence            99999988 3   466677777777 4  56899999999999999887   6677777887776 56     9999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHh----cCcHHHHHHHHHHHHHhcc
Q 040367          342 LFDEMQRDGVAADTWTYRTFIDGLCK----NSYIVEAVELFRTLRILKC  386 (400)
Q Consensus       342 ~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  386 (400)
                      +|++.. .   .+......|...|..    ..++++|.++|++..+.|.
T Consensus       309 ~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  353 (452)
T 3e4b_A          309 HFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ  353 (452)
T ss_dssp             HHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh
Confidence            999887 3   367777888877766    3499999999999988764

>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=99.65  E-value=5.2e-12  Score=114.66  Aligned_cols=385  Identities=11%  Similarity=0.006  Sum_probs=262.9

Q ss_pred             chhHHHHhcCCCCCChhhHHHHHHHHhccCC---hhHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCh--------h
Q 040367            2 CIFDYMLNMRPSPPPVCSFNILFGCLAKNKH---YDTVLSLFKRLNSTG-LFPDLYTYNILINCFCKMGRV--------S   69 (400)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~--------~   69 (400)
                      .+|++++...|.  +...|...+..-.+.++   ++.+..+|++..... .+|++..|...+......++.        +
T Consensus        87 ~vyEraL~~fP~--~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~  164 (679)
T 4e6h_A           87 ETFDKLHDRFPL--MANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARN  164 (679)
T ss_dssp             HHHHHHHHHCTT--CHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHH
T ss_pred             HHHHHHHHHCCC--CHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHH
Confidence            368888888877  88889999999999999   999999999998863 148999998888776665543        3


Q ss_pred             hHHHHHHHHHhc-CC-CC-ChhhHHHHHHHHH---------hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc--
Q 040367           70 HGFVVLGRILRS-CF-TP-NAVTFTSLIKGLC---------AESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRT--  135 (400)
Q Consensus        70 ~a~~~~~~~~~~-~~-~~-~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--  135 (400)
                      ...++|+.++.. |. .+ +...|...+....         ..++++.+..+|++.+......-..+|......-...  
T Consensus       165 ~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~  244 (679)
T 4e6h_A          165 IVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQ  244 (679)
T ss_dssp             HHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCc
Confidence            345788877653 54 44 4568888777544         2446788999999988532111233443222211111  


Q ss_pred             -----------CChHHHHHHHHHHHcCC-------CC----------C--C--c----------------c-------cc
Q 040367          136 -----------GHTIVALNLFEEMASGN-------GE----------F--G--V----------------E-------GF  160 (400)
Q Consensus       136 -----------~~~~~a~~~~~~~~~~~-------~~----------~--~--~----------------~-------~~  160 (400)
                                 .++..|...+.++....       +.          +  .  .                .       ..
T Consensus       245 ~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~  324 (679)
T 4e6h_A          245 LTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLH  324 (679)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHH
T ss_pred             chHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhh
Confidence                       12233344444321100       00          0  0  0                0       01


Q ss_pred             hHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHH-HHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHH
Q 040367          161 VDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAK-CLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLD  239 (400)
Q Consensus       161 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  239 (400)
                      .+++..+|++.... .+-....|...+..+...|+.++|. .+|++.... .+.+...|...+....+.|+++.|.++|+
T Consensus       325 ~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iye  402 (679)
T 4e6h_A          325 KARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTIL  402 (679)
T ss_dssp             HHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            23345567766654 2456778888888888889999997 999999875 45567777788888889999999999999


Q ss_pred             HHHHcCC---------CC------------CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 040367          240 LMIQIGV---------RP------------NAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKN  298 (400)
Q Consensus       240 ~~~~~~~---------~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  298 (400)
                      ++.....         .|            ...+|...+....+.|+.+.|..+|..+.+.........|...+..-.+.
T Consensus       403 k~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~  482 (679)
T 4e6h_A          403 SCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHI  482 (679)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHh
Confidence            9886410         13            13367777888888899999999999998751123344454444333344


Q ss_pred             -CCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHhcCcHHHHH
Q 040367          299 -KEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAA--DTWTYRTFIDGLCKNSYIVEAV  375 (400)
Q Consensus       299 -~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~  375 (400)
                       ++++.|.++|+..++. .+.+...|...+......|+.+.|..+|++++.....+  ....|..++..-.+.|+.+.+.
T Consensus       483 ~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~  561 (679)
T 4e6h_A          483 SKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVR  561 (679)
T ss_dssp             TSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHH
T ss_pred             CCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence             4589999999999886 34466677788888888999999999999998863322  3567888888888899999999


Q ss_pred             HHHHHHHHhcccchhHHH
Q 040367          376 ELFRTLRILKCELDIRAY  393 (400)
Q Consensus       376 ~~~~~~~~~~~~p~~~~~  393 (400)
                      ++.+++.+.  .|+....
T Consensus       562 ~v~~R~~~~--~P~~~~~  577 (679)
T 4e6h_A          562 TLEKRFFEK--FPEVNKL  577 (679)
T ss_dssp             HHHHHHHHH--STTCCHH
T ss_pred             HHHHHHHHh--CCCCcHH
Confidence            999999875  3443333

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.64  E-value=1.3e-13  Score=105.58  Aligned_cols=167  Identities=15%  Similarity=0.092  Sum_probs=150.1

Q ss_pred             ChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 040367          179 DVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMD  258 (400)
Q Consensus       179 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  258 (400)
                      +...|..+...+...|++++|++.|++.++.+ +.+...+..+..++.+.|++++|...+....... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            67789999999999999999999999999875 5578899999999999999999999999998874 336777888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHH
Q 040367          259 GFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVER  338 (400)
Q Consensus       259 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  338 (400)
                      .+...++++.|...+.+..... +.+...+..+...+...|++++|++.|++..+..+ .+..+|..+..++.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKP-GFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcc-hhhhHHHHHHHHHHHCCCHHH
Confidence            9999999999999999998876 56788899999999999999999999999998753 367889999999999999999


Q ss_pred             HHHHHHHHHHc
Q 040367          339 AFKLFDEMQRD  349 (400)
Q Consensus       339 a~~~~~~~~~~  349 (400)
                      |++.|+++++.
T Consensus       160 A~~~~~~al~~  170 (184)
T 3vtx_A          160 AVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhC
Confidence            99999999885

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.63  E-value=2.1e-12  Score=107.52  Aligned_cols=226  Identities=10%  Similarity=0.029  Sum_probs=174.3

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-------cCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCC
Q 040367          104 MEAAALFTKLRVFGCEPNVFTYNTLINGLYR-------TGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENI  176 (400)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  176 (400)
                      ++|..+|++..... +.+...|..++..+..       .|+...+                .+..++|...|++....-.
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~----------------~~~~~~A~~~~~rAl~~~~   95 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNA----------------KLFSDEAANIYERAISTLL   95 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHH----------------HHHHHHHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhc----------------ccchHHHHHHHHHHHHHhC
Confidence            67888888888764 5578888888877764       3554111                0113566666666665211


Q ss_pred             CCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHH
Q 040367          177 NPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVV-TFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNT  255 (400)
Q Consensus       177 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  255 (400)
                      +.+...|..++..+.+.|++++|..+|+++.+.. +.+.. .|..+...+.+.|++++|..+|+++.+... .+...|..
T Consensus        96 p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~  173 (308)
T 2ond_A           96 KKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVT  173 (308)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSS-SSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHH
T ss_pred             cccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc-ccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHH
Confidence            4466789999999999999999999999999853 22333 789999999999999999999999998642 34555544


Q ss_pred             HHHHHH-hcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCC--chhhHHHHHHHHH
Q 040367          256 LMDGFC-LTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG-IKP--DVVIYNTLFVVLF  331 (400)
Q Consensus       256 l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~  331 (400)
                      .+.... ..|++++|..+|+...+.. +.+...|..++..+.+.|++++|..+|+++++.. .+|  ....|..++....
T Consensus       174 ~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~  252 (308)
T 2ond_A          174 AALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFES  252 (308)
T ss_dssp             HHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHH
Confidence            443322 3699999999999998875 5578889999999999999999999999999863 344  3567888899999


Q ss_pred             hhCcHHHHHHHHHHHHHc
Q 040367          332 EIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       332 ~~~~~~~a~~~~~~~~~~  349 (400)
                      ..|+.+.|..+++++.+.
T Consensus       253 ~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          253 NIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHSCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            999999999999999886

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.62  E-value=5.9e-15  Score=123.17  Aligned_cols=177  Identities=15%  Similarity=0.075  Sum_probs=126.6

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhc-------CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc------C-
Q 040367           52 LYTYNILINCFCKMGRVSHGFVVLGRILRS-------CFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVF------G-  117 (400)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-  117 (400)
                      ..++..+...+...|++++|...++++.+.       ..+.....+..+...+...|++++|...+++....      + 
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            456667777777777777777777777653       22334556777778888888888888888877654      2 


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHH
Q 040367          118 CEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWN  197 (400)
Q Consensus       118 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  197 (400)
                      .+....++..+...+...|++++|...++++                +++.+.......+.....+..+...+...|+++
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a----------------~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  170 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRA----------------LEIREKVLGKDHPDVAKQLNNLALLCQNQGKYE  170 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHH----------------HHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHH
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHH----------------HHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHH
Confidence            1234677889999999999999998886654                334443322222334567888889999999999


Q ss_pred             HHHHHHHHHHhC------C-CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHc
Q 040367          198 EAKCLLIEMMDQ------G-VQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQI  244 (400)
Q Consensus       198 ~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  244 (400)
                      +|++.++++.+.      + .+....++..+..++...|++++|...++++.+.
T Consensus       171 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  224 (311)
T 3nf1_A          171 EVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTR  224 (311)
T ss_dssp             HHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999999998764      1 1223456777888888889999999988888763

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.62  E-value=1.6e-14  Score=120.51  Aligned_cols=177  Identities=15%  Similarity=0.093  Sum_probs=133.8

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-------CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcc
Q 040367           86 NAVTFTSLIKGLCAESRIMEAAALFTKLRVF-------GCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVE  158 (400)
Q Consensus        86 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  158 (400)
                      +..++..+...+...|++++|..+++++.+.       ..+....++..+...+...|++++|...+++.          
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a----------   95 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDA----------   95 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH----------
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH----------
Confidence            4567888999999999999999999998873       22345678889999999999999999886554          


Q ss_pred             cchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC------CC-CCCHHHHHHHHHHHHhCCCh
Q 040367          159 GFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ------GV-QPNVVTFNVIMDELCKNGKM  231 (400)
Q Consensus       159 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~  231 (400)
                            +++++.......+....++..+...+...|++++|...++++.+.      +. +.....+..+...+...|++
T Consensus        96 ------l~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~  169 (311)
T 3nf1_A           96 ------LAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKY  169 (311)
T ss_dssp             ------HHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCH
T ss_pred             ------HHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCH
Confidence                  444444433332345667888999999999999999999998764      21 22345677788888889999


Q ss_pred             HHHHHHHHHHHHc------CCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          232 DEASRLLDLMIQI------GVRP-NAFVYNTLMDGFCLTGRVNRAKELFVSMES  278 (400)
Q Consensus       232 ~~a~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  278 (400)
                      ++|..+++++.+.      +..| ...++..+..+|...|++++|...++++.+
T Consensus       170 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          170 EEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             HHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999988888764      1122 244667777888888888888888888765

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.60  E-value=1.3e-13  Score=121.66  Aligned_cols=214  Identities=9%  Similarity=-0.049  Sum_probs=177.1

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh-HHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCCh
Q 040367          102 RIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHT-IVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDV  180 (400)
Q Consensus       102 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  180 (400)
                      .++++.+.++...... +.+...+..+...+...|++ ++|+..|++....                       . +.+.
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~-----------------------~-p~~~  137 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKL-----------------------E-PELV  137 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH-----------------------C-TTCH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhh-----------------------C-CCCH
Confidence            4567777777766543 45788899999999999997 7777666665432                       1 3457


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC---------CChHHHHHHHHHHHHcCCCCCHH
Q 040367          181 VTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKN---------GKMDEASRLLDLMIQIGVRPNAF  251 (400)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~  251 (400)
                      ..|..+..+|...|++++|+..|++..+..  |+...+..+..++...         |++++|...++++.+.. +.+..
T Consensus       138 ~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~  214 (474)
T 4abn_A          138 EAWNQLGEVYWKKGDVTSAHTCFSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGR  214 (474)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHH
Confidence            789999999999999999999999999864  6678888899999999         99999999999999874 34678


Q ss_pred             hHHHHHHHHHhc--------CCHHHHHHHHHHHHhcCCC---CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCch
Q 040367          252 VYNTLMDGFCLT--------GRVNRAKELFVSMESMGCT---HTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDV  320 (400)
Q Consensus       252 ~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  320 (400)
                      .+..+..+|...        |++++|...|++..+.. +   .+...|..+..+|...|++++|.+.|+++.+.... +.
T Consensus       215 ~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~  292 (474)
T 4abn_A          215 SWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVD-RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPA-WP  292 (474)
T ss_dssp             HHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHC-GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CH
T ss_pred             HHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhC-CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CH
Confidence            888999999988        99999999999999875 4   57889999999999999999999999999987533 56


Q ss_pred             hhHHHHHHHHHhhCcHHHHHHHHHH
Q 040367          321 VIYNTLFVVLFEIHQVERAFKLFDE  345 (400)
Q Consensus       321 ~~~~~l~~~~~~~~~~~~a~~~~~~  345 (400)
                      ..+..+..++...|++++|++.+.+
T Consensus       293 ~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          293 EPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            7788888999999999999876544

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.59  E-value=6.7e-13  Score=113.98  Aligned_cols=247  Identities=10%  Similarity=-0.005  Sum_probs=149.2

Q ss_pred             CChhhHHHHHHHH--hccCChhHHHHHHHHHHhC--CCCCC--HHHHHHHHHH--HHhcCChhhHH---------HHHHH
Q 040367           15 PPVCSFNILFGCL--AKNKHYDTVLSLFKRLNST--GLFPD--LYTYNILINC--FCKMGRVSHGF---------VVLGR   77 (400)
Q Consensus        15 ~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~--~~~~~--~~~~~~l~~~--~~~~~~~~~a~---------~~~~~   77 (400)
                      |+...-+.+-..|  .+.+++++|..+++++.+.  .+..|  ...|-.++..  ....+..+.+.         +.++.
T Consensus         8 ~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~~   87 (378)
T 3q15_A            8 PSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLET   87 (378)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHHH
Confidence            3444445555555  7899999999999987553  22233  3334444432  12223333333         66666


Q ss_pred             HHhcCCCCCh----hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CC----CHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 040367           78 ILRSCFTPNA----VTFTSLIKGLCAESRIMEAAALFTKLRVFGC-EP----NVFTYNTLINGLYRTGHTIVALNLFEEM  148 (400)
Q Consensus        78 ~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~  148 (400)
                      +.....+.+.    ..+......+...|++++|...|++..+... .+    ...++..+...+...|+++.|...+++.
T Consensus        88 i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~a  167 (378)
T 3q15_A           88 IETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQA  167 (378)
T ss_dssp             HHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            6443211111    1233445567789999999999999876421 12    3567888999999999999988886554


Q ss_pred             HcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-CCHHHHHHHHH
Q 040367          149 ASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ----GVQ-PNVVTFNVIMD  223 (400)
Q Consensus       149 ~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~  223 (400)
                                      ++++....... +....+++.+..+|...|++++|.+.+++..+.    +.+ ....++..+..
T Consensus       168 ----------------l~~~~~~~~~~-~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~  230 (378)
T 3q15_A          168 ----------------LDIYQNHPLYS-IRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIAN  230 (378)
T ss_dssp             ----------------HHHHHTSTTCH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ----------------HHHHHhCCCch-hhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                            33333221100 113457788888899999999999999887652    111 11235566666


Q ss_pred             HHHhCCChHHHHHHHHHHHHc----CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          224 ELCKNGKMDEASRLLDLMIQI----GVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMES  278 (400)
Q Consensus       224 ~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  278 (400)
                      +|...|++++|...+++..+.    +.+....++..+..++.+.|++++|...+++..+
T Consensus       231 ~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  289 (378)
T 3q15_A          231 SYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLD  289 (378)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            777777777777777766651    1122244555566666666666666666666554

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.58  E-value=1.1e-11  Score=106.27  Aligned_cols=278  Identities=10%  Similarity=0.006  Sum_probs=187.1

Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhcCCCCChh----hHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCC----HHHHH
Q 040367           56 NILINCFCKMGRVSHGFVVLGRILRSCFTPNAV----TFTSLIKGLCAESRIMEAAALFTKLRVFGC-EPN----VFTYN  126 (400)
Q Consensus        56 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~  126 (400)
                      ......+...|++++|...+++........+..    .+..+...+...|++++|...+++...... ..+    ..++.
T Consensus        18 ~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   97 (373)
T 1hz4_A           18 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   97 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            334445566788888888887776653222221    455666777788888888888887665310 112    23456


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 040367          127 TLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEM  206 (400)
Q Consensus       127 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  206 (400)
                      .+...+...|++++|...+++.                +++.........+.....+..+...+...|++++|...+++.
T Consensus        98 ~la~~~~~~G~~~~A~~~~~~a----------------l~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  161 (373)
T 1hz4_A           98 QQSEILFAQGFLQTAWETQEKA----------------FQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSG  161 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHH----------------HHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHH----------------HHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            7778888899988888876554                223322211100113446677888899999999999999998


Q ss_pred             HhCCCC----CCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC-HHhHH-----HHHHHHHhcCCHHHHHHHHHHH
Q 040367          207 MDQGVQ----PNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPN-AFVYN-----TLMDGFCLTGRVNRAKELFVSM  276 (400)
Q Consensus       207 ~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~-----~l~~~~~~~~~~~~a~~~~~~~  276 (400)
                      ......    ....++..+...+...|++++|...+++.......++ ...+.     ..+..+...|++++|...+++.
T Consensus       162 l~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a  241 (373)
T 1hz4_A          162 IEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHT  241 (373)
T ss_dssp             HHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            764211    1235677788889999999999999999876421211 11121     2334577899999999999998


Q ss_pred             HhcCCCCC---hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCch-hhHHHHHHHHHhhCcHHHHHHHHHHHHH
Q 040367          277 ESMGCTHT---VFSYSILINGYCKNKEIEGALSLYGEMLSK----GIKPDV-VIYNTLFVVLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       277 ~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~  348 (400)
                      ......+.   ...+..+...+...|++++|...+++....    +..++. ..+..+..++...|+.++|...+++...
T Consensus       242 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          242 AKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             CCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            76432211   224567788899999999999999887653    222222 2566677888899999999999998875


Q ss_pred             c
Q 040367          349 D  349 (400)
Q Consensus       349 ~  349 (400)
                      .
T Consensus       322 ~  322 (373)
T 1hz4_A          322 L  322 (373)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.58  E-value=5.7e-13  Score=114.42  Aligned_cols=313  Identities=11%  Similarity=0.038  Sum_probs=210.2

Q ss_pred             CCCHHHHHHHHHHH--HhcCChhhHHHHHHHHHhc--CCCCC--hhhHHHHHHH--HHhcCCHHHHH---------HHHH
Q 040367           49 FPDLYTYNILINCF--CKMGRVSHGFVVLGRILRS--CFTPN--AVTFTSLIKG--LCAESRIMEAA---------ALFT  111 (400)
Q Consensus        49 ~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~--~~~~~--~~~~~~l~~~--~~~~~~~~~a~---------~~~~  111 (400)
                      .|+...-..+-.-|  ...+++++|.++++++.+.  ....|  ...|-.++..  ..-.+.+..+.         +.++
T Consensus         7 ~~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~   86 (378)
T 3q15_A            7 IPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLE   86 (378)
T ss_dssp             BCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHH
Confidence            34555555555555  7899999999999988663  22223  3333444332  11112222222         5566


Q ss_pred             HHHHcCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHH
Q 040367          112 KLRVFGCEPN----VFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVI  187 (400)
Q Consensus       112 ~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  187 (400)
                      .+.....+.+    ...+......+...|++++|+..|++.......                .  .+.+....++..+.
T Consensus        87 ~i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~----------------~--~~~~~~a~~~~~lg  148 (378)
T 3q15_A           87 TIETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPF----------------V--SDDIEKAEFHFKVA  148 (378)
T ss_dssp             HHHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGG----------------C--CCHHHHHHHHHHHH
T ss_pred             HHhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhh----------------C--CChHHHHHHHHHHH
Confidence            5543221111    112334556677889988888777766442110                0  00011345788889


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCC--C---C-CCHHHHHHHHHHHHhCCChHHHHHHHHHHHHc----CCC-CCHHhHHHH
Q 040367          188 RGFCYANDWNEAKCLLIEMMDQG--V---Q-PNVVTFNVIMDELCKNGKMDEASRLLDLMIQI----GVR-PNAFVYNTL  256 (400)
Q Consensus       188 ~~~~~~~~~~~a~~~~~~~~~~~--~---~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l  256 (400)
                      .+|...|+++.|+..+++..+..  .   . ....++..+..+|...|++++|...+++..+.    +.. ....++..+
T Consensus       149 ~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  228 (378)
T 3q15_A          149 EAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNI  228 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999999999999987531  1   1 12457788899999999999999999988764    111 123567788


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh-----cCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC----CCchhhHHHHH
Q 040367          257 MDGFCLTGRVNRAKELFVSMES-----MGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGI----KPDVVIYNTLF  327 (400)
Q Consensus       257 ~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l~  327 (400)
                      ..+|...|++++|...+++..+     .. +....++..+...+.+.|++++|...+++..+...    +.....+..+.
T Consensus       229 g~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~  307 (378)
T 3q15_A          229 ANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQ  307 (378)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999999999999999876     33 33467788899999999999999999999887421    22233455666


Q ss_pred             HHHHhhCc---HHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          328 VVLFEIHQ---VERAFKLFDEMQRDGVAA-DTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       328 ~~~~~~~~---~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      ..+...++   +.+|+..+++   .+..| ....+..+...|...|++++|.+.|++..+
T Consensus       308 ~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          308 AVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            67777787   7777777765   22222 345667889999999999999999999975

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.58  E-value=6.4e-12  Score=107.69  Aligned_cols=275  Identities=9%  Similarity=-0.016  Sum_probs=194.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHH
Q 040367           90 FTSLIKGLCAESRIMEAAALFTKLRVFGCEPNV----FTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAK  165 (400)
Q Consensus        90 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~  165 (400)
                      .......+...|++++|...+++........+.    .++..+...+...|++++|...+++...               
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~---------------   81 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQ---------------   81 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---------------
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH---------------
Confidence            334455677899999999999998876422222    2566777888899998888888665432               


Q ss_pred             HHHHHHHhCCCC-CChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC--C-CHHHHHHHHHHHHhCCChHHHHHH
Q 040367          166 ELFLQMKDENIN-PDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ----GVQ--P-NVVTFNVIMDELCKNGKMDEASRL  237 (400)
Q Consensus       166 ~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~  237 (400)
                       +...   .+.+ ....++..+...+...|++++|...+++..+.    +..  | ....+..+...+...|++++|...
T Consensus        82 -~~~~---~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  157 (373)
T 1hz4_A           82 -MARQ---HDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEAS  157 (373)
T ss_dssp             -HHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             -HHHh---cCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence             2221   1100 11234667788899999999999999988753    221  2 234566788889999999999999


Q ss_pred             HHHHHHcCCCC----CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-hhhHH-----HHHHHHHhcCCHHHHHHH
Q 040367          238 LDLMIQIGVRP----NAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHT-VFSYS-----ILINGYCKNKEIEGALSL  307 (400)
Q Consensus       238 ~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~-----~l~~~~~~~~~~~~a~~~  307 (400)
                      +++........    ....+..+...+...|++++|...+++.......++ ...+.     ..+..+...|++++|...
T Consensus       158 ~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~  237 (373)
T 1hz4_A          158 ARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANW  237 (373)
T ss_dssp             HHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHH
Confidence            99988753221    234677788889999999999999999876421222 11222     233447789999999999


Q ss_pred             HHHHHhCCCCCc---hhhHHHHHHHHHhhCcHHHHHHHHHHHHHc----CCCCCH-HHHHHHHHHHHhcCcHHHHHHHHH
Q 040367          308 YGEMLSKGIKPD---VVIYNTLFVVLFEIHQVERAFKLFDEMQRD----GVAADT-WTYRTFIDGLCKNSYIVEAVELFR  379 (400)
Q Consensus       308 ~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~  379 (400)
                      +++.......++   ...+..+...+...|++++|...++++...    |..++. ..+..+..++...|+.++|...++
T Consensus       238 ~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~  317 (373)
T 1hz4_A          238 LRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLL  317 (373)
T ss_dssp             HHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            998876532211   224567788899999999999999987653    222222 366677888999999999999999


Q ss_pred             HHHH
Q 040367          380 TLRI  383 (400)
Q Consensus       380 ~~~~  383 (400)
                      +...
T Consensus       318 ~al~  321 (373)
T 1hz4_A          318 DALK  321 (373)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8864

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.53  E-value=8.1e-13  Score=101.06  Aligned_cols=162  Identities=17%  Similarity=0.088  Sum_probs=89.1

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 040367          218 FNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCK  297 (400)
Q Consensus       218 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  297 (400)
                      +..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+..
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~   88 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHH
Confidence            3334444444455555555554444331 1234444455555555555555555555555443 3344555555555666


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHH
Q 040367          298 NKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVEL  377 (400)
Q Consensus       298 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  377 (400)
                      .|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.
T Consensus        89 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~  166 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPH  166 (186)
T ss_dssp             HTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHH
Confidence            666666666666555542 2244555556666666666666666666666542 33456666666666667777777777


Q ss_pred             HHHHHH
Q 040367          378 FRTLRI  383 (400)
Q Consensus       378 ~~~~~~  383 (400)
                      ++++.+
T Consensus       167 ~~~~~~  172 (186)
T 3as5_A          167 FKKANE  172 (186)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            666654

>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=99.53  E-value=2.6e-12  Score=101.91  Aligned_cols=204  Identities=12%  Similarity=-0.007  Sum_probs=159.9

Q ss_pred             CCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHH
Q 040367          177 NPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTL  256 (400)
Q Consensus       177 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  256 (400)
                      +.|+..+......+...|++++|+..|++..+...+++...+..+..++...|++++|...+++..+.. +.+...+..+
T Consensus         4 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   82 (228)
T 4i17_A            4 TTDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGK   82 (228)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHH
Confidence            346678888999999999999999999999987643788888889999999999999999999999864 3367788899


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCh-------hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc---hhhHHHH
Q 040367          257 MDGFCLTGRVNRAKELFVSMESMGCTHTV-------FSYSILINGYCKNKEIEGALSLYGEMLSKGIKPD---VVIYNTL  326 (400)
Q Consensus       257 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l  326 (400)
                      ..++...|++++|...+++..+.. +.+.       ..|..+...+...|++++|.+.++++++.  .|+   ...+..+
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l  159 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSL  159 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHH
Confidence            999999999999999999999875 4455       45888888999999999999999999986  344   4667777


Q ss_pred             HHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHH
Q 040367          327 FVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYN  394 (400)
Q Consensus       327 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  394 (400)
                      ..++...|+     ..++++...+ ..+...+....  ....+.+++|+..+++..+.  .|+.....
T Consensus       160 ~~~~~~~~~-----~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l--~p~~~~~~  217 (228)
T 4i17_A          160 GVLFYNNGA-----DVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTL--SPNRTEIK  217 (228)
T ss_dssp             HHHHHHHHH-----HHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             HHHHHHHHH-----HHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhc--CCCCHHHH
Confidence            777765543     4455555542 23444444433  34567899999999999974  56654433

>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=99.52  E-value=3.9e-13  Score=110.36  Aligned_cols=233  Identities=15%  Similarity=0.054  Sum_probs=162.9

Q ss_pred             hcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----
Q 040367          134 RTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ----  209 (400)
Q Consensus       134 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----  209 (400)
                      ..|++++|+..                +++|++++++......+....++..+..++...|++++|+..++++.+.    
T Consensus        13 ~~~~~~~A~~~----------------~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~   76 (283)
T 3edt_B           13 GLVPRGSAVPL----------------CKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKT   76 (283)
T ss_dssp             CCSCSSSHHHH----------------HHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHH----------------HHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHH
Confidence            45666666666                4456666666665443445678889999999999999999999998754    


Q ss_pred             --CC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHc------C-CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 040367          210 --GV-QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQI------G-VRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESM  279 (400)
Q Consensus       210 --~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  279 (400)
                        +. +....++..+..++...|++++|...+.++.+.      . .+....++..+...|...|++++|...++++.+.
T Consensus        77 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  156 (283)
T 3edt_B           77 LGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEI  156 (283)
T ss_dssp             TCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             cCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence              21 234567888999999999999999999998775      1 1224567888999999999999999999998765


Q ss_pred             ------C-CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-------CCCCc-hhhHHHHHHHHHhhCc------HHH
Q 040367          280 ------G-CTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK-------GIKPD-VVIYNTLFVVLFEIHQ------VER  338 (400)
Q Consensus       280 ------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~-~~~~~~l~~~~~~~~~------~~~  338 (400)
                            . .+....++..+...|...|++++|.+.++++.+.       ...+. ...+..+.......+.      +..
T Consensus       157 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  236 (283)
T 3edt_B          157 YATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGE  236 (283)
T ss_dssp             HHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------
T ss_pred             HHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHH
Confidence                  1 1234567888999999999999999999988863       11222 2233333333333222      222


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          339 AFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       339 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      +...++.... ..+....++..+...|...|++++|.+++++..+
T Consensus       237 ~~~~~~~~~~-~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          237 YGSWYKACKV-DSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             ------CCCC-CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCC-CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2222222111 1122356788899999999999999999999875

>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=99.51  E-value=1.6e-12  Score=119.32  Aligned_cols=166  Identities=14%  Similarity=0.024  Sum_probs=97.5

Q ss_pred             ChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 040367          179 DVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMD  258 (400)
Q Consensus       179 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  258 (400)
                      +..+++.+..++.+.|++++|++.|++.++.. +-+...+..+..++.+.|++++|+..|+++++.. +.+...+..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34556666666666666666666666666543 3345566666666666666666666666666543 223555666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHH
Q 040367          259 GFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVER  338 (400)
Q Consensus       259 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  338 (400)
                      ++...|++++|++.|++..+.+ +.+...|..+..+|...|++++|++.|+++++.... +...+..+..++...|++++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhcccHHH
Confidence            6666666666666666665554 334555666666666666666666666666554322 34555555666666666666


Q ss_pred             HHHHHHHHHH
Q 040367          339 AFKLFDEMQR  348 (400)
Q Consensus       339 a~~~~~~~~~  348 (400)
                      |.+.++++.+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6666655554

>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=99.51  E-value=1.3e-11  Score=97.81  Aligned_cols=193  Identities=12%  Similarity=-0.033  Sum_probs=147.2

Q ss_pred             cccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHH
Q 040367          157 VEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASR  236 (400)
Q Consensus       157 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  236 (400)
                      ..|++++|+..|++..+...+++...+..+..++...|++++|+..+++..+.. +.+...+..+..++...|++++|..
T Consensus        19 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~   97 (228)
T 4i17_A           19 NAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSAAYRDMKNNQEYIA   97 (228)
T ss_dssp             HTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHcccHHHHHH
Confidence            378999999999999987643777888889999999999999999999999864 4467788999999999999999999


Q ss_pred             HHHHHHHcCCCCCH-------HhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCCHHHHHHH
Q 040367          237 LLDLMIQIGVRPNA-------FVYNTLMDGFCLTGRVNRAKELFVSMESMGCTH--TVFSYSILINGYCKNKEIEGALSL  307 (400)
Q Consensus       237 ~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~  307 (400)
                      .+++..+... .+.       ..+..+...+...|++++|...|+++.+.. +.  +...+..+..+|...|     ...
T Consensus        98 ~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~~~~~~~-----~~~  170 (228)
T 4i17_A           98 TLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT-SKKWKTDALYSLGVLFYNNG-----ADV  170 (228)
T ss_dssp             HHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS-CHHHHHHHHHHHHHHHHHHH-----HHH
T ss_pred             HHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC-CCcccHHHHHHHHHHHHHHH-----HHH
Confidence            9999998642 244       457788888999999999999999999874 33  4567777888876554     344


Q ss_pred             HHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 040367          308 YGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTF  361 (400)
Q Consensus       308 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  361 (400)
                      ++++...+.. +...+....  ....+.+++|+..+++..+.. +.+..+...+
T Consensus       171 ~~~a~~~~~~-~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~-p~~~~~~~~l  220 (228)
T 4i17_A          171 LRKATPLASS-NKEKYASEK--AKADAAFKKAVDYLGEAVTLS-PNRTEIKQMQ  220 (228)
T ss_dssp             HHHHGGGTTT-CHHHHHHHH--HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHhcccC-CHHHHHHHH--HHHHHHHHHHHHHHHHHhhcC-CCCHHHHHHH
Confidence            5555554322 344443333  335678999999999999863 2244444433

>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=99.51  E-value=4.9e-12  Score=96.63  Aligned_cols=166  Identities=14%  Similarity=0.079  Sum_probs=145.8

Q ss_pred             hHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 040367          180 VVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDG  259 (400)
Q Consensus       180 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  259 (400)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            4567778889999999999999999988763 4578888999999999999999999999998874 4467888889999


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHH
Q 040367          260 FCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERA  339 (400)
Q Consensus       260 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  339 (400)
                      +...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|
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            999999999999999998875 5678889999999999999999999999998874 33678888999999999999999


Q ss_pred             HHHHHHHHHc
Q 040367          340 FKLFDEMQRD  349 (400)
Q Consensus       340 ~~~~~~~~~~  349 (400)
                      ...++++.+.
T Consensus       164 ~~~~~~~~~~  173 (186)
T 3as5_A          164 LPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            9999998865

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.50  E-value=1.9e-12  Score=118.84  Aligned_cols=168  Identities=14%  Similarity=0.090  Sum_probs=147.2

Q ss_pred             CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHH
Q 040367          212 QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSIL  291 (400)
Q Consensus       212 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  291 (400)
                      +.+...++.+...+.+.|++++|++.|+++++.. +-+...+..+..+|.+.|++++|+..|++..+.+ +.+...|..+
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-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNM   83 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            3356789999999999999999999999999874 3357888999999999999999999999999886 5578899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcH
Q 040367          292 INGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYI  371 (400)
Q Consensus       292 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  371 (400)
                      ..++...|++++|++.|+++++.... +...|..+..++...|++++|++.|+++++.. +-+...+..+..++...|++
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 GNTLKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccH
Confidence            99999999999999999999987533 67789999999999999999999999999863 33688899999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040367          372 VEAVELFRTLRI  383 (400)
Q Consensus       372 ~~a~~~~~~~~~  383 (400)
                      ++|.+.++++.+
T Consensus       162 ~~A~~~~~kal~  173 (723)
T 4gyw_A          162 TDYDERMKKLVS  173 (723)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998875

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.47  E-value=2.7e-12  Score=105.33  Aligned_cols=166  Identities=13%  Similarity=0.004  Sum_probs=117.1

Q ss_pred             HhcCChhhHHHHHHHHHhc-------CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc------CC-CCCHHHHHHH
Q 040367           63 CKMGRVSHGFVVLGRILRS-------CFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVF------GC-EPNVFTYNTL  128 (400)
Q Consensus        63 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l  128 (400)
                      ...|++++|+..+++..+.       +.+....++..+...+...|++++|...+++..+.      +- +....++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            3456666666666655542       21234567778888888889999998888887754      21 2346688899


Q ss_pred             HHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          129 INGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMD  208 (400)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  208 (400)
                      ...+...|++++|...+++.                ++++++......+....++..+...+...|++++|...++++.+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~a----------------l~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  155 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRA----------------LEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALE  155 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHH----------------HHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHH----------------HHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999999999999886554                44444443332234466788888999999999999999998876


Q ss_pred             C------C-CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHc
Q 040367          209 Q------G-VQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQI  244 (400)
Q Consensus       209 ~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  244 (400)
                      .      + .+....++..+..++...|++++|...++++.+.
T Consensus       156 ~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~  198 (283)
T 3edt_B          156 IYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTR  198 (283)
T ss_dssp             HHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4      1 1223456777778888888888888888877653

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.39  E-value=1.5e-10  Score=95.43  Aligned_cols=178  Identities=12%  Similarity=-0.030  Sum_probs=101.4

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCC-Ch
Q 040367          102 RIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINP-DV  180 (400)
Q Consensus       102 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~  180 (400)
                      ++++|...|++.               +..|...|++++|...|++.                +++....   +-++ ..
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~a----------------l~~~~~~---~~~~~~a   77 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKA----------------ADYQKKA---GNEDEAG   77 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHH----------------HHHHHHT---TCHHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHH----------------HHHHHHh---CCHHHHH
Confidence            366666666654               33455667776666665443                2332222   1111 14


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---CC--CHHHHHHHHHHHHhC-CChHHHHHHHHHHHHcCCCC-C----
Q 040367          181 VTYTSVIRGFCYANDWNEAKCLLIEMMDQGV---QP--NVVTFNVIMDELCKN-GKMDEASRLLDLMIQIGVRP-N----  249 (400)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----  249 (400)
                      .+|+.+..+|...|++++|+..+++..+...   .+  ...++..+...|... |++++|...+++..+..... +    
T Consensus        78 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~  157 (292)
T 1qqe_A           78 NTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALS  157 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHH
Confidence            5677777788888888888888877664210   01  123556666666664 77777777776665531100 0    


Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChh------hHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          250 AFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVF------SYSILINGYCKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       250 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~  313 (400)
                      ..++..+...+...|++++|...|+++.+........      .|..+..++...|++++|...+++..+
T Consensus       158 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  227 (292)
T 1qqe_A          158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS  227 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            2345566666666677777777776666543221111      345555666666666666666666655

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.38  E-value=1.5e-10  Score=93.77  Aligned_cols=171  Identities=11%  Similarity=0.005  Sum_probs=127.5

Q ss_pred             CCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC--CCHH
Q 040367          177 NPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPN---VVTFNVIMDELCKNGKMDEASRLLDLMIQIGVR--PNAF  251 (400)
Q Consensus       177 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~  251 (400)
                      +.+...+..+...+.+.|++++|+..|+++.+.. +.+   ...+..+..++.+.|++++|...|+++.+....  ....
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            3456777788889999999999999999998864 223   677888889999999999999999999986321  2245


Q ss_pred             hHHHHHHHHHh--------cCCHHHHHHHHHHHHhcCCCCChhhH-----------------HHHHHHHHhcCCHHHHHH
Q 040367          252 VYNTLMDGFCL--------TGRVNRAKELFVSMESMGCTHTVFSY-----------------SILINGYCKNKEIEGALS  306 (400)
Q Consensus       252 ~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~~~~~~a~~  306 (400)
                      .+..+..++..        .|++++|...|+++.+.. +.+....                 ..+...|...|++++|..
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  169 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY-PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAV  169 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC-TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC-cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHH
Confidence            67778888888        999999999999998874 3333444                 445667777788888888


Q ss_pred             HHHHHHhCCCCC--chhhHHHHHHHHHhh----------CcHHHHHHHHHHHHHc
Q 040367          307 LYGEMLSKGIKP--DVVIYNTLFVVLFEI----------HQVERAFKLFDEMQRD  349 (400)
Q Consensus       307 ~~~~~~~~~~~~--~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~  349 (400)
                      .|+++++.....  ....+..+..++...          |++++|...++++.+.
T Consensus       170 ~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          170 TYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            888777653221  234556666666655          7777888888777765

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.38  E-value=3.8e-11  Score=98.93  Aligned_cols=200  Identities=12%  Similarity=0.038  Sum_probs=149.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC---C--CHHhHHHH
Q 040367          187 IRGFCYANDWNEAKCLLIEMMDQ----GVQPN-VVTFNVIMDELCKNGKMDEASRLLDLMIQIGVR---P--NAFVYNTL  256 (400)
Q Consensus       187 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~l  256 (400)
                      ...|...|++++|...|++..+.    |.+++ ..+|+.+..+|.+.|++++|...+++.++....   +  -..++..+
T Consensus        44 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~l  123 (292)
T 1qqe_A           44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (292)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45677899999999999988653    22222 568889999999999999999999998764211   1  13578889


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHHhcCCCC-C----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCch------hhHH
Q 040367          257 MDGFCLT-GRVNRAKELFVSMESMGCTH-T----VFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDV------VIYN  324 (400)
Q Consensus       257 ~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~  324 (400)
                      ..+|... |++++|+..|++..+..... +    ..++..+...+...|++++|+..+++..+.......      ..+.
T Consensus       124 g~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  203 (292)
T 1qqe_A          124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (292)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHH
Confidence            9999996 99999999999987642111 1    356888999999999999999999999986433222      1567


Q ss_pred             HHHHHHHhhCcHHHHHHHHHHHHHcCCCCC------HHHHHHHHHHHH--hcCcHHHHHHHHHHHHHhcccchh
Q 040367          325 TLFVVLFEIHQVERAFKLFDEMQRDGVAAD------TWTYRTFIDGLC--KNSYIVEAVELFRTLRILKCELDI  390 (400)
Q Consensus       325 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~~~p~~  390 (400)
                      .+..++...|++++|...+++..+.  .|+      ...+..++.++.  ..+++++|+..|+++..  +.|+.
T Consensus       204 ~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~--l~~~~  273 (292)
T 1qqe_A          204 KKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR--LDKWK  273 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC--CCHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc--cHHHH
Confidence            7888899999999999999998764  232      123445666664  45779999999887764  45544

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.37  E-value=7.9e-10  Score=89.39  Aligned_cols=166  Identities=10%  Similarity=0.037  Sum_probs=85.6

Q ss_pred             CChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCC-----CHH
Q 040367          178 PDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGV-QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRP-----NAF  251 (400)
Q Consensus       178 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~  251 (400)
                      ++..++..+..++...|++++|++++.+.+..+. .-+...+...+..+.+.|+.+.|.+.+++|.+.  .|     +..
T Consensus        98 ~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~  175 (310)
T 3mv2_B           98 NSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNE  175 (310)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchH
Confidence            3344444555666666666666666666655432 124455555666666666666666666666553  33     233


Q ss_pred             hHHHHHHHH--HhcC--CHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC---------CCC
Q 040367          252 VYNTLMDGF--CLTG--RVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG---------IKP  318 (400)
Q Consensus       252 ~~~~l~~~~--~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~~~  318 (400)
                      +...++.++  ...|  +..+|..+|+++...  .|+..+-..++.++.+.|++++|.+.++.+.+..         -+.
T Consensus       176 ~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~  253 (310)
T 3mv2_B          176 MILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLY  253 (310)
T ss_dssp             HHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSS
T ss_pred             HHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCC
Confidence            334444442  2223  566666666666543  3332222333335666666666666666544320         022


Q ss_pred             chhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          319 DVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       319 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      |+.++..++......|+  +|.++++++.+.
T Consensus       254 ~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          254 KPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            44444344444444454  556666666654

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.35  E-value=1.1e-10  Score=90.97  Aligned_cols=164  Identities=12%  Similarity=0.014  Sum_probs=88.3

Q ss_pred             hHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH----------------HHHHHHhCCChHHHHHHHHHHHH
Q 040367          180 VVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNV----------------IMDELCKNGKMDEASRLLDLMIQ  243 (400)
Q Consensus       180 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~  243 (400)
                      ...+......+...|++++|+..|++..+.. +.+...+..                +..++.+.|++++|...+++.++
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   82 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIALN-IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQ   82 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3344555667778899999999998888753 223444544                55555566666666666666655


Q ss_pred             cCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC--HHHHHHHHHHHHhCCCCCchh
Q 040367          244 IGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKE--IEGALSLYGEMLSKGIKPDVV  321 (400)
Q Consensus       244 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~  321 (400)
                      .. +.+...+..+..++...|++++|...|+++.+.. |.+...+..+..+|...|+  .+.+...++....  ..|...
T Consensus        83 ~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~  158 (208)
T 3urz_A           83 KA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQY  158 (208)
T ss_dssp             HC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHH
T ss_pred             HC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhH
Confidence            43 2245555555666666666666666666665554 3345555555555544332  2233333433321  122222


Q ss_pred             hHHHHHHHHHhhCcHHHHHHHHHHHHH
Q 040367          322 IYNTLFVVLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       322 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  348 (400)
                      .+.....++...|++++|...|+++++
T Consensus       159 a~~~~g~~~~~~~~~~~A~~~~~~al~  185 (208)
T 3urz_A          159 ARYRDGLSKLFTTRYEKARNSLQKVIL  185 (208)
T ss_dssp             HHHHHHHHHHHHHTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            233334444455566666666665554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.35  E-value=4.4e-08  Score=86.45  Aligned_cols=346  Identities=10%  Similarity=0.012  Sum_probs=213.7

Q ss_pred             hhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-hhhHHHHHHHHHhc-CC-CCChhhHHHH
Q 040367           17 VCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGR-VSHGFVVLGRILRS-CF-TPNAVTFTSL   93 (400)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~-~~-~~~~~~~~~l   93 (400)
                      ...|...+..+-. |+++.+..+|++....  .|+...|...+....+.+. .+....+|+.++.. |. ..+...|...
T Consensus        15 R~vyer~l~~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Y   91 (493)
T 2uy1_A           15 SAIMEHARRLYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEY   91 (493)
T ss_dssp             HHHHHHHHHHHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHH
T ss_pred             HHHHHHHHHHCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHH
Confidence            3456666666655 8899999999999885  4799999998888777663 46677888888764 42 3467788888


Q ss_pred             HHHHH----hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc-------------CChHHHHHHHHHHH-------
Q 040367           94 IKGLC----AESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRT-------------GHTIVALNLFEEMA-------  149 (400)
Q Consensus        94 ~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------------~~~~~a~~~~~~~~-------  149 (400)
                      +..+.    ..++.+.+..+|++.+......-...|......-...             +.+..|..+++.+.       
T Consensus        92 i~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s  171 (493)
T 2uy1_A           92 IEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWS  171 (493)
T ss_dssp             HHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCS
T ss_pred             HHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhcc
Confidence            87654    3467888999999998742111122232222211111             11112222222111       


Q ss_pred             -----------cCCC-CCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 040367          150 -----------SGNG-EFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVT  217 (400)
Q Consensus       150 -----------~~~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  217 (400)
                                 ..++ .....+..+++..+|+++.... +.+...|...+..+.+.|+.+.|..++++....  +.+...
T Consensus       172 ~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l  248 (493)
T 2uy1_A          172 VKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFL  248 (493)
T ss_dssp             HHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHH
T ss_pred             HHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHH
Confidence                       1111 0111122455677888877653 456777888888888889999999999998876  333333


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHcC---------C---CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCh
Q 040367          218 FNVIMDELCKNGKMDEASRLLDLMIQIG---------V---RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTV  285 (400)
Q Consensus       218 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  285 (400)
                      +..    |....+.++.   ++.+.+.-         .   .....+|...+....+.++.+.|..+|+.+ ... ..+.
T Consensus       249 ~~~----y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~  319 (493)
T 2uy1_A          249 SLY----YGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGP  319 (493)
T ss_dssp             HHH----HHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCH
T ss_pred             HHH----HHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCCh
Confidence            222    2221111221   22222210         0   011244566666666778899999999998 321 2234


Q ss_pred             hhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 040367          286 FSYSILINGYCKNK-EIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDG  364 (400)
Q Consensus       286 ~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  364 (400)
                      ..|...+..-...+ +.+.|..+|+...+.- +.++..|...+......|+.+.|..+|+++.     .....|...+..
T Consensus       320 ~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~f  393 (493)
T 2uy1_A          320 HVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEY  393 (493)
T ss_dssp             HHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHH
Confidence            44443333222333 6999999999988753 2234556667777788899999999999873     257778888877


Q ss_pred             HHhcCcHHHHHHHHHHHHH
Q 040367          365 LCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       365 ~~~~g~~~~a~~~~~~~~~  383 (400)
                      -...|+.+.+..++++...
T Consensus       394 E~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          394 EFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHSCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            7778999999998888873

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.34  E-value=2.2e-10  Score=89.23  Aligned_cols=173  Identities=9%  Similarity=0.016  Sum_probs=128.3

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHH----------------HHHHHHhcCCHHHHHHHHHHHHhcC
Q 040367          217 TFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNT----------------LMDGFCLTGRVNRAKELFVSMESMG  280 (400)
Q Consensus       217 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~~~  280 (400)
                      .+......+...|++++|...|++..+... .+...+..                +..+|...|++++|...|++..+..
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   84 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIALNI-DRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA   84 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCH-HHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            344455577889999999999999988632 24455666                8889999999999999999998886


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCc--HHHHHHHHHHHHHcCCCCCHHHH
Q 040367          281 CTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQ--VERAFKLFDEMQRDGVAADTWTY  358 (400)
Q Consensus       281 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~  358 (400)
                       +.+...+..+..++...|++++|...|+++++..+. +...+..+..++...|+  .+.+...++....  ..|....+
T Consensus        85 -p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~  160 (208)
T 3urz_A           85 -PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYAR  160 (208)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHH
Confidence             567888999999999999999999999999987533 67788888888766554  4455666655542  22333344


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHHHH
Q 040367          359 RTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCL  396 (400)
Q Consensus       359 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  396 (400)
                      .....++...|++++|+..|++.++  +.|+......+
T Consensus       161 ~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~l  196 (208)
T 3urz_A          161 YRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKTL  196 (208)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHHHH
Confidence            5556677788999999999999987  46776655544

>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=99.34  E-value=7.2e-10  Score=86.51  Aligned_cols=163  Identities=10%  Similarity=-0.011  Sum_probs=74.6

Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcC----CHHHHHHHHHHHHhcCCCCChhhHHH
Q 040367          215 VVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTG----RVNRAKELFVSMESMGCTHTVFSYSI  290 (400)
Q Consensus       215 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~  290 (400)
                      +..+..+...|...+++++|...|++..+.|   ++..+..+...|.. +    ++++|...|++..+.+   ++..+..
T Consensus        18 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~   90 (212)
T 3rjv_A           18 RRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIV   90 (212)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            3344444444444444444444444444432   23334444444443 3    4555555555544332   3334444


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHhCCCC-CchhhHHHHHHHHHh----hCcHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 040367          291 LINGYCK----NKEIEGALSLYGEMLSKGIK-PDVVIYNTLFVVLFE----IHQVERAFKLFDEMQRDGVAADTWTYRTF  361 (400)
Q Consensus       291 l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  361 (400)
                      |...|..    .+++++|.++|++..+.+.. .+...+..|...|..    .+++++|..+|++..+.  ..+...+..|
T Consensus        91 Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~~L  168 (212)
T 3rjv_A           91 LARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYAEYWA  168 (212)
T ss_dssp             HHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHHHH
T ss_pred             HHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHHHH
Confidence            4444444    44555555555555544321 013444444555544    44555555555555543  1223344444


Q ss_pred             HHHHHhc-C-----cHHHHHHHHHHHHHhcc
Q 040367          362 IDGLCKN-S-----YIVEAVELFRTLRILKC  386 (400)
Q Consensus       362 ~~~~~~~-g-----~~~~a~~~~~~~~~~~~  386 (400)
                      ...|... |     ++++|..+|++..+.|.
T Consensus       169 g~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          169 GMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            4444332 2     55556666655555553

>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=99.33  E-value=2.8e-10  Score=81.68  Aligned_cols=130  Identities=14%  Similarity=0.203  Sum_probs=89.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHH
Q 040367          252 VYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLF  331 (400)
Q Consensus       252 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  331 (400)
                      .+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.+ +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            34556666667777777777777776654 3455666667777777777777777777776653 224556666777777


Q ss_pred             hhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Q 040367          332 EIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRIL  384 (400)
Q Consensus       332 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  384 (400)
                      ..|++++|.++++++.+.. +.+...+..+...+...|++++|.+.++++.+.
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            7777777777777777652 335666777777777788888888887777653

>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=99.31  E-value=1.8e-10  Score=82.67  Aligned_cols=131  Identities=15%  Similarity=0.151  Sum_probs=114.1

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 040367           18 CSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGL   97 (400)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   97 (400)
                      .+|..+...+...|++++|+.+++++.+.+ +.+...+..+...+...|++++|...++++.+.+ +.+...+..+...+
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHH
Confidence            367888999999999999999999998764 4578888999999999999999999999998875 44677888899999


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcC
Q 040367           98 CAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASG  151 (400)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (400)
                      ...|++++|.+.++++.... +.+..++..+...+...|++++|...++++...
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            99999999999999998875 557888999999999999988888888877543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.31  E-value=3.9e-09  Score=85.37  Aligned_cols=245  Identities=8%  Similarity=-0.044  Sum_probs=168.0

Q ss_pred             HHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH
Q 040367           24 FGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRI  103 (400)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  103 (400)
                      ++-..-.|++..++.-...+..   ......-.-+.++++..|++...         ....|....+..+...+ ..+  
T Consensus        20 ikn~fy~G~yq~~i~e~~~~~~---~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~--   84 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQEIEKFSK---VTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK--   84 (310)
T ss_dssp             HHHHHTTTCHHHHTHHHHTSSC---CCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT--
T ss_pred             HHHHHHhhHHHHHHHHHHhcCc---cchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc--
Confidence            5556668999998884333222   22334445566889999988752         12234444444444433 322  


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCC-CCChHh
Q 040367          104 MEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENI-NPDVVT  182 (400)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~  182 (400)
                        |+..+++....+ +++..++..+..++...|++++|++++.+..                       ..+. .-+...
T Consensus        85 --a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i-----------------------~~~~~~~~lea  138 (310)
T 3mv2_B           85 --NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGI-----------------------DNDEAEGTTEL  138 (310)
T ss_dssp             --CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-----------------------TSSCSTTHHHH
T ss_pred             --HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHh-----------------------ccCCCcCcHHH
Confidence              778888887665 5667777788999999999766666665543                       3321 135677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-----CHHHHHHHHHHH--Hh--CCChHHHHHHHHHHHHcCCCCCHHhH
Q 040367          183 YTSVIRGFCYANDWNEAKCLLIEMMDQGVQP-----NVVTFNVIMDEL--CK--NGKMDEASRLLDLMIQIGVRPNAFVY  253 (400)
Q Consensus       183 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~--~~--~~~~~~a~~~~~~~~~~~~~~~~~~~  253 (400)
                      +...+.++.+.|+.+.|.+.+++|.+.  .|     +..+...+..++  ..  .+++.+|..+|+++.+.  .|+..+.
T Consensus       139 ~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~  214 (310)
T 3mv2_B          139 LLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQ  214 (310)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccH
Confidence            888899999999999999999999875  45     345555666553  22  34899999999998775  3443334


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcC---------CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040367          254 NTLMDGFCLTGRVNRAKELFVSMESMG---------CTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG  315 (400)
Q Consensus       254 ~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  315 (400)
                      ..++.++.+.|++++|...++.+.+..         -+.++.+...++......|+  +|.++++++.+..
T Consensus       215 ~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          215 LGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            445558999999999999999876531         14467777566666666776  8899999999864

>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=99.29  E-value=1.5e-09  Score=84.78  Aligned_cols=178  Identities=11%  Similarity=0.047  Sum_probs=145.5

Q ss_pred             HHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC----ChHHHHHH
Q 040367          162 DKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNG----KMDEASRL  237 (400)
Q Consensus       162 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~  237 (400)
                      .+|.+.|++..+.|   +...+..+...|...+++++|++.|++..+.|   ++..+..+...|.. +    ++++|..+
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~   75 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQL   75 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHH
Confidence            34666777777664   77888899999999999999999999999875   66777788888877 6    89999999


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCC-CChhhHHHHHHHHHh----cCCHHHHHHHH
Q 040367          238 LDLMIQIGVRPNAFVYNTLMDGFCL----TGRVNRAKELFVSMESMGCT-HTVFSYSILINGYCK----NKEIEGALSLY  308 (400)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~  308 (400)
                      |++..+.+   ++..+..|...|..    .+++++|...|++..+.+.. .++..+..|...|..    .+++++|.++|
T Consensus        76 ~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           76 AEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            99998865   66778888888887    88999999999999987521 126788889999988    88999999999


Q ss_pred             HHHHhCCCCCchhhHHHHHHHHHhh-C-----cHHHHHHHHHHHHHcCC
Q 040367          309 GEMLSKGIKPDVVIYNTLFVVLFEI-H-----QVERAFKLFDEMQRDGV  351 (400)
Q Consensus       309 ~~~~~~~~~~~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~~~~~~  351 (400)
                      ++..+.  ..+...+..+...|... |     ++++|..+|++..+.|.
T Consensus       153 ~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          153 KGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            999987  22455677777777643 3     89999999999998764

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.28  E-value=6.5e-10  Score=90.00  Aligned_cols=175  Identities=11%  Similarity=0.003  Sum_probs=138.8

Q ss_pred             CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC---HHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC--CCChh
Q 040367          212 QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPN---AFVYNTLMDGFCLTGRVNRAKELFVSMESMGC--THTVF  286 (400)
Q Consensus       212 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~  286 (400)
                      +.+...+......+.+.|++++|...|+++.+.... +   ...+..+..+|...|++++|...|+++.+...  +....
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            346677778888999999999999999999986422 3   56788899999999999999999999998641  12245


Q ss_pred             hHHHHHHHHHh--------cCCHHHHHHHHHHHHhCCCCCchhhH-----------------HHHHHHHHhhCcHHHHHH
Q 040367          287 SYSILINGYCK--------NKEIEGALSLYGEMLSKGIKPDVVIY-----------------NTLFVVLFEIHQVERAFK  341 (400)
Q Consensus       287 ~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~~~~~~a~~  341 (400)
                      .+..+..++..        .|++++|...|+++++..+. +....                 ..+...+...|++++|+.
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  169 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAV  169 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHH
Confidence            67778888888        99999999999999986422 33333                 456788899999999999


Q ss_pred             HHHHHHHcCCCC--CHHHHHHHHHHHHhc----------CcHHHHHHHHHHHHHhcccchh
Q 040367          342 LFDEMQRDGVAA--DTWTYRTFIDGLCKN----------SYIVEAVELFRTLRILKCELDI  390 (400)
Q Consensus       342 ~~~~~~~~~~~~--~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~p~~  390 (400)
                      .|+++++.....  ....+..+..+|...          |++++|...|+++.+.  .|+.
T Consensus       170 ~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~  228 (261)
T 3qky_A          170 TYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI--FPDS  228 (261)
T ss_dssp             HHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH--CCCC
Confidence            999999863211  345777888888866          9999999999999874  4544

>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=99.27  E-value=1e-10  Score=107.90  Aligned_cols=173  Identities=13%  Similarity=-0.064  Sum_probs=143.5

Q ss_pred             HhcCCHHHHHHHHHHHH--------hCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHh
Q 040367          191 CYANDWNEAKCLLIEMM--------DQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCL  262 (400)
Q Consensus       191 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  262 (400)
                      ...|++++|++.+++..        +. .+.+...+..+..++...|++++|...++++.+.. +.+...+..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            78899999999999998        43 24566788888889999999999999999999864 3367888889999999


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHH
Q 040367          263 TGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKL  342 (400)
Q Consensus       263 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  342 (400)
                      .|++++|...|+++.+.. +.+...+..+..++.+.|++++ .+.|+++.+.+.. +...|..+..++.+.|++++|++.
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999999886 5578889999999999999999 9999999987533 677888999999999999999999


Q ss_pred             HHHHHHcCCCCC-HHHHHHHHHHHHhcCc
Q 040367          343 FDEMQRDGVAAD-TWTYRTFIDGLCKNSY  370 (400)
Q Consensus       343 ~~~~~~~~~~~~-~~~~~~l~~~~~~~g~  370 (400)
                      |+++.+.  .|+ ...+..+..++...|+
T Consensus       557 ~~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             HHhhccc--CcccHHHHHHHHHHHHccCC
Confidence            9998875  444 6677777777766554

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.26  E-value=1.6e-08  Score=82.60  Aligned_cols=230  Identities=9%  Similarity=-0.028  Sum_probs=174.3

Q ss_pred             hHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH----HhC---CCh
Q 040367          161 VDKAKELFLQMKDENINPDVVTYTSVIRGFCYAN--DWNEAKCLLIEMMDQGVQPNVVTFNVIMDEL----CKN---GKM  231 (400)
Q Consensus       161 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~  231 (400)
                      .++|++..+.++..+ |-+...|+.--.++...|  +++++++.++.++..+ +-+..+|+.--..+    ...   +++
T Consensus        49 s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           49 SERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             SHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             CHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCH
Confidence            456777777766654 446677888888888888  9999999999999864 33445555443333    444   789


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHH--HHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC------HHH
Q 040367          232 DEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVN--RAKELFVSMESMGCTHTVFSYSILINGYCKNKE------IEG  303 (400)
Q Consensus       232 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~  303 (400)
                      ++++.+++++.+.. +-+..+++--.-++.+.|.++  ++++.++++.+.+ +-|...|+.-.......+.      +++
T Consensus       127 ~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~e  204 (306)
T 3dra_A          127 YREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTIDE  204 (306)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHHH
Confidence            99999999999875 347788887777788888888  9999999999887 5688888887777777776      899


Q ss_pred             HHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHH-HHHHHHHHHHcC--CCCCHHHHHHHHHHHHhcCcHHHHHHHHHH
Q 040367          304 ALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVER-AFKLFDEMQRDG--VAADTWTYRTFIDGLCKNSYIVEAVELFRT  380 (400)
Q Consensus       304 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  380 (400)
                      +++.+++++...+. |...|+.+...+.+.|+... +..+.+++.+.+  -..+...+..++..|.+.|+.++|+++++.
T Consensus       205 El~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~  283 (306)
T 3dra_A          205 ELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDL  283 (306)
T ss_dssp             HHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Confidence            99999999987654 88889888888888887444 445666655432  134788899999999999999999999999


Q ss_pred             HHHhcccch-hHHHHHH
Q 040367          381 LRILKCELD-IRAYNCL  396 (400)
Q Consensus       381 ~~~~~~~p~-~~~~~~l  396 (400)
                      +.+. +.|. ...|+..
T Consensus       284 l~~~-~Dpir~~yW~~~  299 (306)
T 3dra_A          284 LKSK-YNPIRSNFWDYQ  299 (306)
T ss_dssp             HHHT-TCGGGHHHHHHH
T ss_pred             HHhc-cChHHHHHHHHH
Confidence            9853 3443 3445443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.26  E-value=3e-09  Score=83.90  Aligned_cols=186  Identities=10%  Similarity=-0.006  Sum_probs=121.2

Q ss_pred             ChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-C-CHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH--HhHH
Q 040367          179 DVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQ-P-NVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNA--FVYN  254 (400)
Q Consensus       179 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~  254 (400)
                      +...+..+...+...|++++|+..|+++.+.... + ....+..+..++.+.|++++|...|+++.+.......  ..+.
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            3445666777888999999999999998875321 1 1356777888999999999999999999886432111  2344


Q ss_pred             HHHHHHHh------------------cCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 040367          255 TLMDGFCL------------------TGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGI  316 (400)
Q Consensus       255 ~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  316 (400)
                      .+..++..                  .|++++|...|+++.+.. |.+...+......-          .+...+     
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            45555544                  345566666666655542 22222221111100          000000     


Q ss_pred             CCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCcHHHHHHHHHHHHHhc
Q 040367          317 KPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAAD----TWTYRTFIDGLCKNSYIVEAVELFRTLRILK  385 (400)
Q Consensus       317 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  385 (400)
                         ......+...+.+.|++++|+..|+++++.  .|+    ...+..+..++.+.|++++|.+.++.+...+
T Consensus       147 ---~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          147 ---AKYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             ---HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             ---HHHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence               001134567788899999999999999986  233    2568889999999999999999999888753

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.24  E-value=2.5e-10  Score=105.31  Aligned_cols=171  Identities=11%  Similarity=-0.068  Sum_probs=82.2

Q ss_pred             HhcCChhhHHHHHHHHH--------hcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 040367           63 CKMGRVSHGFVVLGRIL--------RSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYR  134 (400)
Q Consensus        63 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  134 (400)
                      ...|++++|++.++++.        +.. +.+...+..+...+...|++++|.+.|++..+.+ +.+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            44455555555555554        221 2234445555555555555555555555555443 3344555555555555


Q ss_pred             cCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 040367          135 TGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPN  214 (400)
Q Consensus       135 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  214 (400)
                      .|++++|+..|+++.+.+                        +.+...+..+..++.+.|++++ ++.|++..+.+ +.+
T Consensus       480 ~g~~~~A~~~~~~al~l~------------------------P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~  533 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF------------------------PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGV  533 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS------------------------TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTC
T ss_pred             cCCHHHHHHHHHHHHHhC------------------------CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-Cch
Confidence            555444444433332211                        2234445555555555555555 55555555442 234


Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHh
Q 040367          215 VVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCL  262 (400)
Q Consensus       215 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  262 (400)
                      ...+..+..++.+.|++++|...|+++.+.. +.+...+..+..++..
T Consensus       534 ~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~~~~~~~~  580 (681)
T 2pzi_A          534 ISAAFGLARARSAEGDRVGAVRTLDEVPPTS-RHFTTARLTSAVTLLS  580 (681)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSCTTS-TTHHHHHHHHHHHTC-
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHhhcccC-cccHHHHHHHHHHHHc
Confidence            4455555555555555555555555554432 1123344444444433

>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=99.23  E-value=7.9e-10  Score=91.75  Aligned_cols=187  Identities=11%  Similarity=0.006  Sum_probs=110.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCC---CC--CHHhHHHH
Q 040367          187 IRGFCYANDWNEAKCLLIEMMDQ----GVQ-PNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV---RP--NAFVYNTL  256 (400)
Q Consensus       187 ~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l  256 (400)
                      ...|...|++++|...|.+..+.    +.. .-..+|..+..+|...|++++|...+++..+...   .+  ...++..+
T Consensus        43 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~l  122 (307)
T 2ifu_A           43 AVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRA  122 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34566677777777777766542    110 0134666677777777788777777777655311   11  13456667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCC-----ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCc-hhhHHHH
Q 040367          257 MDGFCLTGRVNRAKELFVSMESMGCTH-----TVFSYSILINGYCKNKEIEGALSLYGEMLSK----GIKPD-VVIYNTL  326 (400)
Q Consensus       257 ~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l  326 (400)
                      ..+|.. |++++|+..|++..+.....     ...++..+...|...|++++|++.+++..+.    +..+. ...+..+
T Consensus       123 g~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  201 (307)
T 2ifu_A          123 GKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQ  201 (307)
T ss_dssp             HHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHH
Confidence            777777 88888888887765532111     1345667777788888888888888777653    11111 1245555


Q ss_pred             HHHHHhhCcHHHHHHHHHHHHHcCCC--CC--HHHHHHHHHHHHhcCcHHHHHH
Q 040367          327 FVVLFEIHQVERAFKLFDEMQRDGVA--AD--TWTYRTFIDGLCKNSYIVEAVE  376 (400)
Q Consensus       327 ~~~~~~~~~~~~a~~~~~~~~~~~~~--~~--~~~~~~l~~~~~~~g~~~~a~~  376 (400)
                      +.++...|++++|...|++.. ....  ..  ......++.++ ..|+.+.+.+
T Consensus       202 g~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          202 VLVQLHRADYVAAQKCVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            566666788888888888777 3110  11  12334445444 4566655554

>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=99.23  E-value=8.7e-11  Score=86.15  Aligned_cols=81  Identities=12%  Similarity=0.069  Sum_probs=33.6

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC
Q 040367          220 VIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNK  299 (400)
Q Consensus       220 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  299 (400)
                      .+...|.+.|++++|.+.|+++++.. +.+..++..+..+|...|++++|...|++..+.+ +.+...+..+...|.+.|
T Consensus        36 ~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  113 (150)
T 4ga2_A           36 YFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAVECYRRSVELN-PTQKDLVLKIAELLCKND  113 (150)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            33444444444444444444444432 1133344444444444444444444444444432 223334444444444444


Q ss_pred             CHH
Q 040367          300 EIE  302 (400)
Q Consensus       300 ~~~  302 (400)
                      +++
T Consensus       114 ~~~  116 (150)
T 4ga2_A          114 VTD  116 (150)
T ss_dssp             SSS
T ss_pred             ChH
Confidence            443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.22  E-value=3e-08  Score=81.01  Aligned_cols=225  Identities=8%  Similarity=-0.022  Sum_probs=157.9

Q ss_pred             hccCC-hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--ChhhHHHHHHHHHhcCCCCChhhHHHHHHHH----Hhc
Q 040367           28 AKNKH-YDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMG--RVSHGFVVLGRILRSCFTPNAVTFTSLIKGL----CAE  100 (400)
Q Consensus        28 ~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~  100 (400)
                      .+.|. .++|+.+++.+...+ +-+..+|+.-..++...|  +++++++.++.++..++ -+..+|+.-...+    ...
T Consensus        43 ~~~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nP-k~y~aW~~R~~iL~~~~~~l  120 (306)
T 3dra_A           43 MKAEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNE-KNYQIWNYRQLIIGQIMELN  120 (306)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCT-TCCHHHHHHHHHHHHHHHHT
T ss_pred             HHcCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCc-ccHHHHHHHHHHHHHHHHhc
Confidence            34444 468999999999875 446777888888888888  99999999999998763 3667777666555    455


Q ss_pred             ---CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCC
Q 040367          101 ---SRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENIN  177 (400)
Q Consensus       101 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  177 (400)
                         +++++++.+++++.+.. +.+..+|+.-.-.+.+.|.++                     .+++++.++++.+.+ +
T Consensus       121 ~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~---------------------~~~EL~~~~~~i~~d-~  177 (306)
T 3dra_A          121 NNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHN---------------------DAKELSFVDKVIDTD-L  177 (306)
T ss_dssp             TTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTT---------------------CHHHHHHHHHHHHHC-T
T ss_pred             cccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccC---------------------hHHHHHHHHHHHHhC-C
Confidence               78999999999999886 668888888888888888755                     113444444444443 4


Q ss_pred             CChHhHHHHHHHHHhcCC------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHH-HHHHHHHHHHcC--CCC
Q 040367          178 PDVVTYTSVIRGFCYAND------WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDE-ASRLLDLMIQIG--VRP  248 (400)
Q Consensus       178 ~~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~--~~~  248 (400)
                      -|...|+.-..+....+.      ++++++.+++++... +-|...|+..-..+.+.|+... +..+..++.+.+  -..
T Consensus       178 ~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~  256 (306)
T 3dra_A          178 KNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVT  256 (306)
T ss_dssp             TCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEES
T ss_pred             CCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCC
Confidence            466777766666666665      778888888877764 5577777777777777666433 444555544322  123


Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          249 NAFVYNTLMDGFCLTGRVNRAKELFVSMES  278 (400)
Q Consensus       249 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  278 (400)
                      ++..+..++.+|.+.|+.++|.++++.+.+
T Consensus       257 s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          257 SSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            556666677777777777777777777765

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.22  E-value=5.9e-09  Score=82.23  Aligned_cols=174  Identities=9%  Similarity=-0.042  Sum_probs=116.8

Q ss_pred             cccchHHHHHHHHHHHhCCCC-C-ChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC-HHHHHHHHHHHHh-----
Q 040367          157 VEGFVDKAKELFLQMKDENIN-P-DVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQ-PN-VVTFNVIMDELCK-----  227 (400)
Q Consensus       157 ~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-~~~~~~l~~~~~~-----  227 (400)
                      ..|++++|+..|+++.+.... + ....+..+..++.+.|++++|+..|+++.+.... +. ...+..+..++..     
T Consensus        16 ~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~~   95 (225)
T 2yhc_A           16 QDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDSA   95 (225)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC--
T ss_pred             HcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhhh
Confidence            368899999999999875321 1 1357788899999999999999999999876422 11 1245555555543     


Q ss_pred             -------------CCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 040367          228 -------------NGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILING  294 (400)
Q Consensus       228 -------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  294 (400)
                                   .|++++|...|+++++... -+..........          ..+...+.        .....+...
T Consensus        96 ~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P-~~~~a~~a~~~l----------~~~~~~~~--------~~~~~~a~~  156 (225)
T 2yhc_A           96 LQGFFGVDRSDRDPQQARAAFSDFSKLVRGYP-NSQYTTDATKRL----------VFLKDRLA--------KYEYSVAEY  156 (225)
T ss_dssp             ------------CCHHHHHHHHHHHHHHTTCT-TCTTHHHHHHHH----------HHHHHHHH--------HHHHHHHHH
T ss_pred             hhhhhccchhhcCcHHHHHHHHHHHHHHHHCc-CChhHHHHHHHH----------HHHHHHHH--------HHHHHHHHH
Confidence                         5789999999999998632 222222211110          00111111        112345677


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCc--hhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          295 YCKNKEIEGALSLYGEMLSKGIKPD--VVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       295 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      |.+.|++++|...|+++++..+...  ...+..+..++.+.|++++|.+.++.+...
T Consensus       157 ~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          157 YTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             HHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence            8888899999999988887632211  245777888888899999999998888775

>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=99.21  E-value=3.5e-10  Score=85.53  Aligned_cols=167  Identities=11%  Similarity=-0.029  Sum_probs=125.2

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      +...+......+.+.|++++|+..|++..+.. +.+...+..+..++...|++++|+..++++....  |+...+..+..
T Consensus         5 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~   81 (176)
T 2r5s_A            5 PDEQLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAK   81 (176)
T ss_dssp             -CTTHHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHH
Confidence            34567778889999999999999999987764 4578899999999999999999999999988764  34444333222


Q ss_pred             H-HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhC
Q 040367           96 G-LCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDE  174 (400)
Q Consensus        96 ~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  174 (400)
                      . +...+...+|...+++..+.. +.+...+..+...+...|++++|...|+++....+.                    
T Consensus        82 ~~~~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~--------------------  140 (176)
T 2r5s_A           82 LELHQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLG--------------------  140 (176)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT--------------------
T ss_pred             HHHHhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcc--------------------
Confidence            2 222233345788899888774 457899999999999999976666666665443211                    


Q ss_pred             CCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          175 NINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMD  208 (400)
Q Consensus       175 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  208 (400)
                        ..+...+..+..++...|+.++|...|++.+.
T Consensus       141 --~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          141 --AQDGEVKKTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             --TTTTHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             --cChHHHHHHHHHHHHHhCCCCcHHHHHHHHHH
Confidence              12356788899999999999999999987654

>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=99.21  E-value=2.9e-10  Score=85.97  Aligned_cols=161  Identities=12%  Similarity=0.009  Sum_probs=78.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHH-HH
Q 040367          183 YTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDG-FC  261 (400)
Q Consensus       183 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~  261 (400)
                      +......+...|++++|+..+++..+.. +.+...+..+..++...|++++|...++++....  |+......+... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHH
Confidence            3444555666666666666666655432 3345555666666666666666666666655432  132222211111 11


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-chhhHHHHHHHHHhhCcHHHHH
Q 040367          262 LTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKP-DVVIYNTLFVVLFEIHQVERAF  340 (400)
Q Consensus       262 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~  340 (400)
                      ..++...|...+++..+.. +.+...+..+...+...|++++|...++++.+..+.+ +...+..+...+...|+.++|.
T Consensus        86 ~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHH
T ss_pred             hhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHH
Confidence            1112223445555554443 3344455555555555555555555555555443221 1334445555555555555555


Q ss_pred             HHHHHHH
Q 040367          341 KLFDEMQ  347 (400)
Q Consensus       341 ~~~~~~~  347 (400)
                      ..|++.+
T Consensus       165 ~~y~~al  171 (176)
T 2r5s_A          165 SKYRRQL  171 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5554443

>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=99.20  E-value=1.1e-10  Score=85.64  Aligned_cols=143  Identities=8%  Similarity=-0.051  Sum_probs=91.6

Q ss_pred             HHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHH
Q 040367          224 ELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEG  303 (400)
Q Consensus       224 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  303 (400)
                      .+...|++++|+..+....... +.+...+..+...|.+.|++++|+..|++..+.. +.+...|..+..+|...|++++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHH
Confidence            4445566777777777665431 1123445566777777777777777777777765 4567777777777777777777


Q ss_pred             HHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHH-HHHHHHcCCCCCHHHHHHHHHHHHhcCc
Q 040367          304 ALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKL-FDEMQRDGVAADTWTYRTFIDGLCKNSY  370 (400)
Q Consensus       304 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~g~  370 (400)
                      |...|+++++..+. +...+..+...+.+.|++++|.+. ++++.+.. +-++.+|......+...|+
T Consensus        84 A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           84 AVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCc
Confidence            77777777775422 566677777777777777655543 46666642 2345666655555555553

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.20  E-value=9.3e-10  Score=90.28  Aligned_cols=161  Identities=10%  Similarity=0.002  Sum_probs=67.6

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHH-HHHHH
Q 040367          181 VTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYN-TLMDG  259 (400)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~  259 (400)
                      ..+..+...+...|++++|...|+++.+.. +.+...+..+...+.+.|++++|...++++....  |+..... .....
T Consensus       118 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~~~~  194 (287)
T 3qou_A          118 ELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVAQIE  194 (287)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHHHHH
Confidence            334444444445555555555555544432 2234444444444445555555555554443321  2221111 11112


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-chhhHHHHHHHHHhhCcHHH
Q 040367          260 FCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKP-DVVIYNTLFVVLFEIHQVER  338 (400)
Q Consensus       260 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~  338 (400)
                      +...++.+.|...+++..... +.+...+..+...+...|++++|...++++.+..... +...+..++..+...|+.++
T Consensus       195 l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  273 (287)
T 3qou_A          195 LLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDA  273 (287)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCH
T ss_pred             HHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCc
Confidence            333344444444444444433 3334444444444444444444444444444432111 12334444444444444444


Q ss_pred             HHHHHHH
Q 040367          339 AFKLFDE  345 (400)
Q Consensus       339 a~~~~~~  345 (400)
                      |...+++
T Consensus       274 a~~~~r~  280 (287)
T 3qou_A          274 LASXYRR  280 (287)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>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=99.18  E-value=1.4e-09  Score=98.61  Aligned_cols=154  Identities=10%  Similarity=-0.024  Sum_probs=115.0

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHH
Q 040367          193 ANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKEL  272 (400)
Q Consensus       193 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  272 (400)
                      .|++++|++.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+..+|...|++++|...
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            478899999999988763 4467888888899999999999999999998864 33677888899999999999999999


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhh---CcHHHHHHHHHHHHHc
Q 040367          273 FVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEI---HQVERAFKLFDEMQRD  349 (400)
Q Consensus       273 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~  349 (400)
                      +++..+.. +.+...+..+..++...|++++|.+.++++.+... .+...+..+..++...   |++++|.+.++++.+.
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 55678888999999999999999999999888643 3567788888888888   9999999999998886


Q ss_pred             C
Q 040367          350 G  350 (400)
Q Consensus       350 ~  350 (400)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            4

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.18  E-value=1.5e-09  Score=89.13  Aligned_cols=168  Identities=14%  Similarity=0.079  Sum_probs=137.6

Q ss_pred             CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHH-H
Q 040367          212 QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYS-I  290 (400)
Q Consensus       212 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~  290 (400)
                      +.+...+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++|...++++....  |+..... .
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            4456677788888999999999999999999874 3367788899999999999999999999998764  4443332 3


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHhcC
Q 040367          291 LINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVA-ADTWTYRTFIDGLCKNS  369 (400)
Q Consensus       291 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g  369 (400)
                      ....+...++.++|.+.+++..+..+ .+...+..+...+...|++++|+..++++.+.... .+...+..++..+...|
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            33346677888899999999988753 36788899999999999999999999999986322 12678899999999999


Q ss_pred             cHHHHHHHHHHHHH
Q 040367          370 YIVEAVELFRTLRI  383 (400)
Q Consensus       370 ~~~~a~~~~~~~~~  383 (400)
                      +.++|...+++.+.
T Consensus       270 ~~~~a~~~~r~al~  283 (287)
T 3qou_A          270 TGDALASXYRRQLY  283 (287)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            99999999988764

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.17  E-value=1.5e-07  Score=83.10  Aligned_cols=321  Identities=10%  Similarity=0.002  Sum_probs=199.1

Q ss_pred             ccC-ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC-HHHH
Q 040367           29 KNK-HYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESR-IMEA  106 (400)
Q Consensus        29 ~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a  106 (400)
                      +.| +++.|..+|+.+...  -|.              |+++.+..+|++.+..  .|+...|...+....+.+. .+..
T Consensus         6 ~~~~~i~~aR~vyer~l~~--~P~--------------~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i   67 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARRL--YMS--------------KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKL   67 (493)
T ss_dssp             ------CCHHHHHHHHHHH--HHT--------------TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CT
T ss_pred             HcCcchHHHHHHHHHHHHH--CCC--------------CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHH
Confidence            456 488888888888765  233              7899999999999985  5799999999988777764 4557


Q ss_pred             HHHHHHHHHc-CC-CCCHHHHHHHHHHHH----hcCChHHHHHHHHHHHcCCCCCCcc----------------------
Q 040367          107 AALFTKLRVF-GC-EPNVFTYNTLINGLY----RTGHTIVALNLFEEMASGNGEFGVE----------------------  158 (400)
Q Consensus       107 ~~~~~~~~~~-~~-~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~----------------------  158 (400)
                      ..+|+..... |. +.+...|...+..+.    ..++.+.+..+|++.+.... ....                      
T Consensus        68 ~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~-~~~~~lw~~Y~~fE~~~~~~~~~~~~  146 (493)
T 2uy1_A           68 YEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPM-GSLSELWKDFENFELELNKITGKKIV  146 (493)
T ss_dssp             HHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCC-TTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChh-hhHHHHHHHHHHHHHHhccccHHHHH
Confidence            7788877764 43 347788888887654    34678889999999987422 1110                      


Q ss_pred             ----cchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcC--C-----HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 040367          159 ----GFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYAN--D-----WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCK  227 (400)
Q Consensus       159 ----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~-----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  227 (400)
                          +.+..|..+++.+...-...+...|...+..-...+  -     .+.+..+|++++.. .+.+...|...+..+.+
T Consensus       147 ~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~-~p~~~~lW~~ya~~~~~  225 (493)
T 2uy1_A          147 GDTLPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDS-FYYAEEVYFFYSEYLIG  225 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHH
Confidence                011112222222221100012335555554432221  1     34567788888875 35668888888888889


Q ss_pred             CCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcC------------CCCChhhHHHHHHHH
Q 040367          228 NGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMG------------CTHTVFSYSILINGY  295 (400)
Q Consensus       228 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------------~~~~~~~~~~l~~~~  295 (400)
                      .|+.+.|..++++....  +.+...+.    .|....+.++.   ++.+.+.-            .......|...+...
T Consensus       226 ~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~  296 (493)
T 2uy1_A          226 IGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYV  296 (493)
T ss_dssp             TTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHH
Confidence            99999999999999987  33332222    22222111121   22222210            011124566677777


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhC-cHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHH
Q 040367          296 CKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIH-QVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEA  374 (400)
Q Consensus       296 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  374 (400)
                      .+.++.+.|..+|+++ +. ...+...|...+..-...+ +.+.|..+|+...+. .+.+...+...++...+.|+.+.|
T Consensus       297 ~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~-~~~~~~~~~~yid~e~~~~~~~~a  373 (493)
T 2uy1_A          297 LKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLK-HPDSTLLKEEFFLFLLRIGDEENA  373 (493)
T ss_dssp             HHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCCHHHH
Confidence            7788899999999999 32 1224444443332222334 699999999999886 333456677778877889999999


Q ss_pred             HHHHHHH
Q 040367          375 VELFRTL  381 (400)
Q Consensus       375 ~~~~~~~  381 (400)
                      ..+|+++
T Consensus       374 R~l~er~  380 (493)
T 2uy1_A          374 RALFKRL  380 (493)
T ss_dssp             HHHHHHS
T ss_pred             HHHHHHH
Confidence            9888876

>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=99.14  E-value=2.8e-09  Score=96.61  Aligned_cols=154  Identities=8%  Similarity=-0.006  Sum_probs=121.3

Q ss_pred             cchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHH
Q 040367          159 GFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLL  238 (400)
Q Consensus       159 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  238 (400)
                      |++++|.+.+++..+.. +.+...+..+...+...|++++|++.+++..+.. +.+...+..+..++...|++++|.+.+
T Consensus         3 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            34666777777666553 4467889999999999999999999999999874 456888999999999999999999999


Q ss_pred             HHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc---CCHHHHHHHHHHHHhCC
Q 040367          239 DLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKN---KEIEGALSLYGEMLSKG  315 (400)
Q Consensus       239 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~  315 (400)
                      ++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+...+...   |++++|.+.++++.+.+
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            9999874 3467888999999999999999999999999876 55778899999999999   99999999999998875


Q ss_pred             C
Q 040367          316 I  316 (400)
Q Consensus       316 ~  316 (400)
                      .
T Consensus       159 p  159 (568)
T 2vsy_A          159 V  159 (568)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.13  E-value=4.6e-08  Score=80.52  Aligned_cols=207  Identities=11%  Similarity=0.071  Sum_probs=142.3

Q ss_pred             HHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH---HHHHHHHHHHhCCChHHHHHHHHHHHHc
Q 040367          168 FLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVV---TFNVIMDELCKNGKMDEASRLLDLMIQI  244 (400)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~  244 (400)
                      +.++......|+..+...+...+...-+         .+.......+..   .+...+..+...|++++|..++++..+.
T Consensus        34 ~s~~e~g~~~~~~~~l~~i~~~l~~~~~---------~~~~~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~  104 (293)
T 3u3w_A           34 VSRIESGAVYPSMDILQGIAAKLQIPII---------HFYEVLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELKK  104 (293)
T ss_dssp             HHHHHTTSCCCCHHHHHHHHHHHTCCTH---------HHHHTTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHhCcCHH---------HHhCCCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhcc
Confidence            3334333346777776666665532211         111111122232   2333466788899999999999999875


Q ss_pred             CC-CCCH----HhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-CC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          245 GV-RPNA----FVYNTLMDGFCLTGRVNRAKELFVSMESMGCT-HT----VFSYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       245 ~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      .. .|+.    ..+..+...+...+++++|...++++.+.... ++    ..+++.+...|...|++++|...++++.+.
T Consensus       105 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~  184 (293)
T 3u3w_A          105 EEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQ  184 (293)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            32 2221    13335677777888999999999999874322 22    236889999999999999999999998841


Q ss_pred             -----CCCC-chhhHHHHHHHHHhhCcHHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHhcCc-HHHHHHHHHHHH
Q 040367          315 -----GIKP-DVVIYNTLFVVLFEIHQVERAFKLFDEMQRD----GVAAD-TWTYRTFIDGLCKNSY-IVEAVELFRTLR  382 (400)
Q Consensus       315 -----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~-~~~a~~~~~~~~  382 (400)
                           +..+ ...++..+...|...|++++|...++++++.    +..+. ..+|..+..++.+.|+ +++|.+.+++..
T Consensus       185 ~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          185 LEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence                 1112 2347788899999999999999999988753    22222 6788999999999994 699999999886


Q ss_pred             H
Q 040367          383 I  383 (400)
Q Consensus       383 ~  383 (400)
                      .
T Consensus       265 ~  265 (293)
T 3u3w_A          265 F  265 (293)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.13  E-value=1.8e-09  Score=89.54  Aligned_cols=198  Identities=9%  Similarity=-0.037  Sum_probs=143.9

Q ss_pred             cchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHH
Q 040367          159 GFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLL  238 (400)
Q Consensus       159 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  238 (400)
                      |++++|.+++++..+.. +..         .+...++++.|...|.++               ...|...|++++|...+
T Consensus         5 ~~~~eA~~~~~~a~k~~-~~~---------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~   59 (307)
T 2ifu_A            5 QKISEAHEHIAKAEKYL-KTS---------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDAY   59 (307)
T ss_dssp             HHHHHHHHHHHHHHHHH-CCC---------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHc-ccc---------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHH
Confidence            44666666666665431 111         011157888888888765               34677899999999999


Q ss_pred             HHHHHcCC---CC--CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC---CC--ChhhHHHHHHHHHhcCCHHHHHHHH
Q 040367          239 DLMIQIGV---RP--NAFVYNTLMDGFCLTGRVNRAKELFVSMESMGC---TH--TVFSYSILINGYCKNKEIEGALSLY  308 (400)
Q Consensus       239 ~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~  308 (400)
                      .+..+...   .+  -..++..+..+|...|++++|...|++..+...   .+  ...++..+...|.. |++++|++.+
T Consensus        60 ~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~  138 (307)
T 2ifu_A           60 LQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLY  138 (307)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHH
Confidence            98876411   11  145788888999999999999999998765311   11  13567888889988 9999999999


Q ss_pred             HHHHhCCCC---C--chhhHHHHHHHHHhhCcHHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHhcCcHHHHHHHH
Q 040367          309 GEMLSKGIK---P--DVVIYNTLFVVLFEIHQVERAFKLFDEMQRD----GVAAD-TWTYRTFIDGLCKNSYIVEAVELF  378 (400)
Q Consensus       309 ~~~~~~~~~---~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~  378 (400)
                      ++.++....   +  ...++..+...+...|++++|+..|+++.+.    +..+. ...+..+..++...|++++|...|
T Consensus       139 ~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~  218 (307)
T 2ifu_A          139 QQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCV  218 (307)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            988764111   1  1457788899999999999999999998864    11111 235667777888889999999999


Q ss_pred             HHHH
Q 040367          379 RTLR  382 (400)
Q Consensus       379 ~~~~  382 (400)
                      ++..
T Consensus       219 ~~al  222 (307)
T 2ifu_A          219 RESY  222 (307)
T ss_dssp             HHHT
T ss_pred             HHHh
Confidence            9998

>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=99.04  E-value=1.9e-08  Score=78.52  Aligned_cols=128  Identities=9%  Similarity=0.004  Sum_probs=102.3

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 040367          216 VTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGY  295 (400)
Q Consensus       216 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  295 (400)
                      ..+..+...+...|++++|...++++.    .|+...+..+..++...|++++|...+++..+.. +.+...+..+..++
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            345566677888899999998888763    5577888888888888999999999998888775 55677888888888


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCch----------------hhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          296 CKNKEIEGALSLYGEMLSKGIKPDV----------------VIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       296 ~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      ...|++++|.+.++++.+.... +.                ..+..+..++...|++++|...|+++.+.
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRG-NQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTT-CSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHcccHHHHHHHHHHHHHhCCC-ccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            8999999999999888876422 22                56777888888888888888888888875

>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=99.04  E-value=1.6e-07  Score=77.22  Aligned_cols=164  Identities=9%  Similarity=0.061  Sum_probs=120.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCHH----HHHHHHHHHHhCCChHHHHHHHHHHHHcCCC-CC----HHhHH
Q 040367          185 SVIRGFCYANDWNEAKCLLIEMMDQGV-QPNVV----TFNVIMDELCKNGKMDEASRLLDLMIQIGVR-PN----AFVYN  254 (400)
Q Consensus       185 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~  254 (400)
                      ..+..+...|++++|...+++..+... .|+..    .+..+...+...|++++|...++++.+.... ++    ..+++
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            346678889999999999999887431 22211    2334666677778999999999999874222 22    23688


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhc-----CCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-chhhH
Q 040367          255 TLMDGFCLTGRVNRAKELFVSMESM-----GCTH-TVFSYSILINGYCKNKEIEGALSLYGEMLSK----GIKP-DVVIY  323 (400)
Q Consensus       255 ~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~  323 (400)
                      .+..+|...|++++|...|+++.+.     +..+ ...++..+...|...|++++|.+.+++.++.    +..+ -..+|
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            8999999999999999999988741     1111 2346788899999999999999999888753    2111 25678


Q ss_pred             HHHHHHHHhhC-cHHHHHHHHHHHHH
Q 040367          324 NTLFVVLFEIH-QVERAFKLFDEMQR  348 (400)
Q Consensus       324 ~~l~~~~~~~~-~~~~a~~~~~~~~~  348 (400)
                      ..+..++...| .+++|.+.++++..
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            88889999999 46999999988764

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.04  E-value=5e-09  Score=74.06  Aligned_cols=111  Identities=10%  Similarity=-0.006  Sum_probs=84.9

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      ....+......+.+.|++++|++.|++..+.. +.+..+|..+..++...|++++|+..+++.++.+ +.+...|..+..
T Consensus        12 ~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~   89 (126)
T 4gco_A           12 LAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAA   89 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHH
Confidence            45667778888888888888888888887764 4567788888888888888888888888888765 346777888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLI  129 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  129 (400)
                      ++...|++++|.+.|++..+.. |-+...+..+.
T Consensus        90 ~~~~~~~~~~A~~~~~~al~l~-P~~~~a~~~l~  122 (126)
T 4gco_A           90 CLVAMREWSKAQRAYEDALQVD-PSNEEAREGVR  122 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHC-cCCHHHHHHHH
Confidence            8888888888888888888764 33555555443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.03  E-value=2.5e-09  Score=77.92  Aligned_cols=101  Identities=14%  Similarity=0.049  Sum_probs=60.3

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 040367           52 LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLING  131 (400)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  131 (400)
                      ...+..+...+.+.|++++|...|+++.... +.+...|..+..++...|++++|+..|++..+.. |.+...|..+..+
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~  113 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHH
Confidence            3455555566666666666666666666553 2345556666666666666666666666666553 3345566666666


Q ss_pred             HHhcCChHHHHHHHHHHHcCCCC
Q 040367          132 LYRTGHTIVALNLFEEMASGNGE  154 (400)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~~~~  154 (400)
                      +.+.|++++|+..|++.....+.
T Consensus       114 ~~~lg~~~eA~~~~~~al~l~~~  136 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQHSND  136 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCC
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC
Confidence            66666666666666666555443

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.03  E-value=6.6e-08  Score=75.42  Aligned_cols=129  Identities=14%  Similarity=-0.058  Sum_probs=110.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHH
Q 040367          182 TYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFC  261 (400)
Q Consensus       182 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  261 (400)
                      .+..+...+...|++++|+..|++..    .|+...+..+..++...|++++|...+++..+.. +.+...+..+..++.
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            45567778889999999999998874    5678899999999999999999999999998874 446788889999999


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCh----------------hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 040367          262 LTGRVNRAKELFVSMESMGCTHTV----------------FSYSILINGYCKNKEIEGALSLYGEMLSKGI  316 (400)
Q Consensus       262 ~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  316 (400)
                      ..|++++|...|++..+.. +.+.                ..+..+..++...|++++|.+.++++.+...
T Consensus        83 ~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HcccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            9999999999999998864 2233                6788899999999999999999999998643

>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=99.02  E-value=3.1e-08  Score=73.81  Aligned_cols=128  Identities=10%  Similarity=0.043  Sum_probs=79.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHH
Q 040367          252 VYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLF  331 (400)
Q Consensus       252 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  331 (400)
                      .+..+...+...|++++|...|.+..+.. +.+...+..+..++...|++++|.+.+++..+.. +.+...+..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            34455566666667777777766666554 3456666666666777777777777777666653 224556666666777


Q ss_pred             hhCcHHHHHHHHHHHHHcCCCCCHHHHHH--HHHHHHhcCcHHHHHHHHHHHH
Q 040367          332 EIHQVERAFKLFDEMQRDGVAADTWTYRT--FIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       332 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                      ..|++++|...++++.+.. +.+...+..  .+..+.+.|++++|++.++...
T Consensus        93 ~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            7777777777777766652 223444433  3333566677777777776654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.02  E-value=1.1e-07  Score=78.33  Aligned_cols=167  Identities=12%  Similarity=0.020  Sum_probs=123.4

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH-----HhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC---CC--h
Q 040367          216 VTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNA-----FVYNTLMDGFCLTGRVNRAKELFVSMESMGCT---HT--V  285 (400)
Q Consensus       216 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~--~  285 (400)
                      ..+...+..+...|++++|.+.+.+..+.......     ..+..+...+...|++++|...+.+..+....   +.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            34555677888899999999999888775322111     22344666777889999999999988753211   11  3


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHh---CCC-CC--chhhHHHHHHHHHhhCcHHHHHHHHHHHHHcC----CCC-C
Q 040367          286 FSYSILINGYCKNKEIEGALSLYGEMLS---KGI-KP--DVVIYNTLFVVLFEIHQVERAFKLFDEMQRDG----VAA-D  354 (400)
Q Consensus       286 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~  354 (400)
                      .+++.+...|...|++++|...++++.+   ... .+  ...++..+..+|...|++++|...+++..+..    ... -
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~  235 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALI  235 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            4788899999999999999999998873   211 11  12578888999999999999999999887531    111 1


Q ss_pred             HHHHHHHHHHHHhcCcHHHH-HHHHHHHH
Q 040367          355 TWTYRTFIDGLCKNSYIVEA-VELFRTLR  382 (400)
Q Consensus       355 ~~~~~~l~~~~~~~g~~~~a-~~~~~~~~  382 (400)
                      ..+|..+..+|.+.|++++| ...+++..
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            67788899999999999999 77787765

>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=99.00  E-value=4.9e-09  Score=85.67  Aligned_cols=194  Identities=10%  Similarity=0.011  Sum_probs=135.3

Q ss_pred             ChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 040367          179 DVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMD  258 (400)
Q Consensus       179 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  258 (400)
                      +...+..+...+...|++++|+..|++..+.. +.+...+..+..++.+.|++++|...++++.+.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            55678888899999999999999999998864 4478889999999999999999999999998864 346788889999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHH
Q 040367          259 GFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVER  338 (400)
Q Consensus       259 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  338 (400)
                      ++...|++++|...|++..+.+ +.+...+...+....+   ..++.. +........+.+......+...  ..|++++
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~i~~~l~~l--~~~~~~~  153 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLA-KEQRLNFGDDIPSALR---IAKKKR-WNSIEERRIHQESELHSYLTRL--IAAERER  153 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH-HHTTCCCCSHHHHHHH---HHHHHH-HHHHHHTCCCCCCHHHHHHHHH--HHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHH---HHHHHH-HHHHHHHHHhhhHHHHHHHHHH--HHHHHHH
Confidence            9999999999999999987653 1121122222222221   111122 2223333344455544444333  3799999


Q ss_pred             HHHHHHHHHHcCCCCCH-HHHHHHHHHHHhc-CcHHHHHHHHHHHHH
Q 040367          339 AFKLFDEMQRDGVAADT-WTYRTFIDGLCKN-SYIVEAVELFRTLRI  383 (400)
Q Consensus       339 a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~-g~~~~a~~~~~~~~~  383 (400)
                      |++.++++.+.  .|+. .....+...+.+. +.+++|.++|.++.+
T Consensus       154 A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          154 ELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            99999888765  4443 3334444444444 678889999988764

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.00  E-value=2.7e-08  Score=70.19  Aligned_cols=91  Identities=13%  Similarity=0.086  Sum_probs=35.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCc
Q 040367          256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQ  335 (400)
Q Consensus       256 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  335 (400)
                      ....|.+.|++++|+..|++..+.. +.+...|..+..++...|++++|++.+++.++.+.. +...|..+..++...|+
T Consensus        19 ~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~   96 (126)
T 4gco_A           19 KGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK-FIKGYIRKAACLVAMRE   96 (126)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh-hhHHHHHHHHHHHHCCC
Confidence            3333444444444444444433332 223333334444444444444444444443333211 23333333344444444


Q ss_pred             HHHHHHHHHHHHH
Q 040367          336 VERAFKLFDEMQR  348 (400)
Q Consensus       336 ~~~a~~~~~~~~~  348 (400)
                      +++|.+.|+++++
T Consensus        97 ~~~A~~~~~~al~  109 (126)
T 4gco_A           97 WSKAQRAYEDALQ  109 (126)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            4444444444333

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.98  E-value=6e-07  Score=74.23  Aligned_cols=223  Identities=11%  Similarity=-0.009  Sum_probs=161.0

Q ss_pred             hHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC-C-ChHHHHHH
Q 040367          161 VDKAKELFLQMKDENINPDVVTYTSVIRGFCYAN-DWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKN-G-KMDEASRL  237 (400)
Q Consensus       161 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~~a~~~  237 (400)
                      .++|+++++++...+ +-+..+|+.--.++...| .++++++.++.++... +-+..+|+.-..++.+. + ++++++++
T Consensus        70 se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~EL~~  147 (349)
T 3q7a_A           70 SERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVSEIEY  147 (349)
T ss_dssp             SHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHHHHHH
T ss_pred             CHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHHHHHH
Confidence            456677777776654 446677887777777788 5999999999999875 45677777766666665 6 88999999


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHHhcCCHH--------HHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC-------HH
Q 040367          238 LDLMIQIGVRPNAFVYNTLMDGFCLTGRVN--------RAKELFVSMESMGCTHTVFSYSILINGYCKNKE-------IE  302 (400)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~  302 (400)
                      ++++.+.. +-+..+++--.-+..+.|.++        ++++.++++.+.+ +-|...|+.....+.+.+.       ++
T Consensus       148 ~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~  225 (349)
T 3q7a_A          148 IHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRSLQ  225 (349)
T ss_dssp             HHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHHH
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHHHH
Confidence            99998864 336777776666666666665        8999999998876 6688889888888887776       78


Q ss_pred             HHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcH--------------------HHHHHHHHHHHHcC-----CCCCHHH
Q 040367          303 GALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQV--------------------ERAFKLFDEMQRDG-----VAADTWT  357 (400)
Q Consensus       303 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~~~~~-----~~~~~~~  357 (400)
                      ++++.+++++...+. |...|+.+-..+.+.|..                    ....+...++...+     -.++...
T Consensus       226 eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~a  304 (349)
T 3q7a_A          226 DELIYILKSIHLIPH-NVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLA  304 (349)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHH
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHH
Confidence            899999999887544 777887776666665543                    22333333332221     1357888


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHhcccch
Q 040367          358 YRTFIDGLCKNSYIVEAVELFRTLRILKCELD  389 (400)
Q Consensus       358 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  389 (400)
                      +..+++.|...|+.++|.++++.+.+. ..|-
T Consensus       305 l~~l~d~~~~~~~~~~a~~~~~~l~~~-~dpi  335 (349)
T 3q7a_A          305 LEYLADSFIEQNRVDDAAKVFEKLSSE-YDQM  335 (349)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHT-TCGG
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhh-hChH
Confidence            899999999999999999999998743 3443

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.98  E-value=1.5e-08  Score=76.57  Aligned_cols=125  Identities=12%  Similarity=0.143  Sum_probs=101.5

Q ss_pred             HhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH-HHhcCCH--
Q 040367           27 LAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKG-LCAESRI--  103 (400)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--  103 (400)
                      +...|++++|+..++...+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+..+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            466889999999999988764 4578899999999999999999999999998875 3467778888888 7789998  


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCC
Q 040367          104 MEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGE  154 (400)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  154 (400)
                      ++|...+++..+.. +.+...+..+...+...|++++|...++++....+.
T Consensus        98 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~  147 (177)
T 2e2e_A           98 AQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLNSP  147 (177)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCT
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCC
Confidence            99999999998875 556888999999999999988888888887766544

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.98  E-value=1.8e-09  Score=78.72  Aligned_cols=94  Identities=16%  Similarity=0.101  Sum_probs=43.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE  332 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  332 (400)
                      +..+...+.+.|++++|...|+++...+ |.+...|..+..+|...|++++|++.|+++.+..+. +...|..+..++..
T Consensus        39 ~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~~~~~  116 (151)
T 3gyz_A           39 IYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQCQLR  116 (151)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHH
Confidence            3344444444455555555554444443 334444444444444445555555544444443221 33444444444444


Q ss_pred             hCcHHHHHHHHHHHHH
Q 040367          333 IHQVERAFKLFDEMQR  348 (400)
Q Consensus       333 ~~~~~~a~~~~~~~~~  348 (400)
                      .|++++|...|+++.+
T Consensus       117 lg~~~eA~~~~~~al~  132 (151)
T 3gyz_A          117 LKAPLKAKECFELVIQ  132 (151)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            4455555444444444

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.97  E-value=1.4e-08  Score=78.54  Aligned_cols=120  Identities=13%  Similarity=0.034  Sum_probs=51.4

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHc----CCC-CCHHhHHHHHHHHHhcCCH
Q 040367          192 YANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQI----GVR-PNAFVYNTLMDGFCLTGRV  266 (400)
Q Consensus       192 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~  266 (400)
                      ..|++++|.+.++.+... .......+..+...+...|++++|...+++..+.    +.. ....++..+...+...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            455566666544333321 1123445555555555555666555555555441    101 1123344444455555555


Q ss_pred             HHHHHHHHHHHhc---CC-C--CChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040367          267 NRAKELFVSMESM---GC-T--HTVFSYSILINGYCKNKEIEGALSLYGEML  312 (400)
Q Consensus       267 ~~a~~~~~~~~~~---~~-~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  312 (400)
                      ++|...+++..+.   .. .  .....+..+...+...|++++|...+++..
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  134 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSL  134 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            5555555444332   00 0  012223444444444455555544444443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.96  E-value=2.5e-08  Score=71.18  Aligned_cols=120  Identities=9%  Similarity=0.004  Sum_probs=100.7

Q ss_pred             CCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHH
Q 040367           14 PPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSL   93 (400)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (400)
                      |.+...|..+...+.+.|++++|+..|++..+.. +.+...+..+..++...|++++|...++++.+.. +.+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            3567789999999999999999999999998874 4478889999999999999999999999998874 3467888889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 040367           94 IKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTG  136 (400)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  136 (400)
                      ..++...|++++|.+.+++..+.. +.+...+..+..++...|
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            999999999999999999998774 345666777777766554

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.96  E-value=4.4e-08  Score=68.86  Aligned_cols=116  Identities=16%  Similarity=0.126  Sum_probs=95.6

Q ss_pred             hhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 040367           17 VCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKG   96 (400)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   96 (400)
                      ...|..+...+...|++++|+..|+++.... +.+..++..+...+...|++++|...++++.+.. +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            6678888899999999999999999998764 4577888899999999999999999999998764 4467788889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 040367           97 LCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRT  135 (400)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  135 (400)
                      +...|++++|...++++.+.. +.+...+..+...+...
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  124 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQKQ  124 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhc
Confidence            999999999999999988774 44566666666655443

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.96  E-value=8.7e-08  Score=71.30  Aligned_cols=127  Identities=13%  Similarity=0.056  Sum_probs=69.1

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 040367          218 FNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCK  297 (400)
Q Consensus       218 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  297 (400)
                      +..+...+...|++++|...+++..+.. +.+..++..+..++...|++++|...+++..+.. +.+...+..+..++..
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            4444445555555555555555555542 2244555555556666666666666666665543 3345556666666666


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCchhhHHH--HHHHHHhhCcHHHHHHHHHHHH
Q 040367          298 NKEIEGALSLYGEMLSKGIKPDVVIYNT--LFVVLFEIHQVERAFKLFDEMQ  347 (400)
Q Consensus       298 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~~~~~~a~~~~~~~~  347 (400)
                      .|++++|.+.++++.+.... +...+..  .+..+...|++++|...++...
T Consensus        94 ~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           94 LGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             TTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            66666666666666654322 3333322  2223555666666666665543

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.96  E-value=3.7e-09  Score=86.37  Aligned_cols=100  Identities=14%  Similarity=0.046  Sum_probs=69.7

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLI   94 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (400)
                      .+...+..+...+.+.|++++|+..|++..+.. +.+...+..+..++...|++++|...++++.+.. +.+...+..+.
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            355667777777777777777777777776653 3366677777777777777777777777777653 33556666777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc
Q 040367           95 KGLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      .++...|++++|...|++..+.
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh
Confidence            7777777777777777776654

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.94  E-value=5.5e-09  Score=76.20  Aligned_cols=99  Identities=11%  Similarity=-0.072  Sum_probs=66.1

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHH
Q 040367          249 NAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFV  328 (400)
Q Consensus       249 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  328 (400)
                      +...+..+...+...|++++|...|+.+.... +.+...|..+..++...|++++|.+.++++++... .+...+..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI-XEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHH
Confidence            34455556666777777777777777776664 44666666777777777777777777777766532 24556666677


Q ss_pred             HHHhhCcHHHHHHHHHHHHHc
Q 040367          329 VLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       329 ~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      ++...|++++|...|+++.+.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            777777777777777776654

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.94  E-value=2.5e-06  Score=70.54  Aligned_cols=44  Identities=16%  Similarity=0.162  Sum_probs=28.4

Q ss_pred             CchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 040367          318 PDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTF  361 (400)
Q Consensus       318 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  361 (400)
                      ++...+..++..|...|+.++|.++++.+.+.--+.....|+..
T Consensus       300 ~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~  343 (349)
T 3q7a_A          300 PVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFR  343 (349)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHH
T ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHH
Confidence            45666777777888888888888888887654223334444433

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.93  E-value=1.6e-08  Score=73.76  Aligned_cols=109  Identities=11%  Similarity=0.003  Sum_probs=72.1

Q ss_pred             hHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCC
Q 040367            4 FDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCF   83 (400)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   83 (400)
                      |+.++...|.  +...+..+...+.+.|++++|+..|+...... +.+...|..+..++...|++++|+..|+++.... 
T Consensus        10 ~~~al~~~p~--~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-   85 (148)
T 2vgx_A           10 IAMLNEISSD--TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-   85 (148)
T ss_dssp             HHHHTTCCHH--HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHcCCHh--hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-
Confidence            4455554443  55666666777777777777777777776653 3466666777777777777777777777776654 


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 040367           84 TPNAVTFTSLIKGLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        84 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      +.+...+..+..++...|++++|...|++..+.
T Consensus        86 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           86 IXEPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            235566666677777777777777777776654

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.93  E-value=2.7e-08  Score=70.69  Aligned_cols=121  Identities=9%  Similarity=0.053  Sum_probs=103.7

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLI   94 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (400)
                      .+...+..+...+...|++++|+..|++..... +.+...+..+..++...|++++|.+.++...+.. +.+...+..+.
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~   87 (131)
T 2vyi_A           10 AEAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMG   87 (131)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHH
Confidence            356678888999999999999999999998764 4578889999999999999999999999998874 34677888899


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 040367           95 KGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHT  138 (400)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  138 (400)
                      .++...|++++|...+++..+.. +.+...+..+..++.+.|++
T Consensus        88 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           88 LALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            99999999999999999998875 45778888888888877763

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.92  E-value=9.6e-09  Score=77.63  Aligned_cols=122  Identities=10%  Similarity=0.085  Sum_probs=90.3

Q ss_pred             HHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHH-HHhcCCH--
Q 040367          225 LCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILING-YCKNKEI--  301 (400)
Q Consensus       225 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--  301 (400)
                      +...|++++|...+++..+.. +.+...+..+..+|...|++++|...|+++.+.. +.+...+..+..+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            345677888888888887763 3466778888888888888888888888887765 4466777777777 7778887  


Q ss_pred             HHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          302 EGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       302 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      ++|...++++.+... .+...+..+...+...|++++|...++++.+.
T Consensus        98 ~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           98 AQTRAMIDKALALDS-NEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            888888888887643 25667777888888888888888888888875

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.92  E-value=7.8e-08  Score=76.79  Aligned_cols=197  Identities=10%  Similarity=-0.074  Sum_probs=129.0

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHH-------HHHHHhCCChHHHHHHHHHHHHcCCCCC---------------
Q 040367          192 YANDWNEAKCLLIEMMDQGVQPNVVTFNVI-------MDELCKNGKMDEASRLLDLMIQIGVRPN---------------  249 (400)
Q Consensus       192 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------  249 (400)
                      ..++...|.+.|.++.... +-....|..+       ...+...++..+++..+....+.  .|+               
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-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQI--SMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTC--CGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcC--ChhhhhhhhccCCccccc
Confidence            5788888888888888764 3455666665       34444444444444444444331  111               


Q ss_pred             -------HHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc--h
Q 040367          250 -------AFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPD--V  320 (400)
Q Consensus       250 -------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~  320 (400)
                             ......+..++...|++++|.++|..+...+  |+......+...+.+.+++++|+..|+...... .|.  .
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                   1233445667778888888888888887653  333255566667888888888888887555431 121  2


Q ss_pred             hhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHHHHH
Q 040367          321 VIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAAD--TWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAYNCL  396 (400)
Q Consensus       321 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  396 (400)
                      ..+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...  .|+...+..|
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            3566778888888999999998888875432243  345667777888889999999999888874  4554444444

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.91  E-value=1e-07  Score=66.93  Aligned_cols=95  Identities=14%  Similarity=0.244  Sum_probs=43.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHH
Q 040367          252 VYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLF  331 (400)
Q Consensus       252 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  331 (400)
                      .+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...+.
T Consensus        11 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~   88 (125)
T 1na0_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            33344444444444444444444444432 2233444444444444455555555544444432 113334444444444


Q ss_pred             hhCcHHHHHHHHHHHHH
Q 040367          332 EIHQVERAFKLFDEMQR  348 (400)
Q Consensus       332 ~~~~~~~a~~~~~~~~~  348 (400)
                      ..|++++|...++++.+
T Consensus        89 ~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHH
Confidence            55555555555554444

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.91  E-value=3.6e-07  Score=75.14  Aligned_cols=168  Identities=8%  Similarity=0.023  Sum_probs=126.7

Q ss_pred             hHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH------HHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC---CC-
Q 040367          180 VVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNV------VTFNVIMDELCKNGKMDEASRLLDLMIQIGVR---PN-  249 (400)
Q Consensus       180 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~-  249 (400)
                      ...+...+..+...|++++|.+.+++..+.... ..      ..+..+...+...|++++|...+++..+....   +. 
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  153 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEY-HPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQ  153 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCC-CHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccC-ChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHH
Confidence            345556777889999999999999988875322 22      22344556677889999999999999864211   11 


Q ss_pred             -HHhHHHHHHHHHhcCCHHHHHHHHHHHHh---cCC-CC--ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CC-
Q 040367          250 -AFVYNTLMDGFCLTGRVNRAKELFVSMES---MGC-TH--TVFSYSILINGYCKNKEIEGALSLYGEMLSKG----IK-  317 (400)
Q Consensus       250 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~-  317 (400)
                       ..+++.+...|...|++++|...++++.+   ... .+  ...++..+...|...|++++|.+.+++..+..    .. 
T Consensus       154 ~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~  233 (293)
T 2qfc_A          154 NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMA  233 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHH
Confidence             45788899999999999999999999873   211 11  12578899999999999999999999887641    11 


Q ss_pred             CchhhHHHHHHHHHhhCcHHHH-HHHHHHHHH
Q 040367          318 PDVVIYNTLFVVLFEIHQVERA-FKLFDEMQR  348 (400)
Q Consensus       318 ~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~~  348 (400)
                      .-..+|..+..++...|++++| ...++++..
T Consensus       234 ~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             SHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            1156788899999999999999 777887664

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.90  E-value=1.9e-08  Score=84.46  Aligned_cols=131  Identities=17%  Similarity=0.072  Sum_probs=112.3

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCC--------------HHHHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPD--------------LYTYNILINCFCKMGRVSHGFVVLGRILRS   81 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (400)
                      +...|..+...+.+.|++++|+..|++..+......              ..+|..+..++.+.|++++|+..++++++.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            567888999999999999999999999988742211              588999999999999999999999999987


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHH-HHHHHHH
Q 040367           82 CFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVA-LNLFEEM  148 (400)
Q Consensus        82 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~  148 (400)
                      . +.+...+..+..+|...|++++|...|++..+.. +.+..++..+..++.+.|+.++| ...++.+
T Consensus       226 ~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          226 D-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANM  291 (336)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5 4478889999999999999999999999999875 55788899999999999998887 3455554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.90  E-value=6.3e-08  Score=68.99  Aligned_cols=94  Identities=14%  Similarity=0.068  Sum_probs=38.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE  332 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  332 (400)
                      +..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.++++.+... .+...+..+..++..
T Consensus        19 ~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~   96 (133)
T 2lni_A           19 VKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEP-TFIKGYTRKAAALEA   96 (133)
T ss_dssp             HHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHH
Confidence            3333444444444444444444443332 22333344444444444444444444444443321 123333444444444


Q ss_pred             hCcHHHHHHHHHHHHH
Q 040367          333 IHQVERAFKLFDEMQR  348 (400)
Q Consensus       333 ~~~~~~a~~~~~~~~~  348 (400)
                      .|++++|.+.++++.+
T Consensus        97 ~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           97 MKDYTKAMDVYQKALD  112 (133)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHH
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=98.89  E-value=8.1e-08  Score=68.13  Aligned_cols=117  Identities=9%  Similarity=-0.012  Sum_probs=63.4

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHH
Q 040367          251 FVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVL  330 (400)
Q Consensus       251 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  330 (400)
                      ..+..+...+...|++++|...+++..... +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHH
Confidence            344445555555566666666665555543 3345555555555666666666666666555542 22344555555566


Q ss_pred             HhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCc
Q 040367          331 FEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSY  370 (400)
Q Consensus       331 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  370 (400)
                      ...|++++|...++++.+.. +.+...+..+..++.+.|+
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            66666666666666655542 2244555555555555444

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.89  E-value=4.3e-08  Score=75.76  Aligned_cols=155  Identities=13%  Similarity=0.046  Sum_probs=74.6

Q ss_pred             hCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhc----CC-CCChhhHHHHHHHHHhcCCH
Q 040367          227 KNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESM----GC-THTVFSYSILINGYCKNKEI  301 (400)
Q Consensus       227 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~  301 (400)
                      ..|++++|.+.++.+... ......++..+...+...|++++|...+++..+.    +. +.....+..+...+...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            345566666543333221 1223445555555566666666666666555431    10 11234455555556666666


Q ss_pred             HHHHHHHHHHHhC----CCCC--chhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCc
Q 040367          302 EGALSLYGEMLSK----GIKP--DVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGV-AAD----TWTYRTFIDGLCKNSY  370 (400)
Q Consensus       302 ~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~g~  370 (400)
                      ++|.+.+++..+.    +-.+  ....+..+...+...|++++|...+++..+... ..+    ..++..+...+...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            6666665555432    1011  123445555555566666666666655543200 011    2234455555566666


Q ss_pred             HHHHHHHHHHHH
Q 040367          371 IVEAVELFRTLR  382 (400)
Q Consensus       371 ~~~a~~~~~~~~  382 (400)
                      +++|.+.+++..
T Consensus       163 ~~~A~~~~~~al  174 (203)
T 3gw4_A          163 LLEAQQHWLRAR  174 (203)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            666666655554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.88  E-value=1.5e-08  Score=73.40  Aligned_cols=109  Identities=10%  Similarity=-0.020  Sum_probs=77.7

Q ss_pred             hHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCC
Q 040367            4 FDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCF   83 (400)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   83 (400)
                      |+.++...|.  +...+..+...+.+.|++++|+..|+.+.... +.+...|..+..++...|++++|+..+++....+ 
T Consensus         7 l~~al~~~p~--~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-   82 (142)
T 2xcb_A            7 LAMLRGLSED--TLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-   82 (142)
T ss_dssp             --CCTTCCHH--HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHcCCHH--HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-
Confidence            3444444433  55666777777788888888888888877664 4467777777788888888888888888887764 


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 040367           84 TPNAVTFTSLIKGLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        84 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      +.+...+..+..++...|++++|...|++..+.
T Consensus        83 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           83 INEPRFPFHAAECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            335666777777888888888888888877665

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.87  E-value=1.1e-07  Score=79.90  Aligned_cols=87  Identities=9%  Similarity=-0.108  Sum_probs=43.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 040367          286 FSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGL  365 (400)
Q Consensus       286 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  365 (400)
                      ..|..+..+|.+.|++++|+..++++++... .+...|..+..++...|++++|+..|+++++.. +.+...+..+..++
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~  274 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALELDS-NNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQ  274 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
Confidence            4444555555555555555555555554422 234445555555555555555555555555431 22344455555555


Q ss_pred             HhcCcHHHH
Q 040367          366 CKNSYIVEA  374 (400)
Q Consensus       366 ~~~g~~~~a  374 (400)
                      .+.|++++|
T Consensus       275 ~~~~~~~~a  283 (336)
T 1p5q_A          275 QRIRRQLAR  283 (336)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555544

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.83  E-value=2.9e-08  Score=71.90  Aligned_cols=97  Identities=12%  Similarity=-0.049  Sum_probs=64.5

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHH
Q 040367          251 FVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVL  330 (400)
Q Consensus       251 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  330 (400)
                      ..+..+...+...|++++|...|+.+...+ +.+...|..+..++...|++++|...++++.+... .+...+..+..++
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~   96 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDI-NEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCcHHHHHHHHHH
Confidence            344555666667777777777777776654 44666666777777777777777777777766542 2455566666777


Q ss_pred             HhhCcHHHHHHHHHHHHHc
Q 040367          331 FEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       331 ~~~~~~~~a~~~~~~~~~~  349 (400)
                      ...|++++|...|+++.+.
T Consensus        97 ~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            7777777777777776654

>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=98.82  E-value=1.1e-07  Score=67.22  Aligned_cols=60  Identities=8%  Similarity=0.098  Sum_probs=30.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  313 (400)
                      +..+...+.+.|++++|+..|++..+.. |.+...|..+..+|...|++++|++.+++.++
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~   70 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVE   70 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4444555555555555555555555443 33444455555555555555555555555443

>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=98.82  E-value=1.2e-07  Score=67.00  Aligned_cols=95  Identities=12%  Similarity=0.055  Sum_probs=45.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHH
Q 040367          252 VYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLF  331 (400)
Q Consensus       252 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  331 (400)
                      .+..+...+.+.|++++|...|++..+.. +.+...|..+..++...|++++|...+++.++.... +...|..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHH
Confidence            33444444555555555555555554443 334444445555555555555555555554443211 3344444444444


Q ss_pred             hhCcHHHHHHHHHHHHH
Q 040367          332 EIHQVERAFKLFDEMQR  348 (400)
Q Consensus       332 ~~~~~~~a~~~~~~~~~  348 (400)
                      ..|++++|...|+++.+
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            55555555555544443

>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=98.80  E-value=1.7e-07  Score=66.13  Aligned_cols=99  Identities=6%  Similarity=-0.013  Sum_probs=80.9

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      +...|......+.+.|++++|+..|++..+.. +.+...|..+..++...|++++|+..+++.++.+ +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (126)
T 3upv_A            3 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            45567778888888999999999998888764 4467888888888888999999999988888875 335777888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHc
Q 040367           96 GLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      ++...|++++|...|++..+.
T Consensus        81 ~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           81 AQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHHh
Confidence            888889999998888888765

>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=98.79  E-value=1.8e-07  Score=66.08  Aligned_cols=96  Identities=20%  Similarity=0.207  Sum_probs=55.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcC--CCCC----HHHHHH
Q 040367          287 SYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDG--VAAD----TWTYRT  360 (400)
Q Consensus       287 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~  360 (400)
                      .+..+...+.+.|++++|++.|+++++..+ .+...|..+..++...|++++|++.+++.++..  ..++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p-~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDP-SNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            345556666666666666666666665532 245556666666666666666666666655431  1111    234555


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHH
Q 040367          361 FIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       361 l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      +..++...|++++|++.|++.+.
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            56666666666666666666654

>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=98.78  E-value=3.3e-07  Score=63.51  Aligned_cols=112  Identities=12%  Similarity=-0.011  Sum_probs=84.8

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      ++..+..+...+...|++++|...|++..... +.+...+..+..++...|++++|...+++..+.. +.+...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            45567778888888888888888888887764 4467788888888888888888888888888764 335677788888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLIN  130 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (400)
                      ++...|++++|.+.+++..+.+ +.+...+..+..
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  114 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHE-ANNPQLKEGLQN  114 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHcC-CCCHHHHHHHHH
Confidence            8888888888888888887664 334455444433

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.77  E-value=5e-07  Score=72.17  Aligned_cols=187  Identities=10%  Similarity=-0.053  Sum_probs=113.8

Q ss_pred             ccCChhHHHHHHHHHHhCCCCCCHHHHHHH-------HHHHHhcCChhhHHHHHHHHHhcCCCCC---------------
Q 040367           29 KNKHYDTVLSLFKRLNSTGLFPDLYTYNIL-------INCFCKMGRVSHGFVVLGRILRSCFTPN---------------   86 (400)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------   86 (400)
                      ..++...|.+.|.++.+.. +-....|..+       ...+...++..+++..+......  .|+               
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-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQI--SMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTC--CGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcC--ChhhhhhhhccCCccccc
Confidence            5889999999999998875 4467788877       56666666677776666665542  111               


Q ss_pred             -------hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCccc
Q 040367           87 -------AVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEG  159 (400)
Q Consensus        87 -------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  159 (400)
                             ......+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+..           
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a-----------  161 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSA-----------  161 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTG-----------
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHh-----------
Confidence                   1233445566777888888888887776543  43325555556666777755554444322           


Q ss_pred             chHHHHHHHHHHHhCCCCC--ChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhCCChHHHH
Q 040367          160 FVDKAKELFLQMKDENINP--DVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPN--VVTFNVIMDELCKNGKMDEAS  235 (400)
Q Consensus       160 ~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~  235 (400)
                                  .... .|  ....+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|.
T Consensus       162 ------------~~~~-d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~  228 (282)
T 4f3v_A          162 ------------GKWP-DKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAV  228 (282)
T ss_dssp             ------------GGCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             ------------hccC-CcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHH
Confidence                        1110 11  122455566667777777777777777664322132  234445555666677777777


Q ss_pred             HHHHHHHHc
Q 040367          236 RLLDLMIQI  244 (400)
Q Consensus       236 ~~~~~~~~~  244 (400)
                      ..|+++...
T Consensus       229 ~~l~~a~a~  237 (282)
T 4f3v_A          229 ALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            777777664

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.76  E-value=4.8e-05  Score=62.62  Aligned_cols=221  Identities=12%  Similarity=-0.009  Sum_probs=150.9

Q ss_pred             HHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCC----------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC--
Q 040367          162 DKAKELFLQMKDENINPDVVTYTSVIRGFCYAND----------WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNG--  229 (400)
Q Consensus       162 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--  229 (400)
                      ++|++..+.+...+ |-+...|+.--.++...+.          +++++..++.+...+ +-+..+|+.-.-++.+.+  
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            45566666665543 3344455544333333332          678888888888764 457777777766777777  


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCC-HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc----------
Q 040367          230 KMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGR-VNRAKELFVSMESMGCTHTVFSYSILINGYCKN----------  298 (400)
Q Consensus       230 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------  298 (400)
                      .+++++..++++.+... -+..+|+--..+....|. ++++++.+..+.+.+ +.|...|+.....+...          
T Consensus       125 ~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~  202 (331)
T 3dss_A          125 NWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQG  202 (331)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHSCCC------
T ss_pred             cHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhhhcccccccc
Confidence            48899999999998753 377777777777777787 589999999998876 66788887776666554          


Q ss_pred             ----CCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhh-----------CcHHHHHHHHHHHHHcCCCCCH-HHHHHHH
Q 040367          299 ----KEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEI-----------HQVERAFKLFDEMQRDGVAADT-WTYRTFI  362 (400)
Q Consensus       299 ----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~  362 (400)
                          +.++++++.+.+.+...+. |...|+-+-..+.+.           +.++++++.++++.+.  .|+. ..+..++
T Consensus       203 ~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~~w~l~~~~  279 (331)
T 3dss_A          203 RLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPENKWCLLTII  279 (331)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--CcccchHHHHHH
Confidence                4578899999998887533 677777555555444           4688999999999986  4443 3332222


Q ss_pred             H---HHHhcCcHHHHHHHHHHHHHhcccchhH
Q 040367          363 D---GLCKNSYIVEAVELFRTLRILKCELDIR  391 (400)
Q Consensus       363 ~---~~~~~g~~~~a~~~~~~~~~~~~~p~~~  391 (400)
                      .   +....|..+++...+.++++  +.|-..
T Consensus       280 ~~~~~~~~~~~~~~~~~~l~~l~~--~Dp~r~  309 (331)
T 3dss_A          280 LLMRALDPLLYEKETLQYFSTLKA--VDPMRA  309 (331)
T ss_dssp             HHHHHHCTTTTHHHHHHHHHHHHH--HCGGGH
T ss_pred             HHHHhhcccccHHHHHHHHHHHHH--hCcchh
Confidence            2   22246788899999999986  455443

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.76  E-value=3.1e-08  Score=76.33  Aligned_cols=96  Identities=11%  Similarity=-0.027  Sum_probs=43.7

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC---------------HHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 040367          217 TFNVIMDELCKNGKMDEASRLLDLMIQIGVRPN---------------AFVYNTLMDGFCLTGRVNRAKELFVSMESMGC  281 (400)
Q Consensus       217 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  281 (400)
                      .+..+...+...|++++|...|++..+......               ..++..+..+|...|++++|...++...+.. 
T Consensus        40 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-  118 (198)
T 2fbn_A           40 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-  118 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-
Confidence            444555556666666666666666655321100               1333334444444444444444444444432 


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          282 THTVFSYSILINGYCKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       282 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  313 (400)
                      +.+...+..+..++...|++++|.+.|++..+
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  150 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAAS  150 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            22333444444444444444444444444443

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.74  E-value=8.3e-07  Score=61.44  Aligned_cols=90  Identities=14%  Similarity=0.065  Sum_probs=35.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCc
Q 040367          256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQ  335 (400)
Q Consensus       256 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  335 (400)
                      +...+...|++++|...++...... +.+...+..+...+...|++++|...+++..+... .+...+..+..++...|+
T Consensus        10 ~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~   87 (118)
T 1elw_A           10 KGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAALEFLNR   87 (118)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHHhh
Confidence            3333344444444444444443332 22333333344444444444444444444433321 123333333444444444


Q ss_pred             HHHHHHHHHHHH
Q 040367          336 VERAFKLFDEMQ  347 (400)
Q Consensus       336 ~~~a~~~~~~~~  347 (400)
                      +++|.+.+++..
T Consensus        88 ~~~A~~~~~~~~   99 (118)
T 1elw_A           88 FEEAKRTYEEGL   99 (118)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            444444444443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.74  E-value=2.1e-07  Score=63.89  Aligned_cols=101  Identities=8%  Similarity=0.027  Sum_probs=77.7

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC--ChhhHHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTP--NAVTFTS   92 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~   92 (400)
                      .+...|..+...+.+.|++++|+..|++..+.. +.+...+..+..++...|++++|.+.+++..+.. +.  +...+..
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~   81 (112)
T 2kck_A            4 QNPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAA   81 (112)
T ss_dssp             SSTTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHH
Confidence            356677778888888888888888888887764 4467777788888888888888888888887763 23  4667777


Q ss_pred             HHHHHHhc-CCHHHHHHHHHHHHHcC
Q 040367           93 LIKGLCAE-SRIMEAAALFTKLRVFG  117 (400)
Q Consensus        93 l~~~~~~~-~~~~~a~~~~~~~~~~~  117 (400)
                      +..++... |++++|.+.+++.....
T Consensus        82 l~~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           82 KADALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHhhcc
Confidence            77888888 88888888888877664

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.72  E-value=4.9e-07  Score=69.52  Aligned_cols=156  Identities=15%  Similarity=-0.019  Sum_probs=106.9

Q ss_pred             HHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCh----------------hhH
Q 040367          225 LCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTV----------------FSY  288 (400)
Q Consensus       225 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~  288 (400)
                      ....|+++.+.+.++...... ......+..+...+...|++++|...|.+..+.. +.+.                ..+
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~   91 (198)
T 2fbn_A           14 RENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFF-IHTEEWDDQILLDKKKNIEISCN   91 (198)
T ss_dssp             --------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-TTCTTCCCHHHHHHHHHHHHHHH
T ss_pred             hhhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-hcccccchhhHHHHHHHHHHHHH
Confidence            334455555555444322210 1134456678888999999999999999998764 2233                678


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 040367          289 SILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKN  368 (400)
Q Consensus       289 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  368 (400)
                      ..+..+|...|++++|...++++++.. +.+...+..+..++...|++++|.+.|+++.+.. +.+...+..+..++...
T Consensus        92 ~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  169 (198)
T 2fbn_A           92 LNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKL  169 (198)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHH
Confidence            889999999999999999999999874 3367788899999999999999999999998863 34677888888888888


Q ss_pred             CcHHHHH-HHHHHHHHh
Q 040367          369 SYIVEAV-ELFRTLRIL  384 (400)
Q Consensus       369 g~~~~a~-~~~~~~~~~  384 (400)
                      |+.+++. ..+..+...
T Consensus       170 ~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          170 KEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             HHHHC------------
T ss_pred             HHHHHHHHHHHHHHhcc
Confidence            8887777 556666543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.71  E-value=9.3e-07  Score=64.16  Aligned_cols=112  Identities=12%  Similarity=0.029  Sum_probs=89.2

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPD----LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTF   90 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   90 (400)
                      .+...+..+...+.+.|++++|+..|++..+..  |+    ...+..+..++...|++++|...+++..+.. +.+...+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            466778888889999999999999999998763  55    6778888888999999999999999988764 3367778


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 040367           91 TSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLIN  130 (400)
Q Consensus        91 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (400)
                      ..+..++...|++++|...|++..+.. +.+...+..+..
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSLE-PKNKVFQEALRN  141 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC-SSCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHH
Confidence            888888999999999999999988764 334555444433

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.71  E-value=3.3e-07  Score=62.83  Aligned_cols=99  Identities=10%  Similarity=-0.000  Sum_probs=69.0

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCC--CHHHHHHH
Q 040367          284 TVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAA--DTWTYRTF  361 (400)
Q Consensus       284 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l  361 (400)
                      +...+..+...+...|++++|...++++.+... .+...+..+..++...|++++|...++++.+.. +.  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDP-EESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            445566667777777777777777777776532 245666677777777777777777777777652 23  46677777


Q ss_pred             HHHHHhc-CcHHHHHHHHHHHHHh
Q 040367          362 IDGLCKN-SYIVEAVELFRTLRIL  384 (400)
Q Consensus       362 ~~~~~~~-g~~~~a~~~~~~~~~~  384 (400)
                      ...+.+. |++++|.+.+++....
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhc
Confidence            7777777 7888888777777754

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.70  E-value=3e-06  Score=73.90  Aligned_cols=195  Identities=9%  Similarity=0.031  Sum_probs=109.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCC----------------HHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC-CCH
Q 040367          188 RGFCYANDWNEAKCLLIEMMDQGVQPN----------------VVTFNVIMDELCKNGKMDEASRLLDLMIQIGVR-PNA  250 (400)
Q Consensus       188 ~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~  250 (400)
                      ..+.+.|++++|++.|..+.+......                ...+..+...|...|++++|.+.+.++.+.... ++.
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            445566777777777777665421110                113556666777777777777777666543111 111


Q ss_pred             ----HhHHHHHHHHHhcCCHHHHHHHHHHHHhc----CCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CC--C
Q 040367          251 ----FVYNTLMDGFCLTGRVNRAKELFVSMESM----GCT-HTVFSYSILINGYCKNKEIEGALSLYGEMLSK--GI--K  317 (400)
Q Consensus       251 ----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~--~  317 (400)
                          .+.+.+...+...|+++.|..++......    +.. .-..++..+...|...|++++|..+++++...  +.  .
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence                12223333444556777777777665431    111 12345566777777777777777777766542  11  1


Q ss_pred             -CchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc--CCCCC----HHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          318 -PDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD--GVAAD----TWTYRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       318 -~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                       ....++..++..|...|++++|..++++....  .+..+    ...+..+...+...|++++|...|.+..
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence             11335666667777777777777777766532  11111    2344555556666777777777666664

>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=98.69  E-value=3.3e-07  Score=65.65  Aligned_cols=100  Identities=14%  Similarity=0.046  Sum_probs=82.8

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLI   94 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (400)
                      .+...|..+...+.+.|++++|+..|+...... +.+...+..+..++...|++++|...++...+.. +.+...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            467788888888899999999999999888764 4467888888888889999999999998888775 33677888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc
Q 040367           95 KGLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      .++...|++++|...|++..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH
Confidence            8888899999999888887765

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.69  E-value=9.6e-07  Score=65.54  Aligned_cols=98  Identities=12%  Similarity=0.083  Sum_probs=53.2

Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 040367          215 VVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILING  294 (400)
Q Consensus       215 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  294 (400)
                      ...+..+...+.+.|++++|...|++.++.. +.+...+..+..+|...|++++|+..+++..+.. +.+...|..+..+
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            3445555555555566666666665555542 2244555555555555555555555555555543 3345555555555


Q ss_pred             HHhcCCHHHHHHHHHHHHhC
Q 040367          295 YCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       295 ~~~~~~~~~a~~~~~~~~~~  314 (400)
                      +...|++++|.+.|++.++.
T Consensus        89 ~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHh
Confidence            55555555555555555543

>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=98.69  E-value=1.3e-06  Score=62.49  Aligned_cols=96  Identities=14%  Similarity=0.014  Sum_probs=42.4

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHH
Q 040367          250 AFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVV  329 (400)
Q Consensus       250 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  329 (400)
                      ...+..+...+...|++++|...|....... +.+...+..+..++...|++++|...+++..+.... +...+..+..+
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~   86 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQC   86 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHHHHH
Confidence            3334444444444444444444444444433 223444444444444444444444444444443211 33344444444


Q ss_pred             HHhhCcHHHHHHHHHHHH
Q 040367          330 LFEIHQVERAFKLFDEMQ  347 (400)
Q Consensus       330 ~~~~~~~~~a~~~~~~~~  347 (400)
                      +...|++++|...|+++.
T Consensus        87 ~~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHH
Confidence            444444444444444444

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.69  E-value=7.2e-07  Score=66.22  Aligned_cols=99  Identities=8%  Similarity=-0.054  Sum_probs=73.6

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      +...|..+...+.+.|++++|+..|++..+.. +.+...|..+..++...|++++|+..+++.++.. +.+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            45667777777788888888888888777664 3467777777777888888888888888777764 335667777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHc
Q 040367           96 GLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      ++...|++++|...|++..+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            777788888888887777765

>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=98.67  E-value=1.9e-07  Score=66.23  Aligned_cols=114  Identities=10%  Similarity=0.046  Sum_probs=89.1

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCC--CCC----hhh
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCF--TPN----AVT   89 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~   89 (400)
                      ....|..+...+...|++++|...|++..... +.+...+..+...+...|++++|...++++.....  .++    ..+
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   81 (131)
T 1elr_A            3 QALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKA   81 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHH
Confidence            34577888888999999999999999988764 45778888888999999999999999998877632  112    667


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 040367           90 FTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGL  132 (400)
Q Consensus        90 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  132 (400)
                      +..+..++...|++++|.+.|++..+.  .|+......+....
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~  122 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQAE  122 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHHHH
Confidence            788888889999999999999988876  35666555555443

>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=98.65  E-value=4.8e-07  Score=64.03  Aligned_cols=96  Identities=9%  Similarity=0.127  Sum_probs=47.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCc----hhhHHHH
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGI--KPD----VVIYNTL  326 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~l  326 (400)
                      +..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++++.+...  .++    ..++..+
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            3444445555555555555555554443 33444455555555555555555555555444311  001    3344455


Q ss_pred             HHHHHhhCcHHHHHHHHHHHHHc
Q 040367          327 FVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       327 ~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      ..++...|++++|.+.|+++.+.
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHh
Confidence            55555555555555555555543

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.63  E-value=0.00012  Score=60.29  Aligned_cols=172  Identities=11%  Similarity=-0.043  Sum_probs=115.6

Q ss_pred             hccCChh-HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC----------hhhHHHHHHHHHhcCCCCChhhHHHHHHH
Q 040367           28 AKNKHYD-TVLSLFKRLNSTGLFPDLYTYNILINCFCKMGR----------VSHGFVVLGRILRSCFTPNAVTFTSLIKG   96 (400)
Q Consensus        28 ~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   96 (400)
                      .+.|.++ +|+.+++.+...+ |-+..+|+.--.++...+.          +++++.+++.++... +-+..+|+.-..+
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wl  117 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWL  117 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            4566665 7999999999875 3355566655444444433          678889999988875 3478888888777


Q ss_pred             HHhcC--CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh-HHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHh
Q 040367           97 LCAES--RIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHT-IVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKD  173 (400)
Q Consensus        97 ~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  173 (400)
                      +...+  .+++++.+++++.+.. +.|..+|+.-...+...|.. ++++.                       .++++.+
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~-----------------------~~~~~I~  173 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELA-----------------------FTDSLIT  173 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHH-----------------------HHHHHHH
T ss_pred             HhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHH-----------------------HHHHHHH
Confidence            77777  4889999999999886 56888888877777777762 44444                       4444444


Q ss_pred             CCCCCChHhHHHHHHHHHhc--------------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 040367          174 ENINPDVVTYTSVIRGFCYA--------------NDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCK  227 (400)
Q Consensus       174 ~~~~~~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  227 (400)
                      .+ +-|..+|+.....+...              +.++++++.+...+... |-|...|+-+-..+.+
T Consensus       174 ~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~  239 (331)
T 3dss_A          174 RN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGA  239 (331)
T ss_dssp             HC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHS
T ss_pred             HC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHh
Confidence            43 44667777666555544              34677777777777653 4466666544444433

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.63  E-value=5.9e-07  Score=62.74  Aligned_cols=94  Identities=10%  Similarity=-0.065  Sum_probs=55.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 040367          288 YSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCK  367 (400)
Q Consensus       288 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  367 (400)
                      +..+...+.+.|++++|...++++++... .+...|..+..++...|++++|+..|+++.+.. +.+...+..+..++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            34445555666666666666666665432 245555566666666666666666666666542 2245556666666666


Q ss_pred             cCcHHHHHHHHHHHHH
Q 040367          368 NSYIVEAVELFRTLRI  383 (400)
Q Consensus       368 ~g~~~~a~~~~~~~~~  383 (400)
                      .|++++|+..+++.++
T Consensus        98 ~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           98 EHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            6666666666666654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.63  E-value=5.8e-07  Score=62.81  Aligned_cols=96  Identities=8%  Similarity=-0.103  Sum_probs=60.9

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLC   98 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (400)
                      .+..+...+.+.|++++|+..|++..+.. +.+...+..+..++...|++++|+..+++.++.. +.+...+..+..++.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            45555566666777777777777666653 3356666666666667777777777777666654 224556666666666


Q ss_pred             hcCCHHHHHHHHHHHHHc
Q 040367           99 AESRIMEAAALFTKLRVF  116 (400)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~  116 (400)
                      ..|++++|...+++..+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC-
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            667777777666666543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.62  E-value=3.5e-06  Score=73.48  Aligned_cols=200  Identities=10%  Similarity=0.009  Sum_probs=127.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCC----------------CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCccc
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCEP----------------NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEG  159 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~----------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  159 (400)
                      .+.+.|++++|++.|..+.+.....                ...++..++..|...|++++|.+.+..+..         
T Consensus        13 ~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~---------   83 (434)
T 4b4t_Q           13 RLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTE---------   83 (434)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHH---------
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---------
Confidence            3445566666666666655432110                012467789999999998888887766532         


Q ss_pred             chHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhCCChHHH
Q 040367          160 FVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMD----QGVQP-NVVTFNVIMDELCKNGKMDEA  234 (400)
Q Consensus       160 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~~~~~~~~~~~a  234 (400)
                             ++....+.  .......+.+...+...|+++.|..+++....    .+..+ -..++..+...+...|++++|
T Consensus        84 -------~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  154 (434)
T 4b4t_Q           84 -------YMMQFAKS--KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDS  154 (434)
T ss_dssp             -------HHHTSCHH--HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHH
T ss_pred             -------HHHHccch--HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHH
Confidence                   11111100  00112233344455567888999988887753    22222 245777888899999999999


Q ss_pred             HHHHHHHHHc--CCC---CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhc----CCCCC--hhhHHHHHHHHHhcCCHHH
Q 040367          235 SRLLDLMIQI--GVR---PNAFVYNTLMDGFCLTGRVNRAKELFVSMESM----GCTHT--VFSYSILINGYCKNKEIEG  303 (400)
Q Consensus       235 ~~~~~~~~~~--~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~  303 (400)
                      ..+++++...  +..   ....++..++..|...|++++|...+++....    ..++.  ...+..+...+...+++++
T Consensus       155 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~  234 (434)
T 4b4t_Q          155 LALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKT  234 (434)
T ss_dssp             HHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHH
T ss_pred             HHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHH
Confidence            9999887654  111   12456778888999999999999999887542    11111  2445666777788899999


Q ss_pred             HHHHHHHHHh
Q 040367          304 ALSLYGEMLS  313 (400)
Q Consensus       304 a~~~~~~~~~  313 (400)
                      |...|.+..+
T Consensus       235 A~~~~~~a~~  244 (434)
T 4b4t_Q          235 AFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9888877654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.61  E-value=3e-06  Score=61.42  Aligned_cols=93  Identities=11%  Similarity=-0.013  Sum_probs=38.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHH
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCTHT----VFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFV  328 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  328 (400)
                      +..+...+...|++++|...|++..+..  |+    ...+..+..++...|++++|...+++..+... .+...+..+..
T Consensus        31 ~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~  107 (148)
T 2dba_A           31 LRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDG-GDVKALYRRSQ  107 (148)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTS-CCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCc-cCHHHHHHHHH
Confidence            3333444444444444444444444332  22    23344444444444444444444444443321 12333444444


Q ss_pred             HHHhhCcHHHHHHHHHHHHH
Q 040367          329 VLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       329 ~~~~~~~~~~a~~~~~~~~~  348 (400)
                      ++...|++++|...|++..+
T Consensus       108 ~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          108 ALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            44444444444444444443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.56  E-value=6.9e-07  Score=65.92  Aligned_cols=131  Identities=14%  Similarity=0.021  Sum_probs=72.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-CC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-chhh
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCT-HT----VFSYSILINGYCKNKEIEGALSLYGEMLSK----GIKP-DVVI  322 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~  322 (400)
                      +..+...+...|++++|...+++..+.... ++    ...+..+...+...|++++|.+.+++..+.    +..+ ....
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            444444555555555555555554332100 01    124555566666666666666666655442    1000 1334


Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHHc----CCC-CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          323 YNTLFVVLFEIHQVERAFKLFDEMQRD----GVA-ADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       323 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      +..+...+...|++++|.+.+++..+.    +.. .....+..+...+...|++++|.+.+++..+
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            555666667777777777777766543    111 1134566677777778888888888777764

>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=98.56  E-value=2.7e-07  Score=81.31  Aligned_cols=126  Identities=7%  Similarity=-0.053  Sum_probs=101.6

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 040367           18 CSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGL   97 (400)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   97 (400)
                      ..+..+...+.+.|++++|++.|++..+.. +.+..++..+..++.+.|++++|++.+++..+.. +.+...+..+..+|
T Consensus         7 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~   84 (477)
T 1wao_1            7 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   84 (477)
T ss_dssp             TTSSSSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            344555667788999999999999998874 4468899999999999999999999999999875 34678899999999


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--HHhcCChHHHHHHHH
Q 040367           98 CAESRIMEAAALFTKLRVFGCEPNVFTYNTLING--LYRTGHTIVALNLFE  146 (400)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  146 (400)
                      ...|++++|.+.|++..+.. +.+...+..+..+  +.+.|++++|+..++
T Consensus        85 ~~~g~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           85 MALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHTCHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999999999998874 3345566666655  888899999999888

>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=98.53  E-value=6e-07  Score=78.73  Aligned_cols=125  Identities=10%  Similarity=-0.020  Sum_probs=100.5

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCC---------------HHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPD---------------LYTYNILINCFCKMGRVSHGFVVLGRILR   80 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   80 (400)
                      ....|..+...+.+.|++++|+..|+++.+.. +.+               ..+|..+..++.+.|++++|+..++++++
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  345 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL-EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALG  345 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            45578888889999999999999999988753 223               57888999999999999999999999988


Q ss_pred             cCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 040367           81 SCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALN  143 (400)
Q Consensus        81 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  143 (400)
                      .. +.+...+..+..+|...|++++|...|++..+.. +.+...+..+..++.+.++.+++.+
T Consensus       346 ~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~  406 (457)
T 1kt0_A          346 LD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERDR  406 (457)
T ss_dssp             HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHH
T ss_pred             cC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            75 3467888889999999999999999999998764 4466778888888888887766653

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.52  E-value=2e-06  Score=63.65  Aligned_cols=99  Identities=8%  Similarity=0.019  Sum_probs=60.8

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhc--------C---------CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040367          250 AFVYNTLMDGFCLTGRVNRAKELFVSMESM--------G---------CTHTVFSYSILINGYCKNKEIEGALSLYGEML  312 (400)
Q Consensus       250 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  312 (400)
                      ...+......+.+.|++++|...|.+....        .         .+.+...|..+..+|.+.|++++|+..+++++
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            445666777777778888888888777654        0         01223455556666666666666666666666


Q ss_pred             hCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          313 SKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       313 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      +... .+...|..+..++...|++++|...|++.++.
T Consensus        91 ~~~p-~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KREE-TNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcCC-cchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            5532 24555566666666666666666666666654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.52  E-value=2e-07  Score=64.78  Aligned_cols=86  Identities=13%  Similarity=0.027  Sum_probs=47.0

Q ss_pred             cCChhHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHH
Q 040367           30 NKHYDTVLSLFKRLNSTG--LFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAA  107 (400)
Q Consensus        30 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  107 (400)
                      .|++++|+..|++..+.+  -+.+..++..+..++...|++++|+..+++.++.. +.+...+..+..++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            456666666666666543  12234455566666666666666666666666553 224555555666666666666666


Q ss_pred             HHHHHHHHc
Q 040367          108 ALFTKLRVF  116 (400)
Q Consensus       108 ~~~~~~~~~  116 (400)
                      ..+++....
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            666665544

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.51  E-value=1.4e-06  Score=64.30  Aligned_cols=97  Identities=14%  Similarity=0.107  Sum_probs=53.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCC----C-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-Cchh
Q 040367          252 VYNTLMDGFCLTGRVNRAKELFVSMESMGC----T-HTVFSYSILINGYCKNKEIEGALSLYGEMLSK----GIK-PDVV  321 (400)
Q Consensus       252 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~  321 (400)
                      ++..+...+...|++++|...+++..+...    + .....+..+...+...|++++|.+.+++..+.    +.. ....
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            344445555555555555555555433210    0 01334555666666677777777766665542    111 1133


Q ss_pred             hHHHHHHHHHhhCcHHHHHHHHHHHHH
Q 040367          322 IYNTLFVVLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       322 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  348 (400)
                      .+..+...+...|++++|.+.+++..+
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            456666777777888888887777664

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.51  E-value=7.5e-06  Score=57.69  Aligned_cols=92  Identities=13%  Similarity=0.109  Sum_probs=44.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCh---hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc---hhhHHHHHHH
Q 040367          256 LMDGFCLTGRVNRAKELFVSMESMGCTHTV---FSYSILINGYCKNKEIEGALSLYGEMLSKGIKPD---VVIYNTLFVV  329 (400)
Q Consensus       256 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~  329 (400)
                      +...+...|++++|...|+.+.+.. +.+.   ..+..+..++...|++++|...++++.+.... +   ...+..+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHH
Confidence            3344445555555555555555432 1122   24444555555555555555555555543211 1   3334444555


Q ss_pred             HHhhCcHHHHHHHHHHHHHc
Q 040367          330 LFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       330 ~~~~~~~~~a~~~~~~~~~~  349 (400)
                      +...|++++|...|+++.+.
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            55555555555555555543

>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=98.51  E-value=5.3e-07  Score=79.42  Aligned_cols=119  Identities=13%  Similarity=0.061  Sum_probs=60.0

Q ss_pred             HHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHH
Q 040367          224 ELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEG  303 (400)
Q Consensus       224 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  303 (400)
                      .+.+.|++++|.+.++++.+.. +.+..++..+..+|.+.|++++|...+++..+.. +.+...+..+..+|...|++++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            3445566666666666665542 2235555555556666666666666666655553 3345555555556666666666


Q ss_pred             HHHHHHHHHhCCCCCchhhHHHHHHH--HHhhCcHHHHHHHHHH
Q 040367          304 ALSLYGEMLSKGIKPDVVIYNTLFVV--LFEIHQVERAFKLFDE  345 (400)
Q Consensus       304 a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~  345 (400)
                      |.+.++++.+.... +...+..+..+  +.+.|++++|++.+++
T Consensus        93 A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           93 ALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            66666655554211 22333333333  4455555555555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.49  E-value=7.2e-06  Score=57.81  Aligned_cols=97  Identities=13%  Similarity=-0.002  Sum_probs=71.7

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC---hhhHHH
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDL---YTYNILINCFCKMGRVSHGFVVLGRILRSCFTPN---AVTFTS   92 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~   92 (400)
                      .+..+...+.+.|++++|+..|+.+.+.. +.+.   ..+..+..++...|++++|...++++.+.... +   ...+..
T Consensus         4 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~   81 (129)
T 2xev_A            4 TAYNVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLK   81 (129)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHH
Confidence            34556677788888888888888887753 2233   46777788888888888888888888776422 3   556777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcC
Q 040367           93 LIKGLCAESRIMEAAALFTKLRVFG  117 (400)
Q Consensus        93 l~~~~~~~~~~~~a~~~~~~~~~~~  117 (400)
                      +..++...|++++|...|+++.+..
T Consensus        82 la~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           82 LGLSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            7788888888888888888887763

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.48  E-value=5e-06  Score=72.90  Aligned_cols=131  Identities=9%  Similarity=-0.038  Sum_probs=87.2

Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC--------------HHhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 040367          215 VVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPN--------------AFVYNTLMDGFCLTGRVNRAKELFVSMESMG  280 (400)
Q Consensus       215 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  280 (400)
                      ...+..+...+.+.|++++|...|+++++......              ...+..+..+|.+.|++++|+..++++.+..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  347 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD  347 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            34555566666677777777777776666422111              4667777778888888888888888887765


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHH-HHHHHH
Q 040367          281 CTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFK-LFDEMQ  347 (400)
Q Consensus       281 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~  347 (400)
                       +.+...|..+..+|...|++++|...|+++++... .+...+..+..++...++.+++.+ .+..|.
T Consensus       348 -p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          348 -SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             -CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             45677777888888888888888888888877642 245566777777777777776653 334443

>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=98.48  E-value=3e-06  Score=71.89  Aligned_cols=91  Identities=10%  Similarity=-0.052  Sum_probs=66.8

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 040367          284 TVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFID  363 (400)
Q Consensus       284 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  363 (400)
                      +...|..+..+|.+.|++++|++.++++++... .+...+..+..++...|++++|++.|+++.+.. +.+...+..+..
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~  349 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP-SNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLK  349 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCc-hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            456677788888888888888888888887643 256677778888888888888888888887762 235666777777


Q ss_pred             HHHhcCcHHHHHH
Q 040367          364 GLCKNSYIVEAVE  376 (400)
Q Consensus       364 ~~~~~g~~~~a~~  376 (400)
                      ++...++.+++.+
T Consensus       350 ~~~~~~~~~~a~k  362 (370)
T 1ihg_A          350 VKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            7777776666544

>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=98.42  E-value=1.3e-05  Score=57.35  Aligned_cols=110  Identities=9%  Similarity=-0.078  Sum_probs=62.0

Q ss_pred             CHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh----hCcHHHHH
Q 040367          265 RVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE----IHQVERAF  340 (400)
Q Consensus       265 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  340 (400)
                      ++++|...|++..+.+ .+...    |...|...+..++|.++|++..+.|   +...+..+...|..    .+++++|.
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            4555666666655554 22222    4555555555556666666666553   44455555555555    55666666


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHh----cCcHHHHHHHHHHHHHhc
Q 040367          341 KLFDEMQRDGVAADTWTYRTFIDGLCK----NSYIVEAVELFRTLRILK  385 (400)
Q Consensus       341 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  385 (400)
                      ++|++..+.|   +......|...|..    .+++++|.++|++..+.|
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            6666666543   44555555556655    566666666666666554

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.42  E-value=6.8e-07  Score=62.04  Aligned_cols=86  Identities=13%  Similarity=0.094  Sum_probs=54.7

Q ss_pred             cCCHHHHHHHHHHHHhcC--CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHH
Q 040367          263 TGRVNRAKELFVSMESMG--CTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAF  340 (400)
Q Consensus       263 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  340 (400)
                      .|++++|+..|++..+.+  -+.+...+..+..+|...|++++|.+.++++++..+. +...+..+..++...|++++|.
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            566777777777776652  1334556666777777777777777777777765432 4566666777777777777777


Q ss_pred             HHHHHHHHc
Q 040367          341 KLFDEMQRD  349 (400)
Q Consensus       341 ~~~~~~~~~  349 (400)
                      ..+++..+.
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            777776654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.41  E-value=5.7e-06  Score=61.13  Aligned_cols=100  Identities=13%  Similarity=0.025  Sum_probs=81.0

Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHHHc--------C---------CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040367          215 VVTFNVIMDELCKNGKMDEASRLLDLMIQI--------G---------VRPNAFVYNTLMDGFCLTGRVNRAKELFVSME  277 (400)
Q Consensus       215 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  277 (400)
                      ...+......+.+.|++++|...|.+.+..        .         .+.+...+..+..+|.+.|++++|...++.+.
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            456777788888999999999999988775        0         01134577788888999999999999999998


Q ss_pred             hcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040367          278 SMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG  315 (400)
Q Consensus       278 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  315 (400)
                      +.+ +.+...|..+..+|...|++++|...|++.++..
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            876 5678888889999999999999999999888863

>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=98.39  E-value=8e-06  Score=69.28  Aligned_cols=122  Identities=12%  Similarity=-0.002  Sum_probs=82.1

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHc---------------CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 040367          218 FNVIMDELCKNGKMDEASRLLDLMIQI---------------GVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCT  282 (400)
Q Consensus       218 ~~~l~~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  282 (400)
                      +..+...+.+.|++++|...|+++++.               ..+.+..++..+..+|.+.|++++|+..++++.+.. +
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  304 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-P  304 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-T
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-c
Confidence            444445555555666655555555541               011234667777888888888888888888888765 4


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHH
Q 040367          283 HTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFK  341 (400)
Q Consensus       283 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  341 (400)
                      .+...+..+..+|...|++++|.+.++++.+.... +...+..+..++...++.+++.+
T Consensus       305 ~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~-~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          305 SNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHH
Confidence            56777888888888888888888888888876422 55566666666666666666543

>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=98.37  E-value=6.8e-06  Score=59.22  Aligned_cols=62  Identities=15%  Similarity=0.016  Sum_probs=43.2

Q ss_pred             hHHHHHHHHHhhCcHHHHHHHHHHHHHc-----CCCCC-HHHH----HHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          322 IYNTLFVVLFEIHQVERAFKLFDEMQRD-----GVAAD-TWTY----RTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       322 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~-~~~~----~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      .|..+..++.+.|++++|+..+++.++.     .+.|+ ...|    .....++...|++++|+..|++.++
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            6667777777777777777777777663     11343 4566    6777777888888888888887764

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.35  E-value=3.4e-06  Score=73.89  Aligned_cols=132  Identities=8%  Similarity=-0.107  Sum_probs=98.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcC---CCC----CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHH
Q 040367           96 GLCAESRIMEAAALFTKLRVFG---CEP----NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELF  168 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~  168 (400)
                      .+...|++++|+.++++.++..   +.+    ...+++.|..+|...|++++|..++                +++++++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~----------------~~aL~i~  381 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYA----------------RRMVDGY  381 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHH----------------HHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHH----------------HHHHHHH
Confidence            3557899999999999887641   112    3567899999999999999999985                4566777


Q ss_pred             HHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CC--CCCHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 040367          169 LQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ-----GV--QPNVVTFNVIMDELCKNGKMDEASRLLDLM  241 (400)
Q Consensus       169 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  241 (400)
                      ++......+....+++.|...|...|++++|..++++..+.     |.  +....+...+-.++...+.+++|+.++.++
T Consensus       382 ~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~  461 (490)
T 3n71_A          382 MKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKM  461 (490)
T ss_dssp             HHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77766654555678999999999999999999999987642     31  112234455566666777788888888777


Q ss_pred             HH
Q 040367          242 IQ  243 (400)
Q Consensus       242 ~~  243 (400)
                      .+
T Consensus       462 ~~  463 (490)
T 3n71_A          462 RE  463 (490)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.34  E-value=2.2e-06  Score=71.89  Aligned_cols=129  Identities=10%  Similarity=0.047  Sum_probs=72.5

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHH------------------HHHHHHHHHHhcCChhhHHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLY------------------TYNILINCFCKMGRVSHGFVVLGR   77 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------------------~~~~l~~~~~~~~~~~~a~~~~~~   77 (400)
                      ....+..+...+.+.|++++|+..|++....  .|+..                  +|..+..++.+.|++++|+..+++
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~  255 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNI  255 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3445777888888999999999999988765  24433                  667777777778888888888887


Q ss_pred             HHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HhcCChHHHHHHHHHH
Q 040367           78 ILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGL-YRTGHTIVALNLFEEM  148 (400)
Q Consensus        78 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~  148 (400)
                      .++.. +.+...+..+..+|...|++++|...|++..+.. +.+...+..+.... ...+..+.+...|..+
T Consensus       256 al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~  325 (338)
T 2if4_A          256 VLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQEKALYQKQKEMYKGI  325 (338)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------------
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            77764 3356677777777888888888888887776543 22344444444432 2233434444444443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.33  E-value=6.7e-06  Score=72.06  Aligned_cols=132  Identities=10%  Similarity=-0.063  Sum_probs=103.1

Q ss_pred             HHHhcCChhhHHHHHHHHHhcC---C---CC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----C-CCC-CHHHHH
Q 040367           61 CFCKMGRVSHGFVVLGRILRSC---F---TP-NAVTFTSLIKGLCAESRIMEAAALFTKLRVF-----G-CEP-NVFTYN  126 (400)
Q Consensus        61 ~~~~~~~~~~a~~~~~~~~~~~---~---~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~-~~~~~~  126 (400)
                      .+...|++++|+.++++.+...   +   .| ...+++.|..+|...|++++|..++++.++.     | -.| ...+++
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            3557899999999998887641   1   12 2457899999999999999999999987653     3 112 356789


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 040367          127 TLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEM  206 (400)
Q Consensus       127 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  206 (400)
                      .|...|...|++++|..++                ++|+++++.....+.+....+.+.+..++...+.+++|..+|..+
T Consensus       398 nLa~~~~~~G~~~eA~~~~----------------~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~  461 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMI----------------CKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKM  461 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHH----------------HHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHH----------------HHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999984                567778877776654445556677777888899999999999998


Q ss_pred             Hh
Q 040367          207 MD  208 (400)
Q Consensus       207 ~~  208 (400)
                      .+
T Consensus       462 ~~  463 (490)
T 3n71_A          462 RE  463 (490)
T ss_dssp             HH
T ss_pred             HH
Confidence            75

>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=98.30  E-value=0.00014  Score=65.33  Aligned_cols=173  Identities=7%  Similarity=-0.017  Sum_probs=133.7

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC----------hHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcC
Q 040367          195 DWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGK----------MDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTG  264 (400)
Q Consensus       195 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  264 (400)
                      ..++|++.++++...+ +-+...|+.--.++...|+          ++++++.++.+.+... -+..+|..-..++.+.+
T Consensus        44 ~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~p-K~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           44 LDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcc
Confidence            3467899999998864 4456667666566666666          8999999999988753 37778887777888888


Q ss_pred             --CHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhh--------
Q 040367          265 --RVNRAKELFVSMESMGCTHTVFSYSILINGYCKNK-EIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEI--------  333 (400)
Q Consensus       265 --~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------  333 (400)
                        +++++...++++.+.+ +.+...|+.-...+...| .++++++.+.++++..+. |...|+.....+...        
T Consensus       122 ~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          122 EPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhcccccccc
Confidence              6799999999999887 668888888888888888 889999999999887654 777888777766553        


Q ss_pred             ------CcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHH
Q 040367          334 ------HQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIV  372 (400)
Q Consensus       334 ------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  372 (400)
                            +.++++++.+++++... +-+...|..+...+.+.++.+
T Consensus       200 ~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCS
T ss_pred             cccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCcc
Confidence                  66889999999888763 346778887777777766643

>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=98.30  E-value=1.7e-05  Score=57.20  Aligned_cols=97  Identities=13%  Similarity=0.008  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC------C-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHc------
Q 040367           54 TYNILINCFCKMGRVSHGFVVLGRILRSCFTP------N-----AVTFTSLIKGLCAESRIMEAAALFTKLRVF------  116 (400)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------  116 (400)
                      .+......+.+.|++++|+..|++.++..+..      +     ...|..+..++.+.|++++|+..+++.++.      
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            34555566666677777777777766653220      1     227788888888888888888888888775      


Q ss_pred             -CCCCCHHHH----HHHHHHHHhcCChHHHHHHHHHHHcC
Q 040367          117 -GCEPNVFTY----NTLINGLYRTGHTIVALNLFEEMASG  151 (400)
Q Consensus       117 -~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (400)
                       . +-+...|    .....++...|++++|+..|++..+.
T Consensus        93 ~~-pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           93 LN-QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             TT-STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CC-CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence             4 3456677    88888999999988888888877554

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.27  E-value=5.1e-06  Score=69.68  Aligned_cols=148  Identities=7%  Similarity=-0.069  Sum_probs=78.3

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 040367          181 VTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGF  260 (400)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  260 (400)
                      ..+..+...+.+.|++++|+..|++.....  |+...       +...++.+++...+.          ...+..+..+|
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~~  240 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHHH
Confidence            456667777888888888888888877642  33221       122233333322221          13566777888


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHH-HHhhCcHHHH
Q 040367          261 CLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVV-LFEIHQVERA  339 (400)
Q Consensus       261 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a  339 (400)
                      .+.|++++|...+++..+.. +.+...|..+..+|...|++++|...|+++.+.... +...+..+... ....+..+.+
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-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888888765 456777888888888888888888888888765322 34444444444 2345667777


Q ss_pred             HHHHHHHHHc
Q 040367          340 FKLFDEMQRD  349 (400)
Q Consensus       340 ~~~~~~~~~~  349 (400)
                      ..+|..|...
T Consensus       319 ~~~~~~~l~~  328 (338)
T 2if4_A          319 KEMYKGIFKG  328 (338)
T ss_dssp             ----------
T ss_pred             HHHHHHhhCC
Confidence            7888877754

>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=98.26  E-value=0.00017  Score=64.76  Aligned_cols=172  Identities=9%  Similarity=-0.077  Sum_probs=135.0

Q ss_pred             hHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCC----------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC-
Q 040367          161 VDKAKELFLQMKDENINPDVVTYTSVIRGFCYAND----------WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNG-  229 (400)
Q Consensus       161 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-  229 (400)
                      .++|++.++++...+ |-+..+|+.--.++...|+          ++++++.++.+.+.+ +-+..+|..-.-++.+.+ 
T Consensus        45 ~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           45 DESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             SHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSS
T ss_pred             CHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHccc
Confidence            466777777777654 4456677776666666666          899999999999875 557788888878888888 


Q ss_pred             -ChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcC-CHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc---------
Q 040367          230 -KMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTG-RVNRAKELFVSMESMGCTHTVFSYSILINGYCKN---------  298 (400)
Q Consensus       230 -~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------  298 (400)
                       +++++++.++++.+.... +..+|+.-..+..+.| .++++.+.+.++.+.+ +-|...|+.....+...         
T Consensus       123 ~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          123 PNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccccccc
Confidence             679999999999998543 7888888888888888 8999999999998876 56788888877776663         


Q ss_pred             -----CCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHH
Q 040367          299 -----KEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVE  337 (400)
Q Consensus       299 -----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  337 (400)
                           +.++++++.+.+++...+. +...|..+...+.+.++++
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCCCS
T ss_pred             ccccHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCCcc
Confidence                 5678999999999987533 7778888877777766633

>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=98.25  E-value=4e-05  Score=54.74  Aligned_cols=110  Identities=13%  Similarity=0.044  Sum_probs=56.4

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCCHHHHH
Q 040367          230 KMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCK----NKEIEGAL  305 (400)
Q Consensus       230 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  305 (400)
                      ++++|.+.|++..+.| .+...    +...|...+..++|...|++..+.+   ++..+..|...|..    .+++++|.
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            3455555555555544 11211    4444444455555555555555543   34445555555554    45556666


Q ss_pred             HHHHHHHhCCCCCchhhHHHHHHHHHh----hCcHHHHHHHHHHHHHcC
Q 040367          306 SLYGEMLSKGIKPDVVIYNTLFVVLFE----IHQVERAFKLFDEMQRDG  350 (400)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  350 (400)
                      ++|++..+.|   +...+..+...|..    .+++++|..+|++..+.|
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            6665555543   34444555555554    555666666666555543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.13  E-value=2.3e-05  Score=53.97  Aligned_cols=79  Identities=11%  Similarity=0.057  Sum_probs=45.9

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040367           35 TVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLR  114 (400)
Q Consensus        35 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  114 (400)
                      .|+..|++..+.. +.+...+..+...+...|++++|+..+++.++.. +.+...+..+..++...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4555666665543 3345566666666666666666666666666553 2244555556666666666666666666555


Q ss_pred             H
Q 040367          115 V  115 (400)
Q Consensus       115 ~  115 (400)
                      +
T Consensus        81 ~   81 (115)
T 2kat_A           81 A   81 (115)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=98.12  E-value=1.6e-05  Score=57.11  Aligned_cols=87  Identities=7%  Similarity=-0.079  Sum_probs=59.7

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH----------HHHHHHHHHHHhCCCCCchhhHHHHHHHH
Q 040367          261 CLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEI----------EGALSLYGEMLSKGIKPDVVIYNTLFVVL  330 (400)
Q Consensus       261 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  330 (400)
                      .+.+.+++|...++...+.+ +.+...|..+..++...+++          ++|+..|++.++..+. +...|..+..+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHH
Confidence            45566778888888877776 55777777777777777654          4777777777776433 456677777777


Q ss_pred             HhhC-----------cHHHHHHHHHHHHHc
Q 040367          331 FEIH-----------QVERAFKLFDEMQRD  349 (400)
Q Consensus       331 ~~~~-----------~~~~a~~~~~~~~~~  349 (400)
                      ...|           ++++|++.|+++++.
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh
Confidence            6653           677777777777664

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.11  E-value=2.9e-05  Score=53.40  Aligned_cols=79  Identities=16%  Similarity=0.091  Sum_probs=44.8

Q ss_pred             HHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHH
Q 040367          268 RAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQ  347 (400)
Q Consensus       268 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  347 (400)
                      .|...|++..+.. +.+...+..+...+...|++++|...+++.++... .+...|..+..++...|++++|...|+++.
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDP-TYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3445555555443 33455556666666666666666666666655432 234455556666666666666666666655


Q ss_pred             H
Q 040367          348 R  348 (400)
Q Consensus       348 ~  348 (400)
                      +
T Consensus        81 ~   81 (115)
T 2kat_A           81 A   81 (115)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.10  E-value=3.7e-06  Score=57.50  Aligned_cols=63  Identities=11%  Similarity=0.082  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 040367           53 YTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        53 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      ..+..+...+...|++++|.+.+++.++.. +.+...+..+..++...|++++|.+.+++..+.
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            5 EKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            344444444455555555555555544442 223444444555555555555555555555443

>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=98.08  E-value=2e-05  Score=56.64  Aligned_cols=86  Identities=7%  Similarity=-0.040  Sum_probs=53.8

Q ss_pred             hCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCH----------HHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 040367          227 KNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRV----------NRAKELFVSMESMGCTHTVFSYSILINGYC  296 (400)
Q Consensus       227 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  296 (400)
                      +.+.+++|.+.+++..+.. +.+...+..+..++...+++          ++|+..|++..+.+ +.+...|..+..+|.
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~   91 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHH
Confidence            4455666666776666653 23556666666666666553          36777777766665 445566666777766


Q ss_pred             hcC-----------CHHHHHHHHHHHHhC
Q 040367          297 KNK-----------EIEGALSLYGEMLSK  314 (400)
Q Consensus       297 ~~~-----------~~~~a~~~~~~~~~~  314 (400)
                      ..|           ++++|.+.|+++++.
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHh
Confidence            553           677777777777664

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.99  E-value=3.6e-05  Score=52.40  Aligned_cols=60  Identities=13%  Similarity=0.075  Sum_probs=26.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  313 (400)
                      +..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|.+.+++.++
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A            7 QKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3334444444444444444444444432 22334444444444444444444444444443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.99  E-value=0.00012  Score=47.63  Aligned_cols=77  Identities=18%  Similarity=0.135  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 040367           54 TYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGL  132 (400)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  132 (400)
                      .+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+..++
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~   87 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            34444444444455555555554444432 1233444444455555555555555555544432 22334444443333

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.99  E-value=0.00012  Score=47.54  Aligned_cols=60  Identities=15%  Similarity=0.246  Sum_probs=23.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHH
Q 040367          288 YSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       288 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  348 (400)
                      +..+...+...|++++|...+++..+... .+...+..+..++...|++++|...+++..+
T Consensus        12 ~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           12 WYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            33333344444444444444444433321 1233333444444444444444444444443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.85  E-value=5.9e-05  Score=50.33  Aligned_cols=65  Identities=17%  Similarity=0.113  Sum_probs=46.0

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRS   81 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (400)
                      ++..+..+...+.+.|++++|+..|++..+.. +.+...|..+..++...|++++|.+.+++.++.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            66677777777777777777777777777654 335566777777777777777777777776643

>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=97.85  E-value=0.00096  Score=55.27  Aligned_cols=72  Identities=11%  Similarity=0.009  Sum_probs=43.1

Q ss_pred             CchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHH
Q 040367          318 PDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAY  393 (400)
Q Consensus       318 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  393 (400)
                      .+..+|..+...+...|++++|...+++++..+  |+...|..+...+.-.|++++|.+.+++....  .|...+|
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~  346 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTL  346 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHH
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChH
Confidence            345555555555555666666666666666653  55555555566666666666666666666653  4444443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.81  E-value=0.00011  Score=48.90  Aligned_cols=64  Identities=16%  Similarity=0.079  Sum_probs=35.7

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 040367           51 DLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRV  115 (400)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  115 (400)
                      +...+..+..++...|++++|+..|+++++.+ +.+...|..+..+|...|++++|.+.|++..+
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            44555555556666666666666666655543 22344555555555666666666665555543

>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=0.00025  Score=61.11  Aligned_cols=94  Identities=7%  Similarity=-0.146  Sum_probs=74.5

Q ss_pred             hcCCHHHHHHHHHHHHHcC---CCC----CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHH
Q 040367           99 AESRIMEAAALFTKLRVFG---CEP----NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQM  171 (400)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  171 (400)
                      ..|++++|+.++++..+..   +.|    ...+++.|..+|...|++++|..++                +++++++++.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~----------------~~aL~i~~~~  373 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYG----------------QKIIKPYSKH  373 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHH----------------HHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHH----------------HHHHHHHHHH
Confidence            3578999999999877631   122    2467899999999999999999985                4566777777


Q ss_pred             HhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          172 KDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMD  208 (400)
Q Consensus       172 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  208 (400)
                      .....+....+++.|...|...|++++|+.++++..+
T Consensus       374 lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          374 YPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             SCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            6665444567899999999999999999999998764

>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=97.54  E-value=0.00048  Score=59.43  Aligned_cols=99  Identities=13%  Similarity=-0.035  Sum_probs=78.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcC---CCC----CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHH
Q 040367           94 IKGLCAESRIMEAAALFTKLRVFG---CEP----NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKE  166 (400)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~  166 (400)
                      +..+.+.|++++|+.++++..+..   +.|    ...+++.+..+|...|++++|+.++                +++++
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~----------------~~~L~  357 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYG----------------TRTME  357 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHH----------------HHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHH----------------HHHHH
Confidence            445667899999999999988642   222    2567899999999999999999985                45666


Q ss_pred             HHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          167 LFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMD  208 (400)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  208 (400)
                      +++.......+....+++.|...|...|++++|..++++..+
T Consensus       358 i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          358 PYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            777776655455567889999999999999999999998764

>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=97.51  E-value=0.0011  Score=57.11  Aligned_cols=114  Identities=9%  Similarity=-0.085  Sum_probs=81.8

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhcC---CCC----ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----C-CCC-CHH
Q 040367           58 LINCFCKMGRVSHGFVVLGRILRSC---FTP----NAVTFTSLIKGLCAESRIMEAAALFTKLRVF-----G-CEP-NVF  123 (400)
Q Consensus        58 l~~~~~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~-~~~  123 (400)
                      .+..+...|++++|+.++++.+...   +.|    ...+++.++.+|...|++++|+.++++..+.     | -.| ...
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            3455667899999999999998642   122    2357889999999999999999999987753     2 122 356


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHH
Q 040367          124 TYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVI  187 (400)
Q Consensus       124 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  187 (400)
                      +++.|...|...|++++|..++                ++|++++......+.+....+++.|-
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~----------------~~Al~i~~~~lG~~Hp~~~~~~~~l~  420 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNL----------------RLAFDIMRVTHGREHSLIEDLILLLE  420 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHH----------------HHHHHHHHHHTCTTSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHH----------------HHHHHHHHHhcCCCChHHHHHHHHHH
Confidence            7899999999999999999885                55667777665544332333334333

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.49  E-value=0.0013  Score=46.74  Aligned_cols=79  Identities=11%  Similarity=0.033  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHhCCCCCchhhHHHHHHHHHhhC---cHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHhcCcHHHHHHH
Q 040367          303 GALSLYGEMLSKGIKPDVVIYNTLFVVLFEIH---QVERAFKLFDEMQRDGVAA--DTWTYRTFIDGLCKNSYIVEAVEL  377 (400)
Q Consensus       303 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~  377 (400)
                      .+.+-|.+....+. ++..+...+.+++++.+   +.++++.+|++..+.. .|  +...+-.+.-+|.+.|++++|.+.
T Consensus        16 ~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y   93 (152)
T 1pc2_A           16 KFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKY   93 (152)
T ss_dssp             HHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHH
T ss_pred             HHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHH
Confidence            33444444444332 34444445555555544   4445555555555542 12  234444455555555555555555


Q ss_pred             HHHHHH
Q 040367          378 FRTLRI  383 (400)
Q Consensus       378 ~~~~~~  383 (400)
                      ++.+++
T Consensus        94 ~~~lL~   99 (152)
T 1pc2_A           94 VRGLLQ   99 (152)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            555555

>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=97.49  E-value=0.0039  Score=51.71  Aligned_cols=134  Identities=7%  Similarity=-0.082  Sum_probs=91.0

Q ss_pred             CChhhHHHHHHHHhc--c---CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---C-Ch-hhH---HHHHHHHHh-
Q 040367           15 PPVCSFNILFGCLAK--N---KHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKM---G-RV-SHG---FVVLGRILR-   80 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~--~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~-~~-~~a---~~~~~~~~~-   80 (400)
                      .+..+|...+++...  .   .+..+|+.+|++..+.. |.....|..+.-++...   + .. ...   ...++.... 
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD-P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~  270 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS-PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTL  270 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhc
Confidence            588899988876543  2   34578999999999874 22455665544444311   1 11 111   112222111 


Q ss_pred             cCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcC
Q 040367           81 SCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASG  151 (400)
Q Consensus        81 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (400)
                      ...+.+..++..+...+...|++++|...+++....+  |+...|..+...+.-.|++++|...|++....
T Consensus       271 ~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          271 PELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             GGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            1225577788888777788899999999999999985  78888888899999999988887777766553

>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=97.47  E-value=0.00031  Score=60.55  Aligned_cols=85  Identities=8%  Similarity=-0.026  Sum_probs=58.8

Q ss_pred             cchHHHHHHHHHHHhC-------CCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C--CCCCHHHHHHHHHH
Q 040367          159 GFVDKAKELFLQMKDE-------NINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ-----G--VQPNVVTFNVIMDE  224 (400)
Q Consensus       159 ~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~  224 (400)
                      |++++|+.++++..+.       ..+....+++.+..+|...|++++|+.++++.++.     |  .+....+++.+...
T Consensus       312 g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  391 (433)
T 3qww_A          312 KSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRL  391 (433)
T ss_dssp             SCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHH
Confidence            4566666666665431       11223467888888999999999999988887642     2  12234567788888


Q ss_pred             HHhCCChHHHHHHHHHHHH
Q 040367          225 LCKNGKMDEASRLLDLMIQ  243 (400)
Q Consensus       225 ~~~~~~~~~a~~~~~~~~~  243 (400)
                      |...|++++|..+++++.+
T Consensus       392 ~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHH
Confidence            8888888888888887765

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.37  E-value=0.00089  Score=44.21  Aligned_cols=56  Identities=14%  Similarity=0.113  Sum_probs=29.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCchh-hHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          293 NGYCKNKEIEGALSLYGEMLSKGIKPDVV-IYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       293 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      ..+...|++++|.+.++++.+.... +.. .+..+..++...|++++|.+.|+++.+.
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3444555555555555555554211 333 4555555555555555555555555554

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.36  E-value=0.00093  Score=44.12  Aligned_cols=57  Identities=16%  Similarity=0.179  Sum_probs=34.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCChh-hHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          257 MDGFCLTGRVNRAKELFVSMESMGCTHTVF-SYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       257 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      ...+...|++++|...++++.+.. +.+.. .+..+..++...|++++|.+.|++..+.
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            344556666666666666666554 33445 5666666666666666666666666654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.18  E-value=0.0045  Score=40.24  Aligned_cols=65  Identities=9%  Similarity=0.058  Sum_probs=30.7

Q ss_pred             CHHhHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          249 NAFVYNTLMDGFCLTGR---VNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       249 ~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      ++..+..+..++...++   .++|...+++..+.+ +.++.....+...+.+.|++++|+..|+++.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            33444444444433322   355555555555443 334444444555555555555555555555543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.15  E-value=0.0043  Score=41.41  Aligned_cols=67  Identities=10%  Similarity=0.002  Sum_probs=49.4

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC------CCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          283 HTVFSYSILINGYCKNKEIEGALSLYGEMLSKG------IKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       283 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      .+..-+..|...+.+.|+++.|...++.+.+.-      -.+....+..+..++.+.|+++.|...++++.+.
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            345556678888888888888888888777631      1234567777888888888888888888888775

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.15  E-value=0.086  Score=49.87  Aligned_cols=167  Identities=11%  Similarity=0.065  Sum_probs=99.8

Q ss_pred             HHHHhccCChhHHHH-HHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 040367           24 FGCLAKNKHYDTVLS-LFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESR  102 (400)
Q Consensus        24 ~~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  102 (400)
                      .......+++++|.+ ++..+      |+......++..+.+.|.++.|+++.+..        .    .-.......|+
T Consensus       606 ~~~~~~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~~--------~----~~f~~~l~~~~  667 (814)
T 3mkq_A          606 FQTLTLRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPDQ--------D----QKFELALKVGQ  667 (814)
T ss_dssp             HHHHHHTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCCH--------H----HHHHHHHHHTC
T ss_pred             HhHHHHhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCCc--------c----hheehhhhcCC
Confidence            344456788888876 44211      21333477788888899999988766321        1    11344567899


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHh
Q 040367          103 IMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVT  182 (400)
Q Consensus       103 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  182 (400)
                      ++.|.++.+.      ..+...|..+...+.+.++++.|.+.|.++..          ++.+..++....      +...
T Consensus       668 ~~~A~~~~~~------~~~~~~W~~la~~al~~~~~~~A~~~y~~~~d----------~~~l~~l~~~~~------~~~~  725 (814)
T 3mkq_A          668 LTLARDLLTD------ESAEMKWRALGDASLQRFNFKLAIEAFTNAHD----------LESLFLLHSSFN------NKEG  725 (814)
T ss_dssp             HHHHHHHHTT------CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC----------HHHHHHHHHHTT------CHHH
T ss_pred             HHHHHHHHHh------hCcHhHHHHHHHHHHHcCCHHHHHHHHHHccC----------hhhhHHHHHHcC------CHHH
Confidence            9999998654      34788999999999999999888888887632          444444443311      2333


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHH
Q 040367          183 YTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLD  239 (400)
Q Consensus       183 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  239 (400)
                      ...+.......|+++.|...+.+.-+         +...+..|.+.+++++|..+-+
T Consensus       726 ~~~~~~~a~~~~~~~~A~~~~~~~g~---------~~~a~~~~~~~~~~~~A~~lA~  773 (814)
T 3mkq_A          726 LVTLAKDAETTGKFNLAFNAYWIAGD---------IQGAKDLLIKSQRFSEAAFLGS  773 (814)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCchHHHHHHHHHcCC---------HHHHHHHHHHcCChHHHHHHHH
Confidence            44444455555555555544433211         2334444555555555544433

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.11  E-value=0.071  Score=42.48  Aligned_cols=90  Identities=11%  Similarity=-0.044  Sum_probs=66.2

Q ss_pred             HHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhh-CcH
Q 040367          266 VNRAKELFVSMESMGCTHT---VFSYSILINGYCKN-----KEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEI-HQV  336 (400)
Q Consensus       266 ~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~  336 (400)
                      ...|...+++..+.+  |+   ...|..+...|.+.     |+.++|.+.|++.++.+..-+..++......++.. |+.
T Consensus       179 l~~A~a~lerAleLD--P~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDLW--PSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHHC--TTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHhC--CCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            567777778877764  44   55788888888884     88899999999888865432466667777777774 888


Q ss_pred             HHHHHHHHHHHHcCCC--CCHHH
Q 040367          337 ERAFKLFDEMQRDGVA--ADTWT  357 (400)
Q Consensus       337 ~~a~~~~~~~~~~~~~--~~~~~  357 (400)
                      +++.+.+++.+.....  |+...
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~l  279 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKL  279 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhH
Confidence            8999999888887555  55443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.08  E-value=0.017  Score=54.77  Aligned_cols=45  Identities=11%  Similarity=0.184  Sum_probs=23.5

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 040367          261 CLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEM  311 (400)
Q Consensus       261 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  311 (400)
                      ...|+++.|.++.+.+      .+...|..+...+.+.++++.|.+.|.++
T Consensus       663 l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          663 LKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            3455555555553322      23445555555555555555555555544

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.07  E-value=0.016  Score=37.55  Aligned_cols=68  Identities=10%  Similarity=0.007  Sum_probs=44.3

Q ss_pred             CCCHHHHHHHHHHHHhcCC---hhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 040367           49 FPDLYTYNILINCFCKMGR---VSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFG  117 (400)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  117 (400)
                      +++...+..+..++...++   .++|..++++.++.+ +.+......+...+.+.|++++|+..|+++.+..
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            4456666666666654443   567777777777664 3356666666677777777777777777777653

>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=97.06  E-value=0.079  Score=42.24  Aligned_cols=94  Identities=18%  Similarity=0.166  Sum_probs=74.5

Q ss_pred             HHHHHHHHHHHHhCCCCCc---hhhHHHHHHHHHhh-----CcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc-CcH
Q 040367          301 IEGALSLYGEMLSKGIKPD---VVIYNTLFVVLFEI-----HQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKN-SYI  371 (400)
Q Consensus       301 ~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~  371 (400)
                      ...|...+++.++.  .|+   ...|..+...|...     |+.++|.+.|++.++.+..-+..++..+...++.. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            56788888888876  344   56888899889884     99999999999999964322478888888888884 999


Q ss_pred             HHHHHHHHHHHHhccc--chhHHHHHH
Q 040367          372 VEAVELFRTLRILKCE--LDIRAYNCL  396 (400)
Q Consensus       372 ~~a~~~~~~~~~~~~~--p~~~~~~~l  396 (400)
                      +++.+.+++.+.....  |+....+.+
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~lan~~  283 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKLLVIL  283 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhHHHHH
Confidence            9999999999987666  666655543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.95  E-value=0.015  Score=38.71  Aligned_cols=63  Identities=8%  Similarity=0.034  Sum_probs=27.3

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 040367           18 CSFNILFGCLAKNKHYDTVLSLFKRLNSTG------LFPDLYTYNILINCFCKMGRVSHGFVVLGRILR   80 (400)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   80 (400)
                      ..+..+...+.+.|++..|...|+.+.+..      -.+....+..+..++.+.|+++.|...++++.+
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            344444555555555555555555443320      011233344444444444444444444444443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.93  E-value=0.015  Score=41.36  Aligned_cols=82  Identities=15%  Similarity=0.067  Sum_probs=47.7

Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---ChhhHHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCCHHHHH
Q 040367           33 YDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMG---RVSHGFVVLGRILRSCFTP--NAVTFTSLIKGLCAESRIMEAA  107 (400)
Q Consensus        33 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~  107 (400)
                      ...+.+-|++....| +++..+...+..++++.+   +.++++.+++.+.+.+ .|  +...+-.+.-++.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            344455555555544 356666666666666666   4456666666666653 12  2344444555566666666666


Q ss_pred             HHHHHHHHc
Q 040367          108 ALFTKLRVF  116 (400)
Q Consensus       108 ~~~~~~~~~  116 (400)
                      +.++.+.+.
T Consensus        92 ~y~~~lL~i  100 (152)
T 1pc2_A           92 KYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            666666665

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.91  E-value=0.01  Score=40.58  Aligned_cols=88  Identities=11%  Similarity=-0.000  Sum_probs=44.1

Q ss_pred             CHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHH---HHHHHHHHHHcCCC-CCHHHHHHHHHHHHhcCcHHHHH
Q 040367          300 EIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVER---AFKLFDEMQRDGVA-ADTWTYRTFIDGLCKNSYIVEAV  375 (400)
Q Consensus       300 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~  375 (400)
                      ....+.+-|.+....|. ++..+--.+.+++.+..+...   ++.+++...+.+.+ -.....-.|.-++.+.|++++|.
T Consensus        16 ~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~   94 (126)
T 1nzn_A           16 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            33444444444443332 344444455555555554443   55666655554211 12334445555666666666666


Q ss_pred             HHHHHHHHhcccchh
Q 040367          376 ELFRTLRILKCELDI  390 (400)
Q Consensus       376 ~~~~~~~~~~~~p~~  390 (400)
                      +.++.+++  ++|+.
T Consensus        95 ~~~~~lL~--~eP~n  107 (126)
T 1nzn_A           95 KYVRGLLQ--TEPQN  107 (126)
T ss_dssp             HHHHHHHH--HCTTC
T ss_pred             HHHHHHHH--hCCCC
Confidence            66666665  34543

>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=96.82  E-value=0.029  Score=39.41  Aligned_cols=102  Identities=9%  Similarity=-0.034  Sum_probs=56.8

Q ss_pred             CHHhHHHHHHHHHhcCCH------HHHHHHHHHHHhcCCCCCh-hhHHHHHHH------HHhcCCHHHHHHHHHHHHhCC
Q 040367          249 NAFVYNTLMDGFCLTGRV------NRAKELFVSMESMGCTHTV-FSYSILING------YCKNKEIEGALSLYGEMLSKG  315 (400)
Q Consensus       249 ~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~-~~~~~l~~~------~~~~~~~~~a~~~~~~~~~~~  315 (400)
                      |..++-..+....+.|++      ++.+++|++....- +|+. ..|...+..      +...+++++|.++|+.+++.+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~~-Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEAL-PPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHHS-CGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHcC-CccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            556666666666666776      66667777666543 3332 222222221      123456666666666665542


Q ss_pred             CCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCC
Q 040367          316 IKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVA  352 (400)
Q Consensus       316 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  352 (400)
                      -.. ...|....+.-.+.|+.+.|.+++.+.+..+..
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            222 455555555556667777777777666665443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.81  E-value=0.085  Score=38.56  Aligned_cols=130  Identities=12%  Similarity=0.143  Sum_probs=95.5

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH
Q 040367          222 MDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEI  301 (400)
Q Consensus       222 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  301 (400)
                      .......|+++.|.++.+.+      .+...|..|.......|+++-|++.|.+...         +..+.-.|...|+.
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            34567789999999998765      3788999999999999999999999998763         45666667778998


Q ss_pred             HHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 040367          302 EGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTL  381 (400)
Q Consensus       302 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  381 (400)
                      ++-.++-+.....|      -++.....+...|+++++.++|.+.-   ..|....      .....|-.+.|.++.+++
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------DFGSMLLNTFYNNSTKERSSIFAEGG---SLPLAYA------VAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTT---CHHHHHH------HHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCC---ChHHHHH------HHHHcCcHHHHHHHHHHh
Confidence            88877777666554      24555666778999999999986543   2222111      122357778888887766

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.78  E-value=0.0014  Score=55.84  Aligned_cols=210  Identities=10%  Similarity=0.073  Sum_probs=131.6

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHH
Q 040367           15 PPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLI   94 (400)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (400)
                      .|+..|..++.+..+.|.+++-+..+...++..-  ++..=+.|+-+|++.++..+..+++    .   .||..-...+.
T Consensus        81 ~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ayAk~~rL~elEefl----~---~~N~A~iq~VG  151 (624)
T 3lvg_A           81 DDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVG  151 (624)
T ss_dssp             SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHHHTSCSSSTTTSTT----S---CCSSSCTHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHHHhhCcHHHHHHHH----c---CCCcccHHHHH
Confidence            4566777777777778888777777766555422  3333456777777777766543322    1   24444455566


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcC--------------------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCC--
Q 040367           95 KGLCAESRIMEAAALFTKLRVFG--------------------CEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGN--  152 (400)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~~--------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--  152 (400)
                      +-|...|.++.|.-+|..+....                    -.-++.||-.+-.+|...+++.-|...--.+.-..  
T Consensus       152 Drcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvhade  231 (624)
T 3lvg_A          152 DRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADE  231 (624)
T ss_dssp             HHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCCSSC
T ss_pred             HHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhcccHHH
Confidence            66666666666655554432210                    13467889999999999999888777655555443  


Q ss_pred             -----CCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCC------CHHHHHH
Q 040367          153 -----GEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ-GVQP------NVVTFNV  220 (400)
Q Consensus       153 -----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~------~~~~~~~  220 (400)
                           ..|...|.+++.+.+++...... ......|+-|.-.|++- ++++..+.++....+ +++-      ....|.-
T Consensus       232 L~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~E  309 (624)
T 3lvg_A          232 LEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAE  309 (624)
T ss_dssp             CSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHH
Confidence                 23555888999999998877532 45667777777666654 566666655543322 2211      2345666


Q ss_pred             HHHHHHhCCChHHHH
Q 040367          221 IMDELCKNGKMDEAS  235 (400)
Q Consensus       221 l~~~~~~~~~~~~a~  235 (400)
                      ++-.|.+-.+++.|.
T Consensus       310 lvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          310 LVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HHHHHHHHTCHHHHH
T ss_pred             HHHHHhcchhHHHHH
Confidence            777777777776654

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.76  E-value=0.032  Score=39.21  Aligned_cols=113  Identities=11%  Similarity=0.074  Sum_probs=77.0

Q ss_pred             CCCHHHHHHHHHHHHhCCCh------HHHHHHHHHHHHcCCCCCH-HhHHHHHHH------HHhcCCHHHHHHHHHHHHh
Q 040367          212 QPNVVTFNVIMDELCKNGKM------DEASRLLDLMIQIGVRPNA-FVYNTLMDG------FCLTGRVNRAKELFVSMES  278 (400)
Q Consensus       212 ~~~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~-~~~~~l~~~------~~~~~~~~~a~~~~~~~~~  278 (400)
                      +-|..+|-..+....+.|+.      ++..++|+++... ++|+. ..+...+..      +...+|.++|.++|+.+.+
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~   88 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARA   88 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            45777888888888877888      8888888888775 45542 122222222      2344788888999988876


Q ss_pred             cCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHH
Q 040367          279 MGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLF  327 (400)
Q Consensus       279 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  327 (400)
                      .. +.-...|-...+.-.+.|+...|.+++...+..+.+|. ..+...+
T Consensus        89 ~h-KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~-~~le~a~  135 (161)
T 4h7y_A           89 NC-KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPL-EMLEIAL  135 (161)
T ss_dssp             HC-TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCH-HHHHHHH
T ss_pred             Hh-HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcH-HHHHHHH
Confidence            53 33366777777777788999999999998888776643 3334333

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.76  E-value=0.094  Score=38.32  Aligned_cols=130  Identities=13%  Similarity=0.125  Sum_probs=94.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCH
Q 040367          187 IRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRV  266 (400)
Q Consensus       187 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  266 (400)
                      .......|+++.|.++.+.+      .+...|..+.......|+++-|.+.|.+...         +..+.-.|...|+.
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            34556899999999998765      4788999999999999999999999987642         45666677888998


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHH
Q 040367          267 NRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEM  346 (400)
Q Consensus       267 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  346 (400)
                      +....+-+.....| .     ++.....+...|+++++.+++.+.-+   -|..      .......|-.+.|.++.+++
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-D-----FGSMLLNTFYNNSTKERSSIFAEGGS---LPLA------YAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHHTT-C-----HHHHHHHHHHHTCHHHHHHHHHHTTC---HHHH------HHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCc-c-----HHHHHHHHHHcCCHHHHHHHHHHCCC---hHHH------HHHHHHcCcHHHHHHHHHHh
Confidence            88777666665544 2     56666677789999999999865432   1111      11122367778888887765

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.57  E-value=0.096  Score=36.02  Aligned_cols=139  Identities=12%  Similarity=0.016  Sum_probs=66.3

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHH
Q 040367          191 CYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAK  270 (400)
Q Consensus       191 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  270 (400)
                      .-.|..++..++..+.....   +..-+|.++--....-+-+-..++++.+-+.   .|.          ..+|+.....
T Consensus        18 ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrVi   81 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVV   81 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHH
T ss_pred             HHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHHH
Confidence            34566666666666665532   3444444444333333444444444443221   111          1233444433


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcC
Q 040367          271 ELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDG  350 (400)
Q Consensus       271 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  350 (400)
                      ..+-.+-     .+.......+......|+-++-.+++..+.. +.+|++...-.+..+|.+.|+..+|.+++.++-+.|
T Consensus        82 ~C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG  155 (172)
T 1wy6_A           82 ECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKG  155 (172)
T ss_dssp             HHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhh
Confidence            3333221     2333344455555555555555555555433 234455555555556666666666666666555555


Q ss_pred             C
Q 040367          351 V  351 (400)
Q Consensus       351 ~  351 (400)
                      +
T Consensus       156 ~  156 (172)
T 1wy6_A          156 E  156 (172)
T ss_dssp             C
T ss_pred             h
Confidence            4

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.18  E-value=1.3e-05  Score=67.73  Aligned_cols=262  Identities=13%  Similarity=0.120  Sum_probs=181.7

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      .+..|..|..+..+.+...+|++-|-+.      .|+..|..++.+..+.|.+++-...+....+..  .++.+=+.|+-
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~  124 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIF  124 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHH
Confidence            5668999999999999999998876322      255678999999999999999999998877663  34445568999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCC---CCCCcccchHHHHHHHHHHH
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGN---GEFGVEGFVDKAKELFLQMK  172 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~~a~~~~~~~~  172 (400)
                      +|++.++..+-.+.+.       .|+..-...+..-|...|.++.|.-+|..+..-.   ......|.++.|.+.-+   
T Consensus       125 ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaAr---  194 (624)
T 3lvg_A          125 ALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGAR---  194 (624)
T ss_dssp             HHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTT---
T ss_pred             HHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHH---
Confidence            9999999777655442       5777778889999999999988887777664322   22223555555544321   


Q ss_pred             hCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHh
Q 040367          173 DENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFV  252 (400)
Q Consensus       173 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  252 (400)
                      +   ..++.||..+-.+|...+++.-|.-.--.++-.   +|  ....++..|-..|.+++.+.+++..... -......
T Consensus       195 K---Ans~ktWKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGm  265 (624)
T 3lvg_A          195 K---ANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGL-ERAHMGM  265 (624)
T ss_dssp             T---CCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHH
T ss_pred             h---cCChhHHHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHH
Confidence            2   236779999999999999988776655444422   11  1234566788889999999988887753 2456778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh-cCCCC------ChhhHHHHHHHHHhcCCHHHHH
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMES-MGCTH------TVFSYSILINGYCKNKEIEGAL  305 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~------~~~~~~~l~~~~~~~~~~~~a~  305 (400)
                      |+-|.-.|++- ++++..+.++..-. .+++.      ....|..++-.|.+-.+++.|.
T Consensus       266 FTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          266 FTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            88888777764 55555554443321 22221      3445777777777777777654

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.05  E-value=0.049  Score=37.21  Aligned_cols=85  Identities=14%  Similarity=0.041  Sum_probs=46.6

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhh---HHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCCHH
Q 040367           30 NKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSH---GFVVLGRILRSCFTP--NAVTFTSLIKGLCAESRIM  104 (400)
Q Consensus        30 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~  104 (400)
                      ......+.+-|......| .++..+-..+..++++..+...   ++.+++.+.+.+ .|  .....-.|.-++.+.|+++
T Consensus        14 ~~~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~   91 (126)
T 1nzn_A           14 VEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYE   91 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHH
Confidence            334444555555554444 2566665666666666655444   666666666543 12  2333344445566666666


Q ss_pred             HHHHHHHHHHHc
Q 040367          105 EAAALFTKLRVF  116 (400)
Q Consensus       105 ~a~~~~~~~~~~  116 (400)
                      +|.+.++.+.+.
T Consensus        92 ~A~~~~~~lL~~  103 (126)
T 1nzn_A           92 KALKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            666666666655

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.92  E-value=0.24  Score=34.15  Aligned_cols=137  Identities=12%  Similarity=0.076  Sum_probs=69.7

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCC
Q 040367          100 ESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPD  179 (400)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~  179 (400)
                      .|..++..++..+....   .+..-+|-+|--....-+-+...++++.+-+ ..+.+..|....+...+-.+-     .+
T Consensus        20 dG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGk-iFDis~C~NlKrVi~C~~~~n-----~~   90 (172)
T 1wy6_A           20 DGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGS-YFDLDKCQNLKSVVECGVINN-----TL   90 (172)
T ss_dssp             TTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGG-GSCGGGCSCTHHHHHHHHHTT-----CC
T ss_pred             hhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhh-hcCcHhhhcHHHHHHHHHHhc-----ch
Confidence            45555555555555542   2334444444444444443333333333311 112222233333333332221     13


Q ss_pred             hHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCC
Q 040367          180 VVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV  246 (400)
Q Consensus       180 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  246 (400)
                      .......+......|.-++-.+++..+... .+|++.....+..+|.+.|+..++.+++.++-+.|.
T Consensus        91 se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           91 NEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            445566666666777777776666665432 356666666677777777777777777777766654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.81  E-value=0.1  Score=48.08  Aligned_cols=127  Identities=12%  Similarity=0.072  Sum_probs=75.7

Q ss_pred             HHHHHHHHHhcCC-HHHHHHHHHHHHhcCCCCChhh-H-HHHHHHHHhcC-CHHHHHHHHHHHHhC------CCCC-c--
Q 040367          253 YNTLMDGFCLTGR-VNRAKELFVSMESMGCTHTVFS-Y-SILINGYCKNK-EIEGALSLYGEMLSK------GIKP-D--  319 (400)
Q Consensus       253 ~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~-~-~~l~~~~~~~~-~~~~a~~~~~~~~~~------~~~~-~--  319 (400)
                      ...++..+...++ .+.|..+++++....  |.... + ..++..+...+ +--+|.+++.+.++.      ..++ +  
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~  328 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDAD  328 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccc
Confidence            3445555555555 467888888877763  32222 2 22222222222 222345544444321      1111 1  


Q ss_pred             --------hhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          320 --------VVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       320 --------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                              ......-...|...|+++.|+++-+++... .+.+..+|..|..+|.+.|+++.|+-.++.+.
T Consensus       329 ~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~-aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          329 SARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL-ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             cccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc-CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                    112222345566789999999999988876 34468899999999999999999998888874

>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=95.71  E-value=0.24  Score=34.06  Aligned_cols=71  Identities=11%  Similarity=-0.026  Sum_probs=36.2

Q ss_pred             CchhhHHHHHHHHHhhCc---HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchh
Q 040367          318 PDVVIYNTLFVVLFEIHQ---VERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDI  390 (400)
Q Consensus       318 ~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  390 (400)
                      |+..+--.+.+++.+..+   ..+++.+++++.+.+..-....+-.|.-++.+.|++++|.+..+.+++  ++|+.
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~--~eP~N  111 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  111 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TCTTC
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hCCCC
Confidence            344444444445544433   334556666555543212344455555566666666666666666655  34544

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=95.66  E-value=1.4  Score=43.56  Aligned_cols=211  Identities=12%  Similarity=0.122  Sum_probs=124.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc-ccchHHHHHHHHH
Q 040367           92 SLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV-EGFVDKAKELFLQ  170 (400)
Q Consensus        92 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~a~~~~~~  170 (400)
                      .++..+...+.++-+.++..-.     +.+...-..+..++...|++++|...|++....-..... ......    +..
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~----~~~  887 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLRE----FQE  887 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHH----HHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcc----ccc
Confidence            3445555666666555543221     345555567888999999999999999886433211111 111111    112


Q ss_pred             HHhCC--CCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhCCChHHHHHHHHHHHHc
Q 040367          171 MKDEN--INPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNV----VTFNVIMDELCKNGKMDEASRLLDLMIQI  244 (400)
Q Consensus       171 ~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  244 (400)
                      +....  ...-..-|.-++..+.+.+.++.+.+.-+..++...+.+.    ..|..+.+.+...|++++|...+-.+...
T Consensus       888 ~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~  967 (1139)
T 4fhn_B          888 IAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTT  967 (1139)
T ss_dssp             HHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHS
T ss_pred             ccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCH
Confidence            22211  1122345777888999999999999988887764322222    26788899999999999999999887664


Q ss_pred             CCCCCHHhHHHHHHHHHhcCCH------------HHHHHHHHHHHh-c-CCCCChhhHHHHHHHHHhcCCHHHHHH-HHH
Q 040367          245 GVRPNAFVYNTLMDGFCLTGRV------------NRAKELFVSMES-M-GCTHTVFSYSILINGYCKNKEIEGALS-LYG  309 (400)
Q Consensus       245 ~~~~~~~~~~~l~~~~~~~~~~------------~~a~~~~~~~~~-~-~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~  309 (400)
                      ..  -...+..|+...+..|..            ++..+++..-.+ . .....+.-|..|-..+...|++.+|-. +|+
T Consensus       968 ~~--r~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe 1045 (1139)
T 4fhn_B          968 PL--KKSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYE 1045 (1139)
T ss_dssp             SS--CHHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHH
T ss_pred             HH--HHHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHH
Confidence            33  345666777766666553            444444433221 1 111112235555555666777665544 445


Q ss_pred             HHHh
Q 040367          310 EMLS  313 (400)
Q Consensus       310 ~~~~  313 (400)
                      .+.+
T Consensus      1046 ~~~R 1049 (1139)
T 4fhn_B         1046 KLSR 1049 (1139)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>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=95.41  E-value=0.11  Score=44.26  Aligned_cols=55  Identities=5%  Similarity=0.038  Sum_probs=27.2

Q ss_pred             HHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 040367          326 LFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTL  381 (400)
Q Consensus       326 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  381 (400)
                      ++..+...|++++++..+..+... -+.+...+..++.++.+.|+..+|++.|+++
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            344444455555555555554443 1224445555555555555555555555554

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=95.22  E-value=0.48  Score=33.02  Aligned_cols=71  Identities=11%  Similarity=-0.026  Sum_probs=38.7

Q ss_pred             CchhhHHHHHHHHHhhCc---HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchh
Q 040367          318 PDVVIYNTLFVVLFEIHQ---VERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDI  390 (400)
Q Consensus       318 ~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  390 (400)
                      |+..+--.+.+++.+..+   ..+++.+++.+.+.+..-.....-.|.-++.+.|++++|.+..+.+++  ++|+.
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~--~eP~n  110 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  110 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH--TCCCC
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCCCc
Confidence            444444445555554443   335666666665543222344445555666666666666666666665  45544

>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=95.17  E-value=1.3  Score=37.61  Aligned_cols=71  Identities=7%  Similarity=0.015  Sum_probs=50.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH-----cCCCCCHHhH
Q 040367          182 TYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQ-----IGVRPNAFVY  253 (400)
Q Consensus       182 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  253 (400)
                      +...++..+...|++++++..+..+.... +.+...+..+|.++.+.|+..+|++.|+.+.+     .|+.|+..+-
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            34456667777888888887777777653 55777788888888888888888888777644     3777776543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.12  E-value=1.5  Score=38.03  Aligned_cols=187  Identities=11%  Similarity=0.149  Sum_probs=110.8

Q ss_pred             hHHHHHHHHHHHh-----CCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH----HHHhCCCh
Q 040367          161 VDKAKELFLQMKD-----ENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMD----ELCKNGKM  231 (400)
Q Consensus       161 ~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~----~~~~~~~~  231 (400)
                      ++.|++.+..+.+     .+..........++..|...|+|+...+.+..+.+..-.. ......+++    ........
T Consensus        32 ~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~~~~  110 (445)
T 4b4t_P           32 CNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSSKSL  110 (445)
T ss_dssp             HHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcCCch
Confidence            4455544444332     2334556778889999999999999988887765432121 222223333    22223332


Q ss_pred             HHHH--HHHHHHHHc--C-CCC---CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-----hhhHHHHHHHHHhc
Q 040367          232 DEAS--RLLDLMIQI--G-VRP---NAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHT-----VFSYSILINGYCKN  298 (400)
Q Consensus       232 ~~a~--~~~~~~~~~--~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~  298 (400)
                      +...  .+.+.....  | +..   .......|...+...|++.+|..++..+...-...+     ...+...++.|...
T Consensus       111 d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~  190 (445)
T 4b4t_P          111 DLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILK  190 (445)
T ss_dssp             HHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHC
Confidence            2211  111111000  1 111   123345678889999999999999999864211111     34566778889999


Q ss_pred             CCHHHHHHHHHHHHh----CCCCCc--hhhHHHHHHHHHhhCcHHHHHHHHHHHHH
Q 040367          299 KEIEGALSLYGEMLS----KGIKPD--VVIYNTLFVVLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       299 ~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  348 (400)
                      +++.+|..+++++..    ....|+  ...+...+..+...+++.+|...|.++..
T Consensus       191 ~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          191 GDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            999999998887643    222222  23456667777888999988888877654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.18  E-value=4  Score=38.80  Aligned_cols=171  Identities=11%  Similarity=0.035  Sum_probs=100.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH--HHHhCCChHHHHHHHHHHHHcCCCCCHHh--HHHHHHHHH
Q 040367          186 VIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMD--ELCKNGKMDEASRLLDLMIQIGVRPNAFV--YNTLMDGFC  261 (400)
Q Consensus       186 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~  261 (400)
                      +...+.-.|+.+....++..+.+..   +..+...+..  ++...|+.+.+..+.+.+... ..|....  ..++.-+|+
T Consensus       496 LGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~-~dp~vRygaa~alglAya  571 (963)
T 4ady_A          496 MGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGRQELADDLITKMLAS-DESLLRYGGAFTIALAYA  571 (963)
T ss_dssp             HHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHC-SCHHHHHHHHHHHHHHTT
T ss_pred             HhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhc
Confidence            3445567788888888887776532   3333333333  444778989888888888764 1222221  123455778


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcH-HHHH
Q 040367          262 LTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQV-ERAF  340 (400)
Q Consensus       262 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~  340 (400)
                      ..|+......++..+.... ..+......+.-++...|+.+.+.+++..+.+.+ .|....-..+..+....|.. .+++
T Consensus       572 GTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~ai  649 (963)
T 4ady_A          572 GTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAI  649 (963)
T ss_dssp             TSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHH
T ss_pred             CCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHH
Confidence            8899877777888887642 2334444444445556777777777777666653 34444333333344434443 6788


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHH
Q 040367          341 KLFDEMQRDGVAADTWTYRTFIDGL  365 (400)
Q Consensus       341 ~~~~~~~~~~~~~~~~~~~~l~~~~  365 (400)
                      +.+..+...   ++..+-...+.++
T Consensus       650 d~L~~L~~D---~d~~Vrq~Ai~AL  671 (963)
T 4ady_A          650 DVLDPLTKD---PVDFVRQAAMIAL  671 (963)
T ss_dssp             HHHHHHHTC---SSHHHHHHHHHHH
T ss_pred             HHHHHHccC---CCHHHHHHHHHHH
Confidence            888888753   4555444444333

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=94.17  E-value=2.6  Score=41.60  Aligned_cols=205  Identities=12%  Similarity=0.079  Sum_probs=107.7

Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHh--------------------
Q 040367           21 NILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILR--------------------   80 (400)
Q Consensus        21 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------------------   80 (400)
                      ..++..+.+.+.++.+.++.....     .+....-.+..++...|++++|.+.|++...                    
T Consensus       816 ~~l~~~l~~~~~~~~~~~l~~~~~-----~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~  890 (1139)
T 4fhn_B          816 TELVEKLFLFKQYNACMQLIGWLN-----SDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAE  890 (1139)
T ss_dssp             HHHHHHHHHHSCTTHHHHHHHHSC-----CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcc-----CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccc
Confidence            345666666777766666544332     2333334555667777777777777755310                    


Q ss_pred             cC--CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHcCCCC
Q 040367           81 SC--FTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNV----FTYNTLINGLYRTGHTIVALNLFEEMASGNGE  154 (400)
Q Consensus        81 ~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  154 (400)
                      ..  ...-..-|..++..+-+.+.++.+.+.-....+...+.+.    ..|..+...+...|++++|...+-.+......
T Consensus       891 ~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r  970 (1139)
T 4fhn_B          891 KYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK  970 (1139)
T ss_dssp             TTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC
T ss_pred             cccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH
Confidence            00  1222345667777777777777777776666554312121    25677777888888888887777766543221


Q ss_pred             CCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhCCChH
Q 040367          155 FGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ--GVQPNVVTFNVIMDELCKNGKMD  232 (400)
Q Consensus       155 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~  232 (400)
                            .+-..++...|.+.+      ....|+. +--.|..++..+++..-.+.  .....+.-|..|-.-+...|++.
T Consensus       971 ------~~cLr~LV~~lce~~------~~~~L~~-lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR 1037 (1139)
T 4fhn_B          971 ------KSCLLDFVNQLTKQG------KINQLLN-YSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYR 1037 (1139)
T ss_dssp             ------HHHHHHHHHHHHHHC------CHHHHHH-HTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTS
T ss_pred             ------HHHHHHHHHHHHhCC------ChhhhhC-CCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChH
Confidence                  233334444555443      1222222 22355666666665443221  01111223444444445556655


Q ss_pred             HH-HHHHHHHHH
Q 040367          233 EA-SRLLDLMIQ  243 (400)
Q Consensus       233 ~a-~~~~~~~~~  243 (400)
                      .| .-+|+++.+
T Consensus      1038 ~AA~vmYe~~~R 1049 (1139)
T 4fhn_B         1038 DAAAIIYEKLSR 1049 (1139)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            44 344454443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.01  E-value=2.8  Score=36.34  Aligned_cols=189  Identities=11%  Similarity=0.062  Sum_probs=120.3

Q ss_pred             CCHHHHHHHHHHHHh-----CCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHH----HhcC
Q 040367          194 NDWNEAKCLLIEMMD-----QGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGF----CLTG  264 (400)
Q Consensus       194 ~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~~  264 (400)
                      |+++.|++.+..+.+     .+..........++..|...|+++...+.+..+.+..... ......++..+    ....
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcCC
Confidence            677888887766553     2345567778889999999999999988887766543232 22233344332    2233


Q ss_pred             CHHH--HHHHHHHHHh--cC-CCC---ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCc---hhhHHHHHHHHH
Q 040367          265 RVNR--AKELFVSMES--MG-CTH---TVFSYSILINGYCKNKEIEGALSLYGEMLSK--GIKPD---VVIYNTLFVVLF  331 (400)
Q Consensus       265 ~~~~--a~~~~~~~~~--~~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~  331 (400)
                      ..+.  -..+...+..  .| +..   .......|...+...|++.+|.+++..+...  +....   ...+...++.|.
T Consensus       109 ~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l  188 (445)
T 4b4t_P          109 SLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSI  188 (445)
T ss_dssp             TTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            3222  1122222111  11 111   1233467888999999999999999988753  22212   245666778899


Q ss_pred             hhCcHHHHHHHHHHHHHc----CCCCC--HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          332 EIHQVERAFKLFDEMQRD----GVAAD--TWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       332 ~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      ..+++.+|..+++++...    ...|+  ...+...+..+...+++.+|.+.|.++.+
T Consensus       189 ~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            999999999999987532    12222  23556677777888999999988888863

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.00  E-value=3.8  Score=37.97  Aligned_cols=54  Identities=9%  Similarity=0.002  Sum_probs=47.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 040367          187 IRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLM  241 (400)
Q Consensus       187 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  241 (400)
                      ...|...|+++-|+++-++.... .+.+-.+|..|..+|...|+++.|+-.++.+
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~-aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTEL-ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH-CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHHhccCcHHHHHHHHHHHHhc-CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            34567789999999999999886 3556789999999999999999999998876

>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=93.48  E-value=0.95  Score=29.26  Aligned_cols=63  Identities=8%  Similarity=0.141  Sum_probs=40.7

Q ss_pred             CHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 040367          300 EIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFID  363 (400)
Q Consensus       300 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  363 (400)
                      +.=+..+-++.+....+.|++....+.+++|.+.+++..|+++|+..+.+ ..+...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHH
Confidence            34455666666666677777777777777777777777777777776654 2333445555543

>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=93.05  E-value=1.1  Score=28.91  Aligned_cols=47  Identities=6%  Similarity=0.109  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          232 DEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMES  278 (400)
Q Consensus       232 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  278 (400)
                      -+..+-++.+....+.|++.+..+.+.+|.+.+++.-|.++++.++.
T Consensus        27 ~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           27 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            34444444444445555555555555555555555555555555544

>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=92.26  E-value=1.9  Score=29.60  Aligned_cols=59  Identities=8%  Similarity=0.159  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 040367          303 GALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFI  362 (400)
Q Consensus       303 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  362 (400)
                      +..+-++.+....+.|++......+++|.+.+++..|+++|+-.+.+ ..+...+|..++
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~l  129 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI  129 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHH
Confidence            34444455555556666666666666666666666666666665544 233344454444

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.44  E-value=1.4  Score=31.62  Aligned_cols=63  Identities=10%  Similarity=-0.086  Sum_probs=41.8

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHhCC-CCCC-------HHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 040367           18 CSFNILFGCLAKNKHYDTVLSLFKRLNSTG-LFPD-------LYTYNILINCFCKMGRVSHGFVVLGRILR   80 (400)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   80 (400)
                      .++-.-+..+...|.++.|+-+.+.+.... ..|+       ..++..+.+++...|++..|...|++.++
T Consensus        21 ~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           21 MNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            344455677778888888888777754321 1223       12456667788888888888888888654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.32  E-value=2.1  Score=30.84  Aligned_cols=120  Identities=13%  Similarity=0.078  Sum_probs=64.7

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCC-------HHHHHHHHHHHHhCCChHHHHHHHHHHHHcC--CCCCH
Q 040367          181 VTYTSVIRGFCYANDWNEAKCLLIEMMDQG-VQPN-------VVTFNVIMDELCKNGKMDEASRLLDLMIQIG--VRPNA  250 (400)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~  250 (400)
                      .++..-+..+...|.++.|+-+.+.+.... ..|+       ..++..+.+++...|++..|...|++.++..  +.-+.
T Consensus        21 ~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~  100 (167)
T 3ffl_A           21 MNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTS  100 (167)
T ss_dssp             CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC----
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCC
Confidence            345555677788888888888887765321 1222       1355667778888899999999988875531  11111


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          251 FVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       251 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  313 (400)
                      .....+.    .......         ......+...--.+..+|.+.+++++|+.+++.+..
T Consensus       101 s~~~~~~----~~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~  150 (167)
T 3ffl_A          101 KVRPSTG----NSASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPS  150 (167)
T ss_dssp             -----------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCG
T ss_pred             Ccccccc----ccCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCc
Confidence            1111110    0000000         001122333444567777778888888877766543

>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=91.32  E-value=2.5  Score=29.04  Aligned_cols=62  Identities=8%  Similarity=0.097  Sum_probs=38.9

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367          231 MDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILIN  293 (400)
Q Consensus       231 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  293 (400)
                      .-+..+-++.+....+.|++.+..+.+.+|.+.+|+.-|.++|+-++.+- .+...+|..+++
T Consensus        69 ~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~lq  130 (152)
T 2y69_E           69 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHHH
Confidence            34455556666666667777777777777777777777777777766543 333445555543

>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=90.68  E-value=7  Score=33.05  Aligned_cols=56  Identities=11%  Similarity=0.052  Sum_probs=24.6

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHc--CCCCC---HHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 040367          221 IMDELCKNGKMDEASRLLDLMIQI--GVRPN---AFVYNTLMDGFCLTGRVNRAKELFVSM  276 (400)
Q Consensus       221 l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~  276 (400)
                      ++..|...|++.+|.+++.++.+.  .....   ..++..-+..|...+++.++...+...
T Consensus       105 L~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a  165 (394)
T 3txn_A          105 LIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSA  165 (394)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            444455555555555555544442  11100   122333344444555555555555444

>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=90.20  E-value=3.3  Score=28.50  Aligned_cols=48  Identities=13%  Similarity=0.081  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCC
Q 040367          105 EAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGN  152 (400)
Q Consensus       105 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  152 (400)
                      +++.+++.+.+.+.......+..|.-++.+.|++++|.++.+.+.+..
T Consensus        61 ~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~e  108 (134)
T 3o48_A           61 LGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  108 (134)
T ss_dssp             HHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhC
Confidence            455555555544311123444445555555555555555555554443

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.12  E-value=3.7  Score=35.34  Aligned_cols=61  Identities=8%  Similarity=-0.183  Sum_probs=32.1

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 040367           19 SFNILFGCLAKNKHYDTVLSLFKRLNST--GLFPDLYTYNILINCFCKMGRVSHGFVVLGRIL   79 (400)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   79 (400)
                      ++..+...+.+.|+++.|.+.|.++...  +...-...+-.+++.+...+++..+...++++.
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~  195 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVN  195 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3445555555666666666666555432  112223445555555555566665555555543

>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=90.09  E-value=11  Score=34.26  Aligned_cols=163  Identities=10%  Similarity=0.006  Sum_probs=85.9

Q ss_pred             HhccCChhHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHH
Q 040367           27 LAKNKHYDTVLSLFKRLNSTGLFPDL-YTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIME  105 (400)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  105 (400)
                      ..+.|++..+..+...+...  +... ..|..+...+ ......+...++++-..  .+.....-+..+..+.+.+++..
T Consensus        16 a~~~~~~~~~~~l~~~l~~~--pL~~yl~y~~l~~~l-~~~~~~ev~~Fl~~~~~--~p~~~~Lr~~~l~~l~~~~~w~~   90 (618)
T 1qsa_A           16 AWDNRQMDVVEQMMPGLKDY--PLYPYLEYRQITDDL-MNQPAVTVTNFVRANPT--LPPARTLQSRFVNELARREDWRG   90 (618)
T ss_dssp             HHHTTCHHHHHHHSGGGTTS--TTHHHHHHHHHHHTG-GGCCHHHHHHHHHHCTT--CHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHCCCHHHHHHHHHhhcCC--CcHHHHHHHHHHhCc-ccCCHHHHHHHHHHCCC--ChhHHHHHHHHHHHHHhCCCHHH
Confidence            34568887777776655332  2211 1222222111 11234444444333221  12222333445566667777777


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHH
Q 040367          106 AAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTS  185 (400)
Q Consensus       106 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  185 (400)
                      ....+..     .+.+...-.....+....|+..+|....+.+-..+...     .+..-.+|....+.|.-.+..++.-
T Consensus        91 ~l~~~~~-----~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~~~-----p~~c~~l~~~~~~~g~lt~~~~~~R  160 (618)
T 1qsa_A           91 LLAFSPE-----KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQ-----PNACDKLFSVWRASGKQDPLAYLER  160 (618)
T ss_dssp             HHHHCCS-----CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCC-----CTHHHHHHHHHHHTTCSCHHHHHHH
T ss_pred             HHHhccC-----CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCCCC-----cHHHHHHHHHHHHCCCCCHHHHHHH
Confidence            7765543     14466666677788888898888887777776554332     3455666776666553333334433


Q ss_pred             HHHHHHhcCCHHHHHHHHHH
Q 040367          186 VIRGFCYANDWNEAKCLLIE  205 (400)
Q Consensus       186 l~~~~~~~~~~~~a~~~~~~  205 (400)
                      + ......|+...|..+...
T Consensus       161 ~-~~al~~~~~~~a~~l~~~  179 (618)
T 1qsa_A          161 I-RLAMKAGNTGLVTVLAGQ  179 (618)
T ss_dssp             H-HHHHHTTCHHHHHHHHHT
T ss_pred             H-HHHHHCCCHHHHHHHHHh
Confidence            3 455566666666555443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=89.60  E-value=15  Score=35.13  Aligned_cols=179  Identities=13%  Similarity=0.067  Sum_probs=98.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH--HHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhc
Q 040367          186 VIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFN--VIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLT  263 (400)
Q Consensus       186 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  263 (400)
                      +.-++...|+.+.+..+++.+.... .|....-.  .+.-+|+..|+.....+++..+.... ..+..-...+.-++...
T Consensus       530 lgLGll~~g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~  607 (963)
T 4ady_A          530 VGLALINYGRQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLL  607 (963)
T ss_dssp             HHHHHHTTTCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTS
T ss_pred             HHHHhhhCCChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhcc
Confidence            3334557889999998988887642 22222222  23335677889888888998888642 22333333333344456


Q ss_pred             CCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH-HHHHHHHHHHHhCCCCCchhhHHHHHHHHHh--hC------
Q 040367          264 GRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEI-EGALSLYGEMLSKGIKPDVVIYNTLFVVLFE--IH------  334 (400)
Q Consensus       264 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~------  334 (400)
                      |+.+.+.+++..+.+.+ .|....-..+..+....|+. .++...+..+...   ++..+-...+.++..  .|      
T Consensus       608 g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D---~d~~Vrq~Ai~ALG~Ig~gtnna~~  683 (963)
T 4ady_A          608 RDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKD---PVDFVRQAAMIALSMILIQQTEKLN  683 (963)
T ss_dssp             SSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTC---SSHHHHHHHHHHHHHHSTTCCTTTC
T ss_pred             CCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccC---CCHHHHHHHHHHHHHHhcCCccccc
Confidence            77777778877776654 45555444555555555554 5788888888753   344443333333332  22      


Q ss_pred             -cHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCc
Q 040367          335 -QVERAFKLFDEMQRD-GVAADTWTYRTFIDGLCKNSY  370 (400)
Q Consensus       335 -~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~  370 (400)
                       +....++.+...... .-.++...-..+..+....|.
T Consensus       684 ~rva~~l~~L~~~~~dk~~d~~~~fga~iAqGll~aG~  721 (963)
T 4ady_A          684 PQVADINKNFLSVITNKHQEGLAKFGACVAQGIMNAGG  721 (963)
T ss_dssp             TTHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHTTGG
T ss_pred             hHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhcCC
Confidence             233334433333332 122334444555556655553

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=88.91  E-value=2.5  Score=33.27  Aligned_cols=55  Identities=16%  Similarity=0.116  Sum_probs=39.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          294 GYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       294 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      ...+.|+++++++....-++..+ -|...-..+++.++-.|++++|.+-++...+.
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~P-~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKASP-KDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            45567778888877777777643 36666677777778888888888877777664

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.07  E-value=9.1  Score=32.93  Aligned_cols=61  Identities=13%  Similarity=0.036  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHc--CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040367          217 TFNVIMDELCKNGKMDEASRLLDLMIQI--GVRPNAFVYNTLMDGFCLTGRVNRAKELFVSME  277 (400)
Q Consensus       217 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  277 (400)
                      +...+...|.+.|+++.|.+.+.++...  +...-...+-..+..+...+++..+...+.++.
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~  195 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVN  195 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3445556666666666666666666553  122223445555556666666666666666554

>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=88.06  E-value=6.7  Score=29.28  Aligned_cols=56  Identities=14%  Similarity=0.162  Sum_probs=35.7

Q ss_pred             cCCHHHHHHHHHHHHhCCCCC-chhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCC
Q 040367          298 NKEIEGALSLYGEMLSKGIKP-DVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAA  353 (400)
Q Consensus       298 ~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  353 (400)
                      .++...+.++|..|..+|+-- -...|......+-..|++.+|.++|+..++.+-.|
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            334667777777777665432 23445566666667777777777777777766666

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=86.77  E-value=5.7  Score=31.29  Aligned_cols=57  Identities=12%  Similarity=0.098  Sum_probs=45.6

Q ss_pred             HHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 040367           24 FGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRS   81 (400)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (400)
                      +..+.+.|++++|++....-.+.. |.|...-..+++.+|-.|++++|..-++...+.
T Consensus         4 ~~~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            4 WKNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HHHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            345677888888888888877775 557788888888888889999888888887776

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=84.35  E-value=16  Score=30.01  Aligned_cols=195  Identities=12%  Similarity=0.117  Sum_probs=104.0

Q ss_pred             hhHHHHHHHHHHhCCCC----CCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 040367           33 YDTVLSLFKRLNSTGLF----PDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAA  108 (400)
Q Consensus        33 ~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  108 (400)
                      +++.+.-++.-.+.|--    --..+|.++..-|.+.+++++|++++..-..               .+.+.|+...+.+
T Consensus        12 ~~~~i~rl~~~I~~G~y~~~YEAHQ~~RTi~~Ry~~~k~y~eAidLL~~GA~---------------~ll~~~Q~~sg~D   76 (336)
T 3lpz_A           12 IERIIARLQRRIAEGQPEEQYEAAQETRLVAARYSKQGNWAAAVDILASVSQ---------------TLLRSGQGGSGGD   76 (336)
T ss_dssp             HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---------------HHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCccccHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHH---------------HHHHCCCcchHHH
Confidence            44444555555544410    0123556666677788888888887654322               2334455444333


Q ss_pred             ----HHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHH
Q 040367          109 ----LFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYT  184 (400)
Q Consensus       109 ----~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  184 (400)
                          +++.+.+.++++|......++..+......+-...               ..+.+|++.=.+.. ....-|+....
T Consensus        77 L~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~---------------~fi~~ai~WS~~~g-~~~~Gdp~LH~  140 (336)
T 3lpz_A           77 LAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRK---------------RFVKEMIDWSKKFG-DYPAGDPELHH  140 (336)
T ss_dssp             HHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHH---------------HHHHHHHHHHHHHS-SCTTCCHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHH---------------HHHHHHHHHHhhcC-CCCCCCHHHHH
Confidence                34555666777887777777777665543211111               01233333322211 11234666777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcC
Q 040367          185 SVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTG  264 (400)
Q Consensus       185 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  264 (400)
                      .+...|.+.+++.+|...|-  .  |..+++..+..++.-+...+...+              ++...-..++ -|...+
T Consensus       141 ~ig~~~~~e~~~~~Ae~H~i--l--g~~~s~~~~a~mL~ew~~~~~~~e--------------~dlfiaRaVL-~yL~l~  201 (336)
T 3lpz_A          141 VVGTLYVEEGEFEAAEKHLV--L--GTKESPEVLARMEYEWYKQDESHT--------------APLYCARAVL-PYLLVA  201 (336)
T ss_dssp             HHHHHHHHTTCHHHHHHHHT--T--SCTTHHHHHHHHHHHHHHTSCGGG--------------HHHHHHHHHH-HHHHTT
T ss_pred             HHHHHHHccCCHHHHHHHHH--h--cCCchHHHHHHHHHHHHHhcCCcc--------------HHHHHHHHHH-HHHHhC
Confidence            88889999999999888772  2  333344566555544444332111              1222222233 355677


Q ss_pred             CHHHHHHHHHHHH
Q 040367          265 RVNRAKELFVSME  277 (400)
Q Consensus       265 ~~~~a~~~~~~~~  277 (400)
                      +...|..++....
T Consensus       202 n~~~A~~~~~~f~  214 (336)
T 3lpz_A          202 NVRAANTAYRIFT  214 (336)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            8888877666554

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=84.23  E-value=6.4  Score=25.37  Aligned_cols=86  Identities=13%  Similarity=0.108  Sum_probs=57.4

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHHHHHHH--HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHH
Q 040367           30 NKHYDTVLSLFKRLNSTGLFPDLYTYNIL--INCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAA  107 (400)
Q Consensus        30 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  107 (400)
                      ....++|..+-+.+...+   +. -...+  +..+...|++++|..+.+...    .||...|.+|-.  .+.|-.+++.
T Consensus        19 ~H~HqEA~tIAdwL~~~~---~~-E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le   88 (115)
T 2uwj_G           19 QHCHEEALCIAEWLERLG---QD-EAARLIRISSLANQGRYQEALAFAHGNP----WPALEPWFALCE--WHLGLGAALD   88 (115)
T ss_dssp             TTCHHHHHHHHHHHHHTT---CH-HHHHHHHHHHHHHTTCHHHHHGGGTTCC----CGGGHHHHHHHH--HHTTCHHHHH
T ss_pred             chHHHHHHHHHHHHHhCC---cH-HHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHH
Confidence            446788888888887764   32 22333  355678888888887765543    678777776654  3778888888


Q ss_pred             HHHHHHHHcCCCCCHHHHH
Q 040367          108 ALFTKLRVFGCEPNVFTYN  126 (400)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~  126 (400)
                      ..+.++-..| .|....|.
T Consensus        89 ~rL~~la~sg-~p~~q~Fa  106 (115)
T 2uwj_G           89 RRLAGLGGSS-DPALADFA  106 (115)
T ss_dssp             HHHHHHHTCS-SHHHHHHH
T ss_pred             HHHHHHHhCC-CHHHHHHH
Confidence            8887777666 55544443

>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=83.63  E-value=6.9  Score=25.27  Aligned_cols=86  Identities=12%  Similarity=0.137  Sum_probs=57.4

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHHHHHHH--HHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHH
Q 040367           30 NKHYDTVLSLFKRLNSTGLFPDLYTYNIL--INCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAA  107 (400)
Q Consensus        30 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  107 (400)
                      ....++|..+-+.+...+   +. -...+  +..+...|++++|..+.+...    .||...|.+|-.  .+.|-.+++.
T Consensus        20 ~H~HqEA~tIAdwL~~~~---~~-E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le   89 (116)
T 2p58_C           20 NHYHEEANCIAEWLHLKG---EE-EAVQLIRLSSLMNRGDYASALQQGNKLA----YPDLEPWLALCE--YRLGLGSALE   89 (116)
T ss_dssp             TTCHHHHHHHHHHHHHTT---CH-HHHHHHHHHHHHHTTCHHHHHHHHTTSC----CGGGHHHHHHHH--HHHTCHHHHH
T ss_pred             chHHHHHHHHHHHHHhCC---cH-HHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHH
Confidence            446788888888887764   32 22333  355678889998887776544    678877776654  3677778888


Q ss_pred             HHHHHHHHcCCCCCHHHHH
Q 040367          108 ALFTKLRVFGCEPNVFTYN  126 (400)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~  126 (400)
                      ..+.++-..| .|....|.
T Consensus        90 ~rL~~la~sg-~p~~q~Fa  107 (116)
T 2p58_C           90 SRLNRLARSQ-DPRIQTFV  107 (116)
T ss_dssp             HHHHHHTTCC-CHHHHHHH
T ss_pred             HHHHHHHhCC-CHHHHHHH
Confidence            7777777666 45444443

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=83.11  E-value=9.7  Score=26.60  Aligned_cols=68  Identities=13%  Similarity=-0.001  Sum_probs=31.1

Q ss_pred             CCCHHHHHHHHHHHHhcCCh---hhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 040367           49 FPDLYTYNILINCFCKMGRV---SHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      .|+..+-..+..++++..+.   .+++.+++.+.+.+........-.|.-++.+.|++++|.+..+.+.+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            34444444444444444432   234555555554432222333333444455555555555555555544

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=82.89  E-value=7.4  Score=25.09  Aligned_cols=77  Identities=12%  Similarity=0.027  Sum_probs=34.4

Q ss_pred             CHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHH
Q 040367          265 RVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFD  344 (400)
Q Consensus       265 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  344 (400)
                      ..++|..+-+.+...+.  ...+--+-+..+.+.|+|++|..+.+..    .-||...|..+..  .+.|-.+++...+.
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALce--~rlGl~s~le~rL~   92 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGN----PWPALEPWFALCE--WHLGLGAALDRRLA   92 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTC----CCGGGHHHHHHHH--HHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHHH--HhcccHHHHHHHHH
Confidence            45555555555554431  1111112223345556666555543322    2345444433322  34555555555554


Q ss_pred             HHHHc
Q 040367          345 EMQRD  349 (400)
Q Consensus       345 ~~~~~  349 (400)
                      ++-..
T Consensus        93 ~la~s   97 (115)
T 2uwj_G           93 GLGGS   97 (115)
T ss_dssp             HHHTC
T ss_pred             HHHhC
Confidence            44444

>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=82.42  E-value=7.8  Score=25.03  Aligned_cols=77  Identities=12%  Similarity=0.072  Sum_probs=34.8

Q ss_pred             CHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHH
Q 040367          265 RVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFD  344 (400)
Q Consensus       265 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  344 (400)
                      ..++|..+-+.+...+.  ...+--+-+..+.+.|+|++|..+.+...    -||...|..+..  .+.|-.+++...+.
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~   93 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLA----YPDLEPWLALCE--YRLGLGSALESRLN   93 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSC----CGGGHHHHHHHH--HHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHH
Confidence            45555555555554431  11111122233455566666655543322    345554443322  34555555555554


Q ss_pred             HHHHc
Q 040367          345 EMQRD  349 (400)
Q Consensus       345 ~~~~~  349 (400)
                      ++-..
T Consensus        94 ~la~s   98 (116)
T 2p58_C           94 RLARS   98 (116)
T ss_dssp             HHTTC
T ss_pred             HHHhC
Confidence            44443

>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=81.23  E-value=15  Score=27.47  Aligned_cols=73  Identities=19%  Similarity=0.176  Sum_probs=46.3

Q ss_pred             CCChHhHHHHHHHHHh--cCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC
Q 040367          177 NPDVVTYTSVIRGFCY--ANDWNEAKCLLIEMMDQGVQP-NVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPN  249 (400)
Q Consensus       177 ~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  249 (400)
                      .-|..-....+..--.  .+...++.++|..|...|+-. -+..|......+...|++.+|.++|+.-++.+..|-
T Consensus        74 kND~RYLklWl~Ya~~~~~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~  149 (202)
T 3esl_A           74 RNDPRFLKIWIWYINLFLSNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPY  149 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSH
T ss_pred             cCCHHHHHHHHHHHHhhcccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccH
Confidence            4455554444443222  444667778888877665433 344566667777777888888888888777766664

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=80.70  E-value=21  Score=28.95  Aligned_cols=113  Identities=10%  Similarity=0.079  Sum_probs=61.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHH----HHHHHHHcCCCCCHHhHHHHH
Q 040367          182 TYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASR----LLDLMIQIGVRPNAFVYNTLM  257 (400)
Q Consensus       182 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~----~~~~~~~~~~~~~~~~~~~l~  257 (400)
                      .|.++..-|.+.+++++|++++..-..               .+.+.|+...|-+    +++-..+.+.+++......++
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            445555666777777777777654321               2333444443333    233344446666666666666


Q ss_pred             HHHHhcCCHH-HHHHHHHHHH----hcC--CCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 040367          258 DGFCLTGRVN-RAKELFVSME----SMG--CTHTVFSYSILINGYCKNKEIEGALSLYG  309 (400)
Q Consensus       258 ~~~~~~~~~~-~a~~~~~~~~----~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  309 (400)
                      ..+......+ .=.++.+.+.    +.+  ..-++.....+...|.+.|++.+|...|-
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            6654432111 1122233332    221  12366777788888888888888777653

---

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	400
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.96
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.95
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.76
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.75
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.54
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.47
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.46
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.44
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.42
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.42
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.4
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.38
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.35
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.32
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.04
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.0
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.94
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.92
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.92
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.88
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.88
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.85
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.81
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.79
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.76
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.75
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.73
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.67
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.66
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.62
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.49
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.49
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.46
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.45
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.42
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.35
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.32
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.3
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.29
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.26
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.26
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.26
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.23
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.22
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.2
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.19
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.16
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.07
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.06
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.0
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.75
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.75
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.46
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.45
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.44
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.2
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.67
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.5
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.26
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.6
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	94.14
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.55
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.01
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	92.59
d1bpoa1	157	Clathrin heavy-chain linker domain {Rat (Rattus no	80.07

>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=99.96  E-value=2.9e-24  Score=183.56  Aligned_cols=363  Identities=13%  Similarity=0.064  Sum_probs=295.3

Q ss_pred             HHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 040367           23 LFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESR  102 (400)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  102 (400)
                      +...+.+.|++++|++.|+++.+.. |.+..++..+..++...|++++|...++++++.. +.+..++..+..++.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            4566788999999999999998774 4468889999999999999999999999999875 3467889999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCc-----------ccchHHHHHHHHHH
Q 040367          103 IMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGV-----------EGFVDKAKELFLQM  171 (400)
Q Consensus       103 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~~a~~~~~~~  171 (400)
                      +++|...+....... +.+..............+....+................           .+....+...+...
T Consensus        83 ~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          83 LQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             ccccccccccccccc-cccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHh
Confidence            999999999998875 445556666666666666666665555554433322211           34455566666665


Q ss_pred             HhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHH
Q 040367          172 KDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAF  251 (400)
Q Consensus       172 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  251 (400)
                      .... +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..... +.+..
T Consensus       162 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  238 (388)
T d1w3ba_         162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAV  238 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHH
T ss_pred             hccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHH
Confidence            5543 4466788888899999999999999999998764 4567788999999999999999999999998874 34677


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHH
Q 040367          252 VYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLF  331 (400)
Q Consensus       252 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  331 (400)
                      .+..+..++.+.|++++|...|+++.+.. +.+...+..+...+...|++++|.+.++...... +.+...+..+...+.
T Consensus       239 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  316 (388)
T d1w3ba_         239 VHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKR  316 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHH
Confidence            78889999999999999999999998876 5578889999999999999999999999988864 457788889999999


Q ss_pred             hhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchh-HHHHHH
Q 040367          332 EIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDI-RAYNCL  396 (400)
Q Consensus       332 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l  396 (400)
                      ..|++++|++.++++++.. +.+..++..+..+|.+.|++++|.+.|++.++  +.|+. ..|..|
T Consensus       317 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~l  379 (388)
T d1w3ba_         317 EQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNM  379 (388)
T ss_dssp             TTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            9999999999999998752 33678899999999999999999999999987  46654 455544

>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=99.95  E-value=2.1e-23  Score=178.09  Aligned_cols=358  Identities=15%  Similarity=0.065  Sum_probs=280.8

Q ss_pred             chhHHHHhcCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 040367            2 CIFDYMLNMRPSPPPVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRS   81 (400)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (400)
                      ++|+.+++..|.  ++.++..+...+.+.|++++|+..|+++.+.. |.+..++..+..++...|++++|+..+....+.
T Consensus        20 ~~~~~~l~~~p~--~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~   96 (388)
T d1w3ba_          20 RHCMQLWRQEPD--NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRL   96 (388)
T ss_dssp             HHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcccccccccccccccc
Confidence            467888888876  88899999999999999999999999998875 457889999999999999999999999999887


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCC-----
Q 040367           82 CFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFG-----  156 (400)
Q Consensus        82 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----  156 (400)
                      . +.+..............+....+........... .................+....+...+.......+...     
T Consensus        97 ~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  174 (388)
T d1w3ba_          97 K-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSN  174 (388)
T ss_dssp             C-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             c-cccccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHhhccCcchhHHHHh
Confidence            5 3344444444444555555555554444444333 33344444445555555555555555555544433221     


Q ss_pred             ------cccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC
Q 040367          157 ------VEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGK  230 (400)
Q Consensus       157 ------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  230 (400)
                            ..+..++|...+++..... |.+...+..+...+...|++++|+..+++....+ +.+...+..+...+.+.|+
T Consensus       175 l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~  252 (388)
T d1w3ba_         175 LGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGL  252 (388)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCC
Confidence                  1555677777777766653 4467788999999999999999999999998864 4577788889999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 040367          231 MDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGE  310 (400)
Q Consensus       231 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  310 (400)
                      +++|...++++.+.. +.+..++..+..++...|++++|...++...... +.+...+..+...+...|++++|++.+++
T Consensus       253 ~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  330 (388)
T d1w3ba_         253 IDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRK  330 (388)
T ss_dssp             HHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHH
Confidence            999999999999864 3367788899999999999999999999998876 67788899999999999999999999999


Q ss_pred             HHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCc
Q 040367          311 MLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSY  370 (400)
Q Consensus       311 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  370 (400)
                      .++..+ .+..++..+..++...|++++|...|+++++.. +-+...|..+..+|.+.||
T Consensus       331 al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         331 ALEVFP-EFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HTTSCT-TCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTCC
T ss_pred             HHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            988643 357788899999999999999999999999852 3358889999999988875

>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=99.76  E-value=2.2e-15  Score=124.67  Aligned_cols=250  Identities=12%  Similarity=0.020  Sum_probs=147.1

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      +....-.....+.+.|++++|+..|+++.+.. |.+..+|..+..++...|++++|...++++.+.. +-+...+..+..
T Consensus        18 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~   95 (323)
T d1fcha_          18 DHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAV   95 (323)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccc
Confidence            33334456777889999999999999999875 4468899999999999999999999999998875 336778888889


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCC
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDEN  175 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  175 (400)
                      ++...|++++|.+.+++.....  |+...........................       ...+...++.+.+.+.....
T Consensus        96 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~a~~~~~~al~~~  166 (323)
T d1fcha_          96 SFTNESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSL-------LSDSLFLEVKELFLAAVRLD  166 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHH-------HHHHHHHHHHHHHHHHHHHS
T ss_pred             cccccccccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHH-------HHhhHHHHHHHHHHHHHHHh
Confidence            9999999999999999988653  32211100000000000000000000000       00112344444444443321


Q ss_pred             -CCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHH
Q 040367          176 -INPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYN  254 (400)
Q Consensus       176 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  254 (400)
                       -..+...+..+...+...|++++|+..+++..... +.+...|..+..++...|++++|.+.++++++.. +-+..++.
T Consensus       167 p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~  244 (323)
T d1fcha_         167 PTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRY  244 (323)
T ss_dssp             TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             hcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHH
Confidence             12234455555555666666666666666655442 2345555555556666666666666666655542 12344555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          255 TLMDGFCLTGRVNRAKELFVSMES  278 (400)
Q Consensus       255 ~l~~~~~~~~~~~~a~~~~~~~~~  278 (400)
                      .+..+|.+.|++++|+..|++..+
T Consensus       245 ~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         245 NLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            555666666666666666655544

>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=99.75  E-value=1.4e-15  Score=125.87  Aligned_cols=244  Identities=8%  Similarity=-0.015  Sum_probs=167.1

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 040367           57 ILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTG  136 (400)
Q Consensus        57 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  136 (400)
                      .....+.+.|++++|+..|+++++.. +.+..+|..+..++...|++++|...|++..+.. +-+...+..++..+...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            45677889999999999999999875 3468899999999999999999999999998875 557889999999999999


Q ss_pred             ChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCH
Q 040367          137 HTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQG-VQPNV  215 (400)
Q Consensus       137 ~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~  215 (400)
                      ++++|.+.+++.....+..........-      ..   ...+.......+..+...+.+.+|...+.+..+.. ...+.
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~------~~---~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~  172 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYAHLVTPAEE------GA---GGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDP  172 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGCC------------------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCH
T ss_pred             cccccccchhhHHHhccchHHHHHhhhh------hh---hhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhccccc
Confidence            9999999888877654432211000000      00   00011111112223344455667777777665532 12345


Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 040367          216 VTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGY  295 (400)
Q Consensus       216 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  295 (400)
                      .++..+...+...|++++|...+++..... +.+..++..+..++...|++++|...|+++.+.. +.+...|..++.+|
T Consensus       173 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~  250 (323)
T d1fcha_         173 DVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISC  250 (323)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             ccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHH
Confidence            666666777777777777777777776653 2245666677777777777777777777776654 44566677777777


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 040367          296 CKNKEIEGALSLYGEMLS  313 (400)
Q Consensus       296 ~~~~~~~~a~~~~~~~~~  313 (400)
                      .+.|++++|++.|++.++
T Consensus       251 ~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         251 INLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            777777777777777665

>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=99.54  E-value=2.1e-11  Score=101.69  Aligned_cols=306  Identities=11%  Similarity=0.015  Sum_probs=202.2

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CC----CHHHH
Q 040367           55 YNILINCFCKMGRVSHGFVVLGRILRSCFTPN----AVTFTSLIKGLCAESRIMEAAALFTKLRVFGC-EP----NVFTY  125 (400)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~  125 (400)
                      .......+...|++++|++++++.++.....+    ...+..+..++...|++++|...+++..+... .+    ....+
T Consensus        15 ~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   94 (366)
T d1hz4a_          15 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   94 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            33445566777888888888887776532211    23456667778888888888888887765310 11    23445


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHH
Q 040367          126 NTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIE  205 (400)
Q Consensus       126 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  205 (400)
                      ..+...+...|++..+...+...                ..+...............+..+...+...|+++.+...+..
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~a----------------l~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~  158 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKA----------------FQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARS  158 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHH----------------HHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH----------------HHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHH
Confidence            66677788888888777775443                33333222221122234566677888999999999999998


Q ss_pred             HHhCC----CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcC--CCC----CHHhHHHHHHHHHhcCCHHHHHHHHHH
Q 040367          206 MMDQG----VQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIG--VRP----NAFVYNTLMDGFCLTGRVNRAKELFVS  275 (400)
Q Consensus       206 ~~~~~----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~  275 (400)
                      .....    .......+......+...++...+...+.+.....  ...    ....+..+...+...|++++|...+..
T Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  238 (366)
T d1hz4a_         159 GIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRH  238 (366)
T ss_dssp             HHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            87542    22234456666777888899999998887776531  111    123455667778899999999999998


Q ss_pred             HHhcCCCCC---hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCc-hhhHHHHHHHHHhhCcHHHHHHHHHHHH
Q 040367          276 MESMGCTHT---VFSYSILINGYCKNKEIEGALSLYGEMLSK----GIKPD-VVIYNTLFVVLFEIHQVERAFKLFDEMQ  347 (400)
Q Consensus       276 ~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  347 (400)
                      ........+   ...+..+..++...|++++|...++++...    +..|+ ...+..+..++...|++++|.+.+++..
T Consensus       239 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al  318 (366)
T d1hz4a_         239 TAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDAL  318 (366)
T ss_dssp             SCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            876542222   334566788999999999999999987642    33333 4567778899999999999999999876


Q ss_pred             Hc----CCC----CCHHHHHHHHHHHHhcCcHHHHHH
Q 040367          348 RD----GVA----ADTWTYRTFIDGLCKNSYIVEAVE  376 (400)
Q Consensus       348 ~~----~~~----~~~~~~~~l~~~~~~~g~~~~a~~  376 (400)
                      +.    |..    .....+..++..+...++.+++.+
T Consensus       319 ~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         319 KLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHH
Confidence            53    221    122334455556666666665544

>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=99.47  E-value=6.4e-11  Score=96.46  Aligned_cols=199  Identities=9%  Similarity=0.039  Sum_probs=121.7

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 040367           52 LYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAES-RIMEAAALFTKLRVFGCEPNVFTYNTLIN  130 (400)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (400)
                      ..+++.+...+.+.+.+++|++.++++++.+ +-+...|+....++...| ++++|+..+++..+.. +-+..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhH
Confidence            3456666666777777777777777777764 335666777777766655 4777777777777664 446777777777


Q ss_pred             HHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040367          131 GLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQG  210 (400)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  210 (400)
                      .+.+.|++++|+..++++..                       .. +.+...|..+..++...|++++|+..++++++.+
T Consensus       121 ~~~~l~~~~eAl~~~~kal~-----------------------~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~  176 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILN-----------------------QD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED  176 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHH-----------------------HC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC
T ss_pred             HHHhhccHHHHHHHHhhhhh-----------------------hh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC
Confidence            77777775555555444433                       21 3356677777777777777777777777777654


Q ss_pred             CCCCHHHHHHHHHHHHhCCC------hHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 040367          211 VQPNVVTFNVIMDELCKNGK------MDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESM  279 (400)
Q Consensus       211 ~~~~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  279 (400)
                       +.+...|+.+..++.+.+.      +++|...+.++++.. +.+...+..+...+.. ...+++...+....+.
T Consensus       177 -p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l  248 (315)
T d2h6fa1         177 -VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDL  248 (315)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHH
T ss_pred             -CccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHh
Confidence             3455566665555554443      355666666665543 2244555545444433 2345555555555443

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=6.1e-11  Score=96.58  Aligned_cols=216  Identities=7%  Similarity=0.043  Sum_probs=168.1

Q ss_pred             hhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-ChhhHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367           17 VCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMG-RVSHGFVVLGRILRSCFTPNAVTFTSLIK   95 (400)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (400)
                      ..+|+.+...+.+.+.+++|+.+++++.+.+ |-+..+|+....++...| ++++|+..++.+++.. +-+..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhH
Confidence            4567788888999999999999999999985 457788999999988876 5899999999999886 447889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCC
Q 040367           96 GLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDEN  175 (400)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  175 (400)
                      .+.+.|++++|++.++++.+.. +.+..+|..+...+.+.|++++|+..++++.+                       .+
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~-----------------------~~  176 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLK-----------------------ED  176 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHH-----------------------HC
T ss_pred             HHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHH-----------------------HC
Confidence            9999999999999999999885 56899999999999999997776666666544                       32


Q ss_pred             CCCChHhHHHHHHHHHhcCC------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCC-
Q 040367          176 INPDVVTYTSVIRGFCYAND------WNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRP-  248 (400)
Q Consensus       176 ~~~~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-  248 (400)
                       +.+...|+.+..++.+.+.      +++|++.+.++++.. +.+...|..+...+.. ...+++.+.++...+....+ 
T Consensus       177 -p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~  253 (315)
T d2h6fa1         177 -VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHS  253 (315)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCC
T ss_pred             -CccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcC
Confidence             4467778777766665554      678999999988864 4577777777665544 44677888888877653332 


Q ss_pred             CHHhHHHHHHHHH
Q 040367          249 NAFVYNTLMDGFC  261 (400)
Q Consensus       249 ~~~~~~~l~~~~~  261 (400)
                      +...+..++..|.
T Consensus       254 ~~~~~~~l~~~y~  266 (315)
T d2h6fa1         254 SPYLIAFLVDIYE  266 (315)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            3445555555553

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.44  E-value=2.1e-10  Score=95.49  Aligned_cols=276  Identities=9%  Similarity=-0.009  Sum_probs=196.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHH
Q 040367           89 TFTSLIKGLCAESRIMEAAALFTKLRVFGCEPN-----VFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDK  163 (400)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  163 (400)
                      ........+...|++++|++++++..+.. +.+     ..++..+...+...|++++|+..+++...             
T Consensus        14 ~~~lrA~~~~~~g~~~~A~~~~~~aL~~~-~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~-------------   79 (366)
T d1hz4a_          14 FNALRAQVAINDGNPDEAERLAKLALEEL-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQ-------------   79 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTC-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH-------------
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhC-cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-------------
Confidence            33445567889999999999999988763 222     34677788899999998888888766532             


Q ss_pred             HHHHHHHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC---CHHHHHHHHHHHHhCCChHHHHH
Q 040367          164 AKELFLQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQ----GVQP---NVVTFNVIMDELCKNGKMDEASR  236 (400)
Q Consensus       164 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~---~~~~~~~l~~~~~~~~~~~~a~~  236 (400)
                         +.....  ..+.....+..+...+...|++..+...+......    +...   ....+..+...+...|+++.+..
T Consensus        80 ---~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~  154 (366)
T d1hz4a_          80 ---MARQHD--VWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEA  154 (366)
T ss_dssp             ---HHHHTT--CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ---HHHhhc--chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHH
Confidence               111110  00112345666777888999999999999887642    1111   12355667778899999999999


Q ss_pred             HHHHHHHcCC----CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC--CC----ChhhHHHHHHHHHhcCCHHHHHH
Q 040367          237 LLDLMIQIGV----RPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGC--TH----TVFSYSILINGYCKNKEIEGALS  306 (400)
Q Consensus       237 ~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~----~~~~~~~l~~~~~~~~~~~~a~~  306 (400)
                      .+........    ......+......+...++...+...+........  ..    ....+..+...+...|++++|..
T Consensus       155 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  234 (366)
T d1hz4a_         155 SARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAAN  234 (366)
T ss_dssp             HHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHH
Confidence            9998877522    22344555667778888999999988877654211  11    12345666778889999999999


Q ss_pred             HHHHHHhCCCCCc---hhhHHHHHHHHHhhCcHHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHhcCcHHHHHHHH
Q 040367          307 LYGEMLSKGIKPD---VVIYNTLFVVLFEIHQVERAFKLFDEMQRD----GVAAD-TWTYRTFIDGLCKNSYIVEAVELF  378 (400)
Q Consensus       307 ~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~  378 (400)
                      .+++..+.....+   ...+..+..++...|++++|...++++...    +..|+ ...+..+...|.+.|++++|.+.+
T Consensus       235 ~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l  314 (366)
T d1hz4a_         235 WLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVL  314 (366)
T ss_dssp             HHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9998876533222   334566788899999999999999987642    33333 456788889999999999999999


Q ss_pred             HHHHH
Q 040367          379 RTLRI  383 (400)
Q Consensus       379 ~~~~~  383 (400)
                      ++.++
T Consensus       315 ~~Al~  319 (366)
T d1hz4a_         315 LDALK  319 (366)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98865

>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=99.42  E-value=1.1e-10  Score=94.92  Aligned_cols=219  Identities=10%  Similarity=0.021  Sum_probs=166.0

Q ss_pred             HHHHHHHHHHHhCCCCCChHhHHHHHHHHHh--------------cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 040367          162 DKAKELFLQMKDENINPDVVTYTSVIRGFCY--------------ANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCK  227 (400)
Q Consensus       162 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  227 (400)
                      .++..+|+++.... +.+...|...+..+..              .+..++|..+|++..+...+.+...|...+....+
T Consensus        33 ~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~  111 (308)
T d2onda1          33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            34445555554431 3455566555554322              23457889999998876556667788888888999


Q ss_pred             CCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHH-HHhcCCHHHHHH
Q 040367          228 NGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILING-YCKNKEIEGALS  306 (400)
Q Consensus       228 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~  306 (400)
                      .|+.+.|..+++++++........++...+..+.+.|+.+.|..+|+.+.+.. +.+...|...+.. +...|+.+.|..
T Consensus       112 ~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~  190 (308)
T d2onda1         112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHH
Confidence            99999999999999886444345578889999999999999999999998875 4455555544443 334689999999


Q ss_pred             HHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcC-CCC--CHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          307 LYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDG-VAA--DTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      +|+.+.+.. +.+...|...+..+...|+++.|+.+|++.++.. ..|  ....|...+..-...|+.+.+.++++++.+
T Consensus       191 i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         191 IFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999863 4467889999999999999999999999998863 233  256788888887888999999999999875

>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=99.42  E-value=2.3e-10  Score=93.06  Aligned_cols=234  Identities=9%  Similarity=0.036  Sum_probs=170.5

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhH
Q 040367          104 MEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTY  183 (400)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  183 (400)
                      +.+..+|+++...- +.++..|...+..+...+...         ...+......+..+++..+|++..+...+.+...|
T Consensus        33 ~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~---------~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~  102 (308)
T d2onda1          33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLL---------AEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLY  102 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHH---------HHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHH
T ss_pred             HHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchH---------HHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHH
Confidence            44555666666542 445666665555443322210         00111111123367788888888876555667788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHH-HHh
Q 040367          184 TSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDG-FCL  262 (400)
Q Consensus       184 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~  262 (400)
                      ...+......|+++.|..+|+++++........+|...+..+.+.|+.+.|.++|+++.+.+.. +...+...... +..
T Consensus       103 ~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~  181 (308)
T d2onda1         103 FAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYC  181 (308)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHh
Confidence            8888999999999999999999998643334557889999999999999999999999887433 44445444433 345


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCc--hhhHHHHHHHHHhhCcHHHH
Q 040367          263 TGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKG-IKPD--VVIYNTLFVVLFEIHQVERA  339 (400)
Q Consensus       263 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a  339 (400)
                      .|+.+.|..+|+.+.... +.+...|...+....+.|+.+.|..+|++.++.. ..|+  ...|...+..-...|+.+.+
T Consensus       182 ~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~  260 (308)
T d2onda1         182 SKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASI  260 (308)
T ss_dssp             SCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHH
T ss_pred             ccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHH
Confidence            689999999999999874 5678889999999999999999999999998864 2332  34788888887889999999


Q ss_pred             HHHHHHHHHc
Q 040367          340 FKLFDEMQRD  349 (400)
Q Consensus       340 ~~~~~~~~~~  349 (400)
                      .++.+++.+.
T Consensus       261 ~~~~~r~~~~  270 (308)
T d2onda1         261 LKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998764

>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=99.40  E-value=8.4e-12  Score=103.14  Aligned_cols=268  Identities=7%  Similarity=-0.047  Sum_probs=170.8

Q ss_pred             cCChhhHHHHHHHHHhcCCCCChhhHHHHHHH----------HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 040367           65 MGRVSHGFVVLGRILRSCFTPNAVTFTSLIKG----------LCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYR  134 (400)
Q Consensus        65 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~----------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  134 (400)
                      .+..++|+++++.+++.+ +-+...|+..-..          +...|++++|+.+++...+.. +.+...|..+..++..
T Consensus        42 ~~~~~~al~~~~~~l~~~-P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~  119 (334)
T d1dcea1          42 GELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSR  119 (334)
T ss_dssp             TCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             ccccHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHH
Confidence            334467777777777653 2233444433222          223445778888888887764 5567777777777766


Q ss_pred             cCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHH-HHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 040367          135 TGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYT-SVIRGFCYANDWNEAKCLLIEMMDQGVQP  213 (400)
Q Consensus       135 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  213 (400)
                      .++.                     +.++++..+....... +++...+. .....+...+.+++|+..++.+.+.+ +-
T Consensus       120 ~~~~---------------------~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~  176 (334)
T d1dcea1         120 LPEP---------------------NWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FS  176 (334)
T ss_dssp             CSSC---------------------CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CC
T ss_pred             hccc---------------------cHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CC
Confidence            6541                     1344444444444432 33444443 34456667788888888888888764 45


Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 040367          214 NVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILIN  293 (400)
Q Consensus       214 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  293 (400)
                      +...|..+..++.+.|++++|...+....+.  .|.   .......+...+..+++...+....... +++...+..++.
T Consensus       177 ~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~  250 (334)
T d1dcea1         177 NYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVE  250 (334)
T ss_dssp             CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHH
T ss_pred             CHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHH
Confidence            6778888888888888887776655544432  111   1123334455667777777777776665 455666667777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHH
Q 040367          294 GYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAA-DTWTYRTFIDGLC  366 (400)
Q Consensus       294 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~  366 (400)
                      .+...+++++|...+.+....++ .+..++..++.++...|++++|.+.++++++.  .| +...|..|...+.
T Consensus       251 ~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L~~~~~  321 (334)
T d1dcea1         251 KSTVLQSELESCKELQELEPENK-WCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCH-HHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHhhCc-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHHHHHHh
Confidence            77778888888888888776542 25566777788888888888888888888875  34 3455565655554

>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=99.38  E-value=7.4e-11  Score=93.56  Aligned_cols=223  Identities=11%  Similarity=-0.049  Sum_probs=154.5

Q ss_pred             ccchHHHHHHHHHHHhCCC-CC--ChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHH
Q 040367          158 EGFVDKAKELFLQMKDENI-NP--DVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEA  234 (400)
Q Consensus       158 ~~~~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  234 (400)
                      ....+.++..+.+...... .+  ...++..+..+|.+.|++++|+..|++.++.. +.++.+|..+..++.+.|++++|
T Consensus        12 ~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A   90 (259)
T d1xnfa_          12 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAA   90 (259)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHh
Confidence            3345666666666665421 11  23467778889999999999999999999874 56788999999999999999999


Q ss_pred             HHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          235 SRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      ...|+++.+... .+..++..+..++...|++++|...|+...+.. +.+......+...+.+.+..+.+..+.......
T Consensus        91 ~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (259)
T d1xnfa_          91 YEAFDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  168 (259)
T ss_dssp             HHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             hhhhhHHHHHHh-hhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc
Confidence            999999999743 356778889999999999999999999998875 445555555555556666666665555555553


Q ss_pred             CCCCchhhHHHHHHHHHh----hCcHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccch
Q 040367          315 GIKPDVVIYNTLFVVLFE----IHQVERAFKLFDEMQRDGVAA-DTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELD  389 (400)
Q Consensus       315 ~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  389 (400)
                      ..  +...+. ++..+..    .+..+.+...+......  .| ...+|..+...+...|++++|.+.|++.+..  .|+
T Consensus       169 ~~--~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~  241 (259)
T d1xnfa_         169 DK--EQWGWN-IVEFYLGNISEQTLMERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVH  241 (259)
T ss_dssp             CC--CSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCT
T ss_pred             ch--hhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCC
Confidence            22  222222 2222222    22233333333222221  12 2456777899999999999999999999874  454


Q ss_pred             h
Q 040367          390 I  390 (400)
Q Consensus       390 ~  390 (400)
                      .
T Consensus       242 ~  242 (259)
T d1xnfa_         242 N  242 (259)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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=99.35  E-value=2.3e-11  Score=100.42  Aligned_cols=274  Identities=10%  Similarity=-0.036  Sum_probs=191.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHH
Q 040367           92 SLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQM  171 (400)
Q Consensus        92 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  171 (400)
                      .++......+..++|+++++++.+.. |-+...|+..-..+...+.......             ..+.+++|+..++..
T Consensus        34 ~~~~~~~~~~~~~~al~~~~~~l~~~-P~~~~a~~~r~~~l~~l~~~~~~~~-------------~~~~~~~al~~~~~~   99 (334)
T d1dcea1          34 AVFQKRQAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEE-------------SAALVKAELGFLESC   99 (334)
T ss_dssp             HHHHHHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHH-------------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcccccHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhhhcchHH-------------HHHHHHHHHHHHHHH
Confidence            33333334444589999999999874 3355566554444333222111111             123366777778877


Q ss_pred             HhCCCCCChHhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHhCCChHHHHHHHHHHHHcCCCC
Q 040367          172 KDENINPDVVTYTSVIRGFCYAN--DWNEAKCLLIEMMDQGVQPNVVTFN-VIMDELCKNGKMDEASRLLDLMIQIGVRP  248 (400)
Q Consensus       172 ~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  248 (400)
                      .... |.+...|..+..++...+  ++++|+..++++.+.. +++...+. .....+...+.+++|+..++.+++.+. -
T Consensus       100 l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p-~  176 (334)
T d1dcea1         100 LRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-S  176 (334)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-C
T ss_pred             HHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC-C
Confidence            7654 446677777776666655  5899999999998864 44555554 445677778999999999999988753 4


Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHH
Q 040367          249 NAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFV  328 (400)
Q Consensus       249 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  328 (400)
                      +...+..+..++...|++++|...+....+..  |+   .......+...+..+++...+....... +++...+..++.
T Consensus       177 ~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~  250 (334)
T d1dcea1         177 NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVL--LK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVE  250 (334)
T ss_dssp             CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHH--HH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHH
T ss_pred             CHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhH--HH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHH
Confidence            78889999999999999988877666555431  11   1223334556677778888888887764 345666677788


Q ss_pred             HHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhH
Q 040367          329 VLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIR  391 (400)
Q Consensus       329 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  391 (400)
                      .+...|++++|...+.+..+.. +.+...+..+..++...|++++|++.++++.+  +.|+..
T Consensus       251 ~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~~  310 (334)
T d1dcea1         251 KSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRA  310 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGGH
T ss_pred             HHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcccH
Confidence            8888999999999999887652 22567788899999999999999999999998  567644

>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=99.32  E-value=1.7e-10  Score=91.48  Aligned_cols=128  Identities=10%  Similarity=-0.102  Sum_probs=64.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHH
Q 040367           89 TFTSLIKGLCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELF  168 (400)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~  168 (400)
                      ++..+..+|.+.|++++|.+.|++..+.. +-++.+|..+..++.+.|++++|+..|+++...                 
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~-----------------  100 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL-----------------  100 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------------
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHH-----------------
Confidence            44445555666666666666666665543 335555666666666666644444444433221                 


Q ss_pred             HHHHhCCCCCChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHH
Q 040367          169 LQMKDENINPDVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMI  242 (400)
Q Consensus       169 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  242 (400)
                            . |.+..++..+..++...|++++|+..++...+.. +.+......+..++.+.+..+....+.....
T Consensus       101 ------~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (259)
T d1xnfa_         101 ------D-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  166 (259)
T ss_dssp             ------C-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             ------H-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhh
Confidence                  1 2234455556666666666666666666666543 2233333333333334444333333333333

>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=99.04  E-value=1.4e-08  Score=81.42  Aligned_cols=134  Identities=12%  Similarity=-0.019  Sum_probs=71.4

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHh-CCChHHHHHHHHHHHHc----CCCC-C
Q 040367          181 VTYTSVIRGFCYANDWNEAKCLLIEMMDQ----GV-QPNVVTFNVIMDELCK-NGKMDEASRLLDLMIQI----GVRP-N  249 (400)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~----~~~~-~  249 (400)
                      .+|..+..+|.+.|++++|++.+++..+.    +. .....++..+...|.. .|++++|...+++..+.    +.++ .
T Consensus        78 ~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~  157 (290)
T d1qqea_          78 NTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALS  157 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhh
Confidence            45666677777777777777777765432    10 0112334444444533 46777777776665432    1111 1


Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCh------hhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          250 AFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTV------FSYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       250 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      ..++..+...+...|++++|...|+++.........      ..+...+..+...|+++.|...+++..+.
T Consensus       158 ~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~  228 (290)
T d1qqea_         158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             hhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            233555666666667777777766666554211111      11233344455566666666666666554

>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=99.00  E-value=2.1e-08  Score=74.72  Aligned_cols=123  Identities=9%  Similarity=0.008  Sum_probs=84.7

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH
Q 040367          222 MDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEI  301 (400)
Q Consensus       222 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  301 (400)
                      ...+...|+++.|++.|.++    .+|++.++..+..+|...|++++|+..|++..+.+ +.+...|..+..++.+.|++
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            44566777888887777654    24566677777788888888888888888887776 55677777777888888888


Q ss_pred             HHHHHHHHHHHhCCCCCc---------------hhhHHHHHHHHHhhCcHHHHHHHHHHHHHc
Q 040367          302 EGALSLYGEMLSKGIKPD---------------VVIYNTLFVVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       302 ~~a~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      ++|.+.|++.+.......               ..++..+..++...|++++|.+.++.+.+.
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            888888777765421100               123445566667777777777777776664

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.94  E-value=7e-08  Score=77.27  Aligned_cols=204  Identities=9%  Similarity=-0.035  Sum_probs=122.0

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcC----CC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----C-CCCCHHH
Q 040367           55 YNILINCFCKMGRVSHGFVVLGRILRSC----FT-PNAVTFTSLIKGLCAESRIMEAAALFTKLRVF----G-CEPNVFT  124 (400)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~  124 (400)
                      |......|...|++++|.+.|.++....    .+ .-..+|..+..+|.+.|++++|.+.+++..+.    | ......+
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            4445677888899999999998887641    11 12357888888999999999999998876653    1 0112445


Q ss_pred             HHHHHHHHHh-cCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCC-ChHhHHHHHHHHHhcCCHHHHHHH
Q 040367          125 YNTLINGLYR-TGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINP-DVVTYTSVIRGFCYANDWNEAKCL  202 (400)
Q Consensus       125 ~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~  202 (400)
                      +..+...+.. .|++++|+..+++.                .+++...   +.++ -..++..+...+...|++++|+..
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A----------------~~l~~~~---~~~~~~~~~~~~la~~~~~~g~y~~A~~~  180 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELA----------------GEWYAQD---QSVALSNKCFIKCADLKALDGQYIEASDI  180 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHH----------------HHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHH----------------HHHHHhc---CchhhhhhHHHHHHHHHHHcChHHHHHHH
Confidence            5566666644 58877777775543                3332221   1111 234567778888888888888888


Q ss_pred             HHHHHhCCCCCC-----H-HHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC-CC---HHhHHHHHHHHHh--cCCHHHHH
Q 040367          203 LIEMMDQGVQPN-----V-VTFNVIMDELCKNGKMDEASRLLDLMIQIGVR-PN---AFVYNTLMDGFCL--TGRVNRAK  270 (400)
Q Consensus       203 ~~~~~~~~~~~~-----~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~~l~~~~~~--~~~~~~a~  270 (400)
                      |+++........     . ..+...+.++...|+++.|...+++..+.... ++   ......++.++..  .+.+++|.
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai  260 (290)
T d1qqea_         181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHC  260 (290)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHH
T ss_pred             HHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            888776431111     1 12333444566677888888777777654211 11   1233445555443  23355666


Q ss_pred             HHHHHHH
Q 040367          271 ELFVSME  277 (400)
Q Consensus       271 ~~~~~~~  277 (400)
                      ..|+.+.
T Consensus       261 ~~y~~~~  267 (290)
T d1qqea_         261 KEFDNFM  267 (290)
T ss_dssp             HHHTTSS
T ss_pred             HHHHHHh
Confidence            6555444

>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=98.92  E-value=4.1e-06  Score=65.75  Aligned_cols=96  Identities=8%  Similarity=-0.069  Sum_probs=62.9

Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHhcCCCCChhhHH
Q 040367           16 PVCSFNILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCK----MGRVSHGFVVLGRILRSCFTPNAVTFT   91 (400)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   91 (400)
                      |+..+..|...+.+.+++++|++.|++..+.|   +..++..|...|..    ..+...|...++.....+   +.....
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            34566677777778888888888888887765   56666667777665    557777777777776654   333333


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHcC
Q 040367           92 SLIKGLCA----ESRIMEAAALFTKLRVFG  117 (400)
Q Consensus        92 ~l~~~~~~----~~~~~~a~~~~~~~~~~~  117 (400)
                      .+...+..    ..+.+.|...++...+.|
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g  104 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLK  104 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhh
Confidence            44433332    345667777777766654

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.92  E-value=1.1e-07  Score=70.76  Aligned_cols=126  Identities=14%  Similarity=-0.048  Sum_probs=94.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCH
Q 040367          187 IRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRV  266 (400)
Q Consensus       187 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  266 (400)
                      ...+...|+++.|++.|.++    .+|++.+|..+..++...|++++|.+.|++.++.. +.....|..+..++.+.|++
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            55667888888888888754    24677788888888888888888888888888864 33577788888888888888


Q ss_pred             HHHHHHHHHHHhcCCCCC---------------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 040367          267 NRAKELFVSMESMGCTHT---------------VFSYSILINGYCKNKEIEGALSLYGEMLSKGIK  317 (400)
Q Consensus       267 ~~a~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  317 (400)
                      ++|...|++.........               ..++..+..++.+.|++++|.+.+..+.+....
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            888888888775431111               133456677788888888888888888776443

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.88  E-value=7.6e-08  Score=65.09  Aligned_cols=89  Identities=15%  Similarity=0.097  Sum_probs=41.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHH
Q 040367          258 DGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVE  337 (400)
Q Consensus       258 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  337 (400)
                      ..+...|++++|+..|.++.+.. +.+...|..+..++...|++++|+..+.+.++.+. .+...|..+..++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhcc-chhhHHHHHHHHHHHccCHH
Confidence            33444444444444444444443 33444444444444444444444444444444332 23444444444444444444


Q ss_pred             HHHHHHHHHHH
Q 040367          338 RAFKLFDEMQR  348 (400)
Q Consensus       338 ~a~~~~~~~~~  348 (400)
                      +|+..|++.++
T Consensus        89 ~A~~~~~~a~~   99 (117)
T d1elwa_          89 EAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHH
Confidence            44444444444

>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=98.88  E-value=9.6e-08  Score=68.75  Aligned_cols=119  Identities=10%  Similarity=0.084  Sum_probs=80.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhC
Q 040367          255 TLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIH  334 (400)
Q Consensus       255 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  334 (400)
                      .....|.+.|++++|...|.++.+.+ +.+...|..+..+|...|++++|...|+++++.... +...|..++.++...|
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHHcC
Confidence            34556777888888888888887776 556777777888888888888888888888776422 5567777778888888


Q ss_pred             cHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--HHhcCcHHHHHH
Q 040367          335 QVERAFKLFDEMQRDGVAADTWTYRTFIDG--LCKNSYIVEAVE  376 (400)
Q Consensus       335 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~  376 (400)
                      ++++|...++++.+.. +-+...+..+..+  ....+.++++..
T Consensus        93 ~~~eA~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~~~a~~  135 (159)
T d1a17a_          93 KFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIA  135 (159)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            8888888888877753 2234444443333  223344444443

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.85  E-value=8.4e-08  Score=64.88  Aligned_cols=92  Identities=10%  Similarity=-0.020  Sum_probs=63.9

Q ss_pred             HHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 040367           23 LFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESR  102 (400)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  102 (400)
                      -...+.+.|++++|+..|++..+.. +.+...|..+..++...|++++|+..++..++.+ +.+...|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccC
Confidence            4556667777777777777776654 4466667777777777777777777777777664 3466667777777777777


Q ss_pred             HHHHHHHHHHHHHc
Q 040367          103 IMEAAALFTKLRVF  116 (400)
Q Consensus       103 ~~~a~~~~~~~~~~  116 (400)
                      +++|+..|++..+.
T Consensus        87 ~~~A~~~~~~a~~~  100 (117)
T d1elwa_          87 FEEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHh
Confidence            77777777777755

>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=98.81  E-value=1.3e-05  Score=62.78  Aligned_cols=232  Identities=12%  Similarity=0.018  Sum_probs=160.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCCChHhHHHHHHHHHh----cCCH
Q 040367          121 NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINPDVVTYTSVIRGFCY----ANDW  196 (400)
Q Consensus       121 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~  196 (400)
                      |+..+..|...+.+.+++.+|+++|++.                       .+.|   +...+..|...|..    ..+.
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kA-----------------------a~~g---~~~A~~~Lg~~y~~G~~~~~d~   54 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKA-----------------------CDLK---ENSGCFNLGVLYYQGQGVEKNL   54 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHH-----------------------HHTT---CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHH-----------------------HHCC---CHHHHHHHHHHHHcCCCcchhH
Confidence            4566777888888888866666665554                       3333   55566667777765    6688


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHH----hcCCHHH
Q 040367          197 NEAKCLLIEMMDQGVQPNVVTFNVIMDELCK----NGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFC----LTGRVNR  268 (400)
Q Consensus       197 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~  268 (400)
                      ..|...+......+   ++.....+...+..    ..+.+.|...++...+.|..   .....+...+.    .......
T Consensus        55 ~~a~~~~~~a~~~~---~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~  128 (265)
T d1ouva_          55 KKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKK  128 (265)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHH
T ss_pred             HHHHHhhccccccc---ccchhhccccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHH
Confidence            99999999988765   33444444444433    46788899999998886532   23333333333    2345677


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh----hCcHHHHH
Q 040367          269 AKELFVSMESMGCTHTVFSYSILINGYCK----NKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE----IHQVERAF  340 (400)
Q Consensus       269 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  340 (400)
                      +...+......   .+...+..|...+..    ..+...+...++...+.|   +......+...+..    ..++++|.
T Consensus       129 a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~  202 (265)
T d1ouva_         129 AVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEAL  202 (265)
T ss_dssp             HHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHH
T ss_pred             HHHHhhhhhcc---cccchhhhhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhh
Confidence            77777776653   466777788888775    456778888888888865   55556666666654    56899999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHh----cCcHHHHHHHHHHHHHhcccchhHHH
Q 040367          341 KLFDEMQRDGVAADTWTYRTFIDGLCK----NSYIVEAVELFRTLRILKCELDIRAY  393 (400)
Q Consensus       341 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~  393 (400)
                      .+|++..+.|   ++..+..|...|.+    ..+.++|.++|++..+.|..+-...+
T Consensus       203 ~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~~A~~~l  256 (265)
T d1ouva_         203 ARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKGACDIL  256 (265)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHHHHHHH
T ss_pred             hhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCHHHHHHH
Confidence            9999998875   45666777777765    34789999999999998866654443

>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=98.79  E-value=3.4e-07  Score=65.77  Aligned_cols=92  Identities=13%  Similarity=0.095  Sum_probs=61.5

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH
Q 040367          222 MDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEI  301 (400)
Q Consensus       222 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  301 (400)
                      ...|.+.|++++|...|+++++.. +.+...|..+..+|...|++++|...|+.+.+.+ +.+...|..++.++...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            445666777777777777776653 3356666666777777777777777777776665 44556677777777777777


Q ss_pred             HHHHHHHHHHHhCC
Q 040367          302 EGALSLYGEMLSKG  315 (400)
Q Consensus       302 ~~a~~~~~~~~~~~  315 (400)
                      ++|...+++.....
T Consensus        95 ~eA~~~~~~a~~~~  108 (159)
T d1a17a_          95 RAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcC
Confidence            77777777776653

>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=98.76  E-value=1.1e-07  Score=71.61  Aligned_cols=100  Identities=13%  Similarity=0.005  Sum_probs=86.8

Q ss_pred             CCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 040367          213 PNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILI  292 (400)
Q Consensus       213 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  292 (400)
                      |+...+......+.+.|++++|+..|.++++.. +.+...|..+..+|.+.|++++|+..|+.+.+.. +-+...|..+.
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            677777788889999999999999999998874 4478888889999999999999999999998875 45678889999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC
Q 040367          293 NGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       293 ~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      .+|...|++++|+..|+++.+.
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

>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=98.75  E-value=7.2e-08  Score=72.58  Aligned_cols=100  Identities=14%  Similarity=0.027  Sum_probs=89.0

Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHH
Q 040367          248 PNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLF  327 (400)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  327 (400)
                      |+...+...+..+.+.|++++|+..|.++.... |.++..|..+..+|.+.|++++|+..++++++..+. +..+|..++
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            677778888999999999999999999998886 678889999999999999999999999999986432 577889999


Q ss_pred             HHHHhhCcHHHHHHHHHHHHHc
Q 040367          328 VVLFEIHQVERAFKLFDEMQRD  349 (400)
Q Consensus       328 ~~~~~~~~~~~a~~~~~~~~~~  349 (400)
                      .++...|++++|+..|+++.+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999998764

>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=98.73  E-value=3.7e-08  Score=66.91  Aligned_cols=93  Identities=16%  Similarity=0.208  Sum_probs=47.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCCch-hhHHHHHHHH
Q 040367          255 TLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNK---EIEGALSLYGEMLSKGIKPDV-VIYNTLFVVL  330 (400)
Q Consensus       255 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~  330 (400)
                      .+++.+...+++++|++.|+.....+ +.++.++..+..++.+.+   ++++|+.+++++...+..|+. .++..+..+|
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            34455555555555555555555554 444555555555554433   233455555555544322221 2444455555


Q ss_pred             HhhCcHHHHHHHHHHHHH
Q 040367          331 FEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       331 ~~~~~~~~a~~~~~~~~~  348 (400)
                      .+.|++++|++.|+++++
T Consensus        83 ~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHH
Confidence            555555555555555555

>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=98.67  E-value=1.9e-07  Score=62.42  Aligned_cols=87  Identities=10%  Similarity=-0.025  Sum_probs=40.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcH
Q 040367          292 INGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYI  371 (400)
Q Consensus       292 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  371 (400)
                      ...+.+.|++++|...+++.++..+. +...|..+..++.+.|++++|+..|+++++.. +.+...+..+...|...|++
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCH
Confidence            33444445555555555544443221 34444444444445555555555555444431 22344444445555555555


Q ss_pred             HHHHHHHHH
Q 040367          372 VEAVELFRT  380 (400)
Q Consensus       372 ~~a~~~~~~  380 (400)
                      ++|++.+++
T Consensus       101 ~~A~~~l~~  109 (112)
T d1hxia_         101 NAALASLRA  109 (112)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555554444

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.66  E-value=2.1e-07  Score=62.25  Aligned_cols=92  Identities=12%  Similarity=-0.030  Sum_probs=82.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhh
Q 040367          254 NTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEI  333 (400)
Q Consensus       254 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  333 (400)
                      ..+...+.+.|++++|...|+++.+.. +.+...|..+..++.+.|++++|+..++++++..+. +...|..+..++...
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~y~~~   97 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHHHHHC
Confidence            346778889999999999999999886 557899999999999999999999999999987533 688899999999999


Q ss_pred             CcHHHHHHHHHHHH
Q 040367          334 HQVERAFKLFDEMQ  347 (400)
Q Consensus       334 ~~~~~a~~~~~~~~  347 (400)
                      |++++|.+.+++.+
T Consensus        98 g~~~~A~~~l~~~l  111 (112)
T d1hxia_          98 HNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999998864

>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=98.62  E-value=2.8e-07  Score=62.45  Aligned_cols=100  Identities=11%  Similarity=0.054  Sum_probs=58.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhh---CcHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHH
Q 040367          290 ILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEI---HQVERAFKLFDEMQRDGVAAD-TWTYRTFIDGL  365 (400)
Q Consensus       290 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  365 (400)
                      .++..+...+++++|.+.|++.+..++ .+..++..+..++.+.   +++++|+.+++++......|+ ..++..+..+|
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 AVLNELVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            455566666667777777776666542 2555666666666543   334456666666665432222 23555666666


Q ss_pred             HhcCcHHHHHHHHHHHHHhcccchhHH
Q 040367          366 CKNSYIVEAVELFRTLRILKCELDIRA  392 (400)
Q Consensus       366 ~~~g~~~~a~~~~~~~~~~~~~p~~~~  392 (400)
                      .+.|++++|++.|+++++  +.|+...
T Consensus        83 ~~~g~~~~A~~~~~~aL~--~~P~~~~  107 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ--TEPQNNQ  107 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH--HCTTCHH
T ss_pred             HHHhhhHHHHHHHHHHHH--hCcCCHH
Confidence            677777777777777766  3455443

>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=98.49  E-value=7.3e-06  Score=59.20  Aligned_cols=61  Identities=11%  Similarity=-0.093  Sum_probs=30.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      |..+..+|.+.|++++|+..++.....+ |.++..+..+..+|...|++++|...|+++.+.
T Consensus        65 ~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          65 HLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            3334444555555555555555555443 334445555555555555555555555555543

>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=98.49  E-value=7.5e-06  Score=59.15  Aligned_cols=84  Identities=10%  Similarity=-0.110  Sum_probs=66.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 040367          286 FSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGL  365 (400)
Q Consensus       286 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  365 (400)
                      .+|+.+..+|.+.|++++|+..++..++.++. +...+..++.++...|++++|...|+++.+.. +.+......+..+.
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~  140 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQ  140 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcccc-chhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            35677888999999999999999999987533 78889999999999999999999999999863 22566666665555


Q ss_pred             HhcCcH
Q 040367          366 CKNSYI  371 (400)
Q Consensus       366 ~~~g~~  371 (400)
                      .+.+..
T Consensus       141 ~~~~~~  146 (170)
T d1p5qa1         141 QRIRRQ  146 (170)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444433

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.46  E-value=1.2e-07  Score=82.04  Aligned_cols=108  Identities=9%  Similarity=-0.069  Sum_probs=38.2

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 040367          218 FNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCK  297 (400)
Q Consensus       218 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  297 (400)
                      +..+...+.+.|+.+.|...+.......   ...++..+...+...|++++|...|.+..+.. |.+...|+.|...+..
T Consensus       123 ~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~  198 (497)
T d1ya0a1         123 SSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASS  198 (497)
T ss_dssp             --------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHH
T ss_pred             HHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            3333444444444444444443333211   11233344444444555555555555544443 3344445555555555


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHH
Q 040367          298 NKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVL  330 (400)
Q Consensus       298 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  330 (400)
                      .|+..+|...|.+.+... +|...++..|...+
T Consensus       199 ~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         199 KGDHLTTIFYYCRSIAVK-FPFPAASTNLQKAL  230 (497)
T ss_dssp             TTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHH
Confidence            555555555555444432 22333444444333

>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=98.45  E-value=2.4e-06  Score=58.49  Aligned_cols=93  Identities=9%  Similarity=0.114  Sum_probs=48.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-c-----hhhHHHHHH
Q 040367          255 TLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKP-D-----VVIYNTLFV  328 (400)
Q Consensus       255 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~-----~~~~~~l~~  328 (400)
                      .+...+...|++++|+..|.+..+.+ +.+...+..+..+|.+.|++++|++.++++++..... .     ..+|..+..
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            34455555566666666666555554 3445555555566666666666666655555421100 0     123344444


Q ss_pred             HHHhhCcHHHHHHHHHHHHH
Q 040367          329 VLFEIHQVERAFKLFDEMQR  348 (400)
Q Consensus       329 ~~~~~~~~~~a~~~~~~~~~  348 (400)
                      .+...+++++|++.|++...
T Consensus        88 ~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHh
Confidence            55555555566665555544

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.42  E-value=2.9e-06  Score=58.07  Aligned_cols=97  Identities=15%  Similarity=0.162  Sum_probs=81.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCC-CCC-----HHHHHHH
Q 040367          288 YSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGV-AAD-----TWTYRTF  361 (400)
Q Consensus       288 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~-----~~~~~~l  361 (400)
                      +-.+...+...|++++|++.|.+.++.++ .+...+..+..+|.+.|++++|++.++++++... .+.     ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            45678889999999999999999999854 3788899999999999999999999999886421 111     3467788


Q ss_pred             HHHHHhcCcHHHHHHHHHHHHHhc
Q 040367          362 IDGLCKNSYIVEAVELFRTLRILK  385 (400)
Q Consensus       362 ~~~~~~~g~~~~a~~~~~~~~~~~  385 (400)
                      ...+...+++++|++.|++.+...
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~~  109 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAEH  109 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcC
Confidence            888999999999999999988643

>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=98.35  E-value=1e-05  Score=57.27  Aligned_cols=111  Identities=8%  Similarity=-0.027  Sum_probs=58.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHH
Q 040367          252 VYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLF  331 (400)
Q Consensus       252 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  331 (400)
                      .+..-+..+.+.|++.+|...|.++...-......             . +....  .....    ....+|..+..+|.
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~-------------~-~~~~~--~~~~~----~~~~~~~Nla~~~~   78 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEW-------------D-DQILL--DKKKN----IEISCNLNLATCYN   78 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTC-------------C-CHHHH--HHHHH----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhh-------------h-hHHHH--Hhhhh----HHHHHHhhHHHHHH
Confidence            44455666777788888888877776532110000             0 00000  00000    01224455556666


Q ss_pred             hhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          332 EIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       332 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      +.|++++|++.++++++.. +.+...|..+..++...|++++|+..|++..+
T Consensus        79 ~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          79 KNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             Hhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            6666666666666666542 33556666666666666666666666666665

>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=98.32  E-value=3.4e-07  Score=79.08  Aligned_cols=80  Identities=11%  Similarity=-0.025  Sum_probs=46.6

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 040367          181 VTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGF  260 (400)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  260 (400)
                      .++..+...+...|++++|+..|++..+.. |.+...|+.+...+...|+..+|...|.+.+... +|-+.++..|...+
T Consensus       153 ~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         153 HCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKAL  230 (497)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHH
Confidence            345555666666666666666666666542 3344566666666666666666666666666543 33455555555555


Q ss_pred             Hh
Q 040367          261 CL  262 (400)
Q Consensus       261 ~~  262 (400)
                      .+
T Consensus       231 ~~  232 (497)
T d1ya0a1         231 SK  232 (497)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.30  E-value=1.4e-05  Score=57.68  Aligned_cols=60  Identities=10%  Similarity=-0.058  Sum_probs=27.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          254 NTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       254 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      ..+..++.+.|++++|+..+.++.+.. +.+...|..+..++...|++++|.+.|+++++.
T Consensus        81 ~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          81 LNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            334444444444444444444444443 334444444444444444444444444444443

>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=98.29  E-value=2.4e-05  Score=55.23  Aligned_cols=61  Identities=11%  Similarity=-0.103  Sum_probs=31.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      +..+..+|.+.|++++|+..+..+.+.+ |.+..+|..++.++...|++++|...|++..+.
T Consensus        70 ~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          70 NLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3344445555555555555555555443 334455555555555555555555555555543

>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=2.5e-05  Score=56.60  Aligned_cols=122  Identities=7%  Similarity=0.021  Sum_probs=78.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCc
Q 040367          256 LMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQ  335 (400)
Q Consensus       256 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  335 (400)
                      ........|++++|...|.+.......+ ...         .....+-+...-..+...    ....+..+..++...|+
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~rG~-~l~---------~~~~~~w~~~~r~~l~~~----~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREWRGP-VLD---------DLRDFQFVEPFATALVED----KVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCSS-TTG---------GGTTSTTHHHHHHHHHHH----HHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCccc-ccc---------cCcchHHHHHHHHHHHHH----HHHHHHHHHHHHHHCCC
Confidence            3456678899999999999888752111 000         000000011111111111    23456677888888888


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH-----HhcccchhHH
Q 040367          336 VERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLR-----ILKCELDIRA  392 (400)
Q Consensus       336 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-----~~~~~p~~~~  392 (400)
                      +++|+..++++++.. +-+...|..++.+|.+.|+..+|++.|+++.     +.|+.|+..+
T Consensus        83 ~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          83 ASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             chHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            888888888888763 4477888888888888888888888888874     4688887755

>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=98.26  E-value=1.6e-05  Score=57.41  Aligned_cols=113  Identities=11%  Similarity=0.007  Sum_probs=87.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC--------------CC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC
Q 040367          183 YTSVIRGFCYANDWNEAKCLLIEMMDQ--------------GV-QPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVR  247 (400)
Q Consensus       183 ~~~l~~~~~~~~~~~~a~~~~~~~~~~--------------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  247 (400)
                      +......+...|++++|+..|.++++.              .. +.....+..+..++.+.|++++|+..+.++++.. +
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p  108 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-P  108 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-T
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-h
Confidence            344566678889999999988877531              01 1234466778889999999999999999999875 3


Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 040367          248 PNAFVYNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCK  297 (400)
Q Consensus       248 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  297 (400)
                      .+...+..+..++...|++++|...|+.+.+.. +.+......+..+...
T Consensus       109 ~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~~~~  157 (169)
T d1ihga1         109 SNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQK  157 (169)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            478889999999999999999999999999886 4566666665554443

>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=98.26  E-value=7e-05  Score=53.75  Aligned_cols=61  Identities=11%  Similarity=-0.016  Sum_probs=33.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          253 YNTLMDGFCLTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       253 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      |..+..+|.+.|++++|+..++...+.+ +.+...|..+..++...|++++|...|+++++.
T Consensus        67 ~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          67 FLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3344455555555555555555555544 445555555555555555555555555555554

>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=98.23  E-value=0.00068  Score=54.02  Aligned_cols=82  Identities=10%  Similarity=0.024  Sum_probs=43.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHH-------------HHhhCcHHHHHHHHHHHHHcCCCCC
Q 040367          288 YSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVV-------------LFEIHQVERAFKLFDEMQRDGVAAD  354 (400)
Q Consensus       288 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-------------~~~~~~~~~a~~~~~~~~~~~~~~~  354 (400)
                      ....+..+.+..+++...++.....+.    ++...+.++..             +.+.++......+++.....+   +
T Consensus       207 ~~~f~e~~~k~~N~e~~~~~i~~yL~~----~p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---~  279 (336)
T d1b89a_         207 EGQFKDIITKVANVELYYRAIQFYLEF----KPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---N  279 (336)
T ss_dssp             HHHHHHHHHHCSSTHHHHHHHHHHHHH----CGGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---C
T ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHc----CHHHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---h
Confidence            344445555555555555554444432    12222333333             344444444455555544433   4


Q ss_pred             HHHHHHHHHHHHhcCcHHHHHH
Q 040367          355 TWTYRTFIDGLCKNSYIVEAVE  376 (400)
Q Consensus       355 ~~~~~~l~~~~~~~g~~~~a~~  376 (400)
                      ..+.+++...|...++++.-.+
T Consensus       280 ~~vn~al~~lyie~~d~~~l~~  301 (336)
T d1b89a_         280 KSVNESLNNLFITEEDYQALRT  301 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhCcchhHHHHH
Confidence            5678888889998888655333

>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=98.22  E-value=7.8e-05  Score=53.48  Aligned_cols=95  Identities=11%  Similarity=-0.021  Sum_probs=71.4

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 040367          286 FSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGL  365 (400)
Q Consensus       286 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  365 (400)
                      ..|..+..+|.+.|++++|+..+++.++.. +.+...|..+..++...|++++|...|+++++.. +.+......+....
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            346678888999999999999999999875 3478888999999999999999999999999863 33566666555554


Q ss_pred             HhcCcH-HHHHHHHHHHH
Q 040367          366 CKNSYI-VEAVELFRTLR  382 (400)
Q Consensus       366 ~~~g~~-~~a~~~~~~~~  382 (400)
                      .+.+.. +...+++..|.
T Consensus       143 ~~~~~~~e~~kk~~~~~f  160 (168)
T d1kt1a1         143 KKAKEHNERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHH
Confidence            444433 33445555554

>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=98.20  E-value=9.1e-06  Score=56.83  Aligned_cols=113  Identities=10%  Similarity=-0.030  Sum_probs=59.8

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc----------CCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh
Q 040367          263 TGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKN----------KEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE  332 (400)
Q Consensus       263 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  332 (400)
                      .+.+++|...|+...+.. |.++..+..+..++...          +.+++|++.++++++.++. +..+|..+..+|..
T Consensus        10 ~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~y~~   87 (145)
T d1zu2a1          10 ILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYTS   87 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHHHHHH
Confidence            344555555555555444 33444444444444322          2345566666666655322 45555556655554


Q ss_pred             hC-----------cHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhc
Q 040367          333 IH-----------QVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRILK  385 (400)
Q Consensus       333 ~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  385 (400)
                      .|           .+++|.+.|+++++.  .|+...+..-+..+      .+|.+++.+..+.|
T Consensus        88 ~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L~~~------~ka~~~~~e~~k~~  143 (145)
T d1zu2a1          88 FAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMT------AKAPQLHAEAYKQG  143 (145)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH------HTHHHHHHHHHHSS
T ss_pred             cccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHHHHH------HHHHHHHHHHHHHh
Confidence            43           357788888887774  45544444333332      45566666665554

>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=98.19  E-value=9.6e-06  Score=56.70  Aligned_cols=97  Identities=5%  Similarity=-0.139  Sum_probs=67.8

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCC
Q 040367           97 LCAESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENI  176 (400)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  176 (400)
                      |-+.+.+++|.+.|+...+.. |.+..++..+..++...+++..+.+-.+.             +++|+..|++..+.+ 
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~-------------~~~Ai~~~~kAl~l~-   71 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQM-------------IQEAITKFEEALLID-   71 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHH-------------HHHHHHHHHHHHHHC-
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHH-------------HHHHHHHHHHHHHhc-
Confidence            345667889999999988876 66788888888888877776655544433             577888888887764 


Q ss_pred             CCChHhHHHHHHHHHhcCC-----------HHHHHHHHHHHHh
Q 040367          177 NPDVVTYTSVIRGFCYAND-----------WNEAKCLLIEMMD  208 (400)
Q Consensus       177 ~~~~~~~~~l~~~~~~~~~-----------~~~a~~~~~~~~~  208 (400)
                      |.+..+|..+..+|...|+           +++|.+.|++.++
T Consensus        72 P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~  114 (145)
T d1zu2a1          72 PKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD  114 (145)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc
Confidence            5567788888887766543           3455555555554

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.16  E-value=6.4e-05  Score=54.40  Aligned_cols=71  Identities=7%  Similarity=0.032  Sum_probs=50.4

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH-----cCCCCCHHh
Q 040367          181 VTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQ-----IGVRPNAFV  252 (400)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  252 (400)
                      ..+..+..++...|++++|+..++++.+.. +.+...|..++.++.+.|+..+|++.|+++..     .|+.|+..+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            456667777777778888877777777664 55677777777777777777777777777633     366666544

>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=98.07  E-value=4.1e-06  Score=65.08  Aligned_cols=52  Identities=17%  Similarity=0.181  Sum_probs=31.0

Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040367          262 LTGRVNRAKELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK  314 (400)
Q Consensus       262 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  314 (400)
                      +.|++++|+..+++..+.. |.+...+..+...++..|++++|.+.++...+.
T Consensus         8 ~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            4566666666666665554 445555666666666666666666666666554

>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=98.06  E-value=0.0016  Score=51.84  Aligned_cols=48  Identities=8%  Similarity=0.076  Sum_probs=27.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHH
Q 040367          292 INGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKL  342 (400)
Q Consensus       292 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  342 (400)
                      +..+.+.+++.-...+++.....|   +..+.+++...|...++++.-.+.
T Consensus       255 V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~~~l~~~  302 (336)
T d1b89a_         255 VNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQALRTS  302 (336)
T ss_dssp             HHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchhHHHHHH
Confidence            333344445555555555544443   345677777888888876554433

>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=98.00  E-value=8.8e-06  Score=63.13  Aligned_cols=126  Identities=11%  Similarity=-0.032  Sum_probs=86.6

Q ss_pred             HHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHH
Q 040367           26 CLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIME  105 (400)
Q Consensus        26 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  105 (400)
                      -..+.|++++|+..+++..+.. |.+...+..++..++..|++++|.+.++...+... .+...+..+...+...+..++
T Consensus         5 ~aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P-~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           5 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFP-EYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHhccccHH
Confidence            4567899999999999999886 56889999999999999999999999999998742 234444444444443333333


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCC
Q 040367          106 AAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNG  153 (400)
Q Consensus       106 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  153 (400)
                      +..-.......+-+++...+......+...|+.++|...++++.+..+
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p  130 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQ  130 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC
Confidence            322211111112122344455566778889999999998888766543

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.75  E-value=0.0004  Score=48.91  Aligned_cols=91  Identities=14%  Similarity=0.030  Sum_probs=54.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCC-C----------chhhHHHHHHHHHhhCcHHHHHHHHHHHHHc-----CCCCC--
Q 040367          293 NGYCKNKEIEGALSLYGEMLSKGIK-P----------DVVIYNTLFVVLFEIHQVERAFKLFDEMQRD-----GVAAD--  354 (400)
Q Consensus       293 ~~~~~~~~~~~a~~~~~~~~~~~~~-~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~--  354 (400)
                      ..+...|++++|++.|++.++.... |          ....|+.+..++...|++++|...+++.++.     ...++  
T Consensus        17 ~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~   96 (156)
T d2hr2a1          17 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEG   96 (156)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccccccccccc
Confidence            3444556666666666666542110 1          1245666777777777777777777766542     11111  


Q ss_pred             ---HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          355 ---TWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       355 ---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                         ...+..+..+|...|++++|++.|++..+
T Consensus        97 ~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          97 KLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               22456677778888888888888887764

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.75  E-value=0.00041  Score=48.86  Aligned_cols=99  Identities=17%  Similarity=0.028  Sum_probs=66.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCC-CC----------CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchH
Q 040367           94 IKGLCAESRIMEAAALFTKLRVFGC-EP----------NVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVD  162 (400)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~-~~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  162 (400)
                      ...+...|++++|++.|++.++... .|          ...+|+.+..+|.+.|++++|...++                
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~----------------   79 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSAD----------------   79 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH----------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhh----------------
Confidence            3455566778888887777765320 11          14678889999999999999987754                


Q ss_pred             HHHHHHHHHHhCCCCC---ChHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          163 KAKELFLQMKDENINP---DVVTYTSVIRGFCYANDWNEAKCLLIEMMD  208 (400)
Q Consensus       163 ~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  208 (400)
                      ++++++.+........   ....+..+..+|...|++++|+..|++..+
T Consensus        80 ~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          80 KALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555544332111   122466677888888999988888888764

>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=97.46  E-value=0.00068  Score=42.90  Aligned_cols=60  Identities=17%  Similarity=0.043  Sum_probs=26.5

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCC-----CC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 040367           57 ILINCFCKMGRVSHGFVVLGRILRSCF-----TP-NAVTFTSLIKGLCAESRIMEAAALFTKLRVF  116 (400)
Q Consensus        57 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (400)
                      .+...+.+.|++++|...|++.++...     .+ ...+++.+..++.+.|++++|+..++++++.
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            444444444444444444444433210     00 1234444555555555555555555555444

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.45  E-value=0.0013  Score=41.54  Aligned_cols=23  Identities=4%  Similarity=0.049  Sum_probs=10.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHH
Q 040367          185 SVIRGFCYANDWNEAKCLLIEMM  207 (400)
Q Consensus       185 ~l~~~~~~~~~~~~a~~~~~~~~  207 (400)
                      .+...+.+.|+++.|+..|++..
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al   32 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQAL   32 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHH
Confidence            34444444444444444444443

>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=97.44  E-value=0.0046  Score=41.79  Aligned_cols=83  Identities=8%  Similarity=-0.104  Sum_probs=45.4

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh----hCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cC
Q 040367          298 NKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE----IHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCK----NS  369 (400)
Q Consensus       298 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g  369 (400)
                      ..+.++|++++++..+.|   ++.....|...|..    ..+.++|.++|++..+.|   ++.....|...|..    ..
T Consensus        36 ~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~  109 (133)
T d1klxa_          36 QINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVK  109 (133)
T ss_dssp             TSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC
T ss_pred             ccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCC
Confidence            345566666666666554   33333444444432    345666677776666654   33344445444443    34


Q ss_pred             cHHHHHHHHHHHHHhcc
Q 040367          370 YIVEAVELFRTLRILKC  386 (400)
Q Consensus       370 ~~~~a~~~~~~~~~~~~  386 (400)
                      +.++|.++|++..+.|.
T Consensus       110 d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_         110 NEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CHHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHCCC
Confidence            66677777777766553

>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=97.20  E-value=0.01  Score=39.96  Aligned_cols=81  Identities=15%  Similarity=0.107  Sum_probs=37.5

Q ss_pred             CCHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh----hCc
Q 040367          264 GRVNRAKELFVSMESMGCTHTVFSYSILINGYCK----NKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE----IHQ  335 (400)
Q Consensus       264 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~  335 (400)
                      .+.++|...+++..+.+   ++.....|...|..    ..+.++|.++|++..+.|   ++.....|...|..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCC
Confidence            34445555555544433   23333334444332    234555666666555554   23333334433332    235


Q ss_pred             HHHHHHHHHHHHHcC
Q 040367          336 VERAFKLFDEMQRDG  350 (400)
Q Consensus       336 ~~~a~~~~~~~~~~~  350 (400)
                      .++|.++|++..+.|
T Consensus       111 ~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         111 EKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCC
Confidence            555666665555544

>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=96.67  E-value=0.013  Score=38.30  Aligned_cols=72  Identities=11%  Similarity=-0.003  Sum_probs=42.4

Q ss_pred             chhhHHHHHHHHHhh---CcHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHHhcccchhHHH
Q 040367          319 DVVIYNTLFVVLFEI---HQVERAFKLFDEMQRDGVAAD-TWTYRTFIDGLCKNSYIVEAVELFRTLRILKCELDIRAY  393 (400)
Q Consensus       319 ~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  393 (400)
                      +..+--...+++.+.   .+.++++.+|+++.+.+ +.+ ...+-.|.-+|.+.|++++|.+.++.+++  +.|+..-.
T Consensus        34 s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--ieP~n~qA  109 (124)
T d2pqrb1          34 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNNKQV  109 (124)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHHH
T ss_pred             CcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--cCCCcHHH
Confidence            334444445555543   34556777777776542 222 35556666677777777777777777776  45655433

>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=96.50  E-value=0.046  Score=35.31  Aligned_cols=139  Identities=12%  Similarity=0.027  Sum_probs=64.2

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHH
Q 040367          191 CYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAK  270 (400)
Q Consensus       191 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  270 (400)
                      .-.|..++..+++.+...+.   +..-|+.++--....-+-+-..++++.+-+. +  |.          ..+++.....
T Consensus        13 ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~-F--Dl----------s~C~Nlk~vv   76 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY-F--DL----------DKCQNLKSVV   76 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG-S--CG----------GGCSCTHHHH
T ss_pred             HHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhh-c--Cc----------hhhhcHHHHH
Confidence            34566677777777666532   3444555554444444444444555444322 1  10          1222333332


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcC
Q 040367          271 ELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDG  350 (400)
Q Consensus       271 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  350 (400)
                      ..+-.+-     .+....+..+......|+-+.-.++++.+.+. -+|++...-.+..+|.+.|...++-+++.++-+.|
T Consensus        77 ~C~~~~n-----~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          77 ECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            2222221     12233344444555555555555555554442 23444444555555555555555555555555554


Q ss_pred             C
Q 040367          351 V  351 (400)
Q Consensus       351 ~  351 (400)
                      .
T Consensus       151 ~  151 (161)
T d1wy6a1         151 E  151 (161)
T ss_dssp             C
T ss_pred             H
Confidence            3

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=95.26  E-value=0.19  Score=32.41  Aligned_cols=138  Identities=12%  Similarity=0.079  Sum_probs=70.6

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCC
Q 040367           99 AESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINP  178 (400)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  178 (400)
                      -.|..++..+++.+....   .+..-||-++--....-+-+...+.++.+-+ ..+.+..+........+-.+-     .
T Consensus        14 ldG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~-~FDls~C~Nlk~vv~C~~~~n-----~   84 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGS-YFDLDKCQNLKSVVECGVINN-----T   84 (161)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGG-GSCGGGCSCTHHHHHHHHHTT-----C
T ss_pred             HhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhh-hcCchhhhcHHHHHHHHHHhc-----c
Confidence            345555555555555543   2344444444444444444444444433321 111122222333333222221     1


Q ss_pred             ChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCC
Q 040367          179 DVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGV  246 (400)
Q Consensus       179 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  246 (400)
                      +...+...++.....|+-+.-.++++.+.+.+ .+++.....+..+|.+.|...++-+++.++-+.|.
T Consensus        85 ~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          85 LNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            34455666666677777777777776665533 56666666667777777777777777777666654

>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=94.60  E-value=0.31  Score=31.53  Aligned_cols=50  Identities=14%  Similarity=0.093  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCC
Q 040367          103 IMEAAALFTKLRVFGCEPN-VFTYNTLINGLYRTGHTIVALNLFEEMASGNG  153 (400)
Q Consensus       103 ~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  153 (400)
                      .++++.+++.+.+.+ +.+ ...+..|.-+|.+.|++++|.+.++.+++..+
T Consensus        54 ~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP  104 (124)
T d2pqrb1          54 ERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHER  104 (124)
T ss_dssp             HHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            445666666655442 222 23445555566666666666665555555443

>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=94.14  E-value=1.2  Score=36.56  Aligned_cols=328  Identities=11%  Similarity=0.015  Sum_probs=178.7

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--cCChhhHHHHHHHHHhcCCCC-ChhhHHHHHHHHH
Q 040367           22 ILFGCLAKNKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCK--MGRVSHGFVVLGRILRSCFTP-NAVTFTSLIKGLC   98 (400)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~   98 (400)
                      ..+....++|+...+..+...+...   | ..-|...-..-..  .....+...++++   ..-.| ....-...+..+.
T Consensus        11 ~~a~~a~~~~~~~~~~~~~~~L~dy---p-L~pYl~~~~l~~~~~~~~~~~i~~Fl~~---~p~~P~~~~lr~~~l~~L~   83 (450)
T d1qsaa1          11 AQIKQAWDNRQMDVVEQMMPGLKDY---P-LYPYLEYRQITDDLMNQPAVTVTNFVRA---NPTLPPARTLQSRFVNELA   83 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHSGGGTTS---T-THHHHHHHHHHHTGGGCCHHHHHHHHHH---CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHhhhcCC---C-CHHHHHHHHHHhccccCCHHHHHHHHHH---CCCChhHHHHHHHHHHHHH
Confidence            3455667889999888888777432   2 2334433333222  2334444333333   21111 1122334456677


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCCcccchHHHHHHHHHHHhCCCCC
Q 040367           99 AESRIMEAAALFTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNLFEEMASGNGEFGVEGFVDKAKELFLQMKDENINP  178 (400)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  178 (400)
                      +.+++......+.     ..+.+...-.....+....|+.+.|...+..+-..+...     .+....++..+.+.| ..
T Consensus        84 ~~~~w~~~~~~~~-----~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~-----p~~c~~l~~~~~~~~-~l  152 (450)
T d1qsaa1          84 RREDWRGLLAFSP-----EKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQ-----PNACDKLFSVWRASG-KQ  152 (450)
T ss_dssp             HTTCHHHHHHHCC-----SCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCC-----CTHHHHHHHHHHHTT-CS
T ss_pred             hccCHHHHHHhcc-----CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-----chHHHHHHHHHHhcC-CC
Confidence            7888776554442     224566666678888999999999999988887665432     345566677666665 34


Q ss_pred             ChHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 040367          179 DVVTYTSVIRGFCYANDWNEAKCLLIEMMDQGVQPNVVTFNVIMDELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMD  258 (400)
Q Consensus       179 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  258 (400)
                      +...+-.-+......|++..|..+...+..    .........+.....   ...+....   ...  .++......+..
T Consensus       153 t~~~~~~R~~~~l~~~~~~~a~~l~~~l~~----~~~~~~~a~~~l~~~---p~~~~~~~---~~~--~~~~~~~~~~~~  220 (450)
T d1qsaa1         153 DPLAYLERIRLAMKAGNTGLVTVLAGQMPA----DYQTIASAIISLANN---PNTVLTFA---RTT--GATDFTRQMAAV  220 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHTCCG----GGHHHHHHHHHHHHC---GGGHHHHH---HHS--CCCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCChhhHHHHHhhCCh----hHHHHHHHHHHHHhC---hHhHHHHH---hcC--CCChhhhHHHHH
Confidence            444555556667777888888777654321    122223333333222   22222111   111  222222222223


Q ss_pred             HHHh--cCCHHHHHHHHHHHHhcCCCCChhhHHHHH----HHHHhcCCHHHHHHHHHHHHhCCCCCchhhHHHHHHHHHh
Q 040367          259 GFCL--TGRVNRAKELFVSMESMGCTHTVFSYSILI----NGYCKNKEIEGALSLYGEMLSKGIKPDVVIYNTLFVVLFE  332 (400)
Q Consensus       259 ~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  332 (400)
                      ++.+  ..+.+.+...+....... ..+...+..+-    ......+..+.+...+......+.  +.......+.....
T Consensus       221 ~l~rla~~d~~~a~~~l~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~w~~~~al~  297 (450)
T d1qsaa1         221 AFASVARQDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQ--STSLIERRVRMALG  297 (450)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCC--CHHHHHHHHHHHHH
T ss_pred             HHHHHhccChhHHHHHHHhhhhcc-cccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccccc--chHHHHHHHHHHHH
Confidence            3222  246777777777776543 22222222222    222334556777777766665432  33333444445566


Q ss_pred             hCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 040367          333 IHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLRI  383 (400)
Q Consensus       333 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  383 (400)
                      .+++..+...+..+... ......-.-=+..++...|+.++|...|..+..
T Consensus       298 ~~~~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~  347 (450)
T d1qsaa1         298 TGDRRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (450)
T ss_dssp             HTCHHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cCChHHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc
Confidence            78888888888776533 122233334456778888888888888888763

>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=93.55  E-value=0.41  Score=29.11  Aligned_cols=62  Identities=8%  Similarity=0.129  Sum_probs=39.5

Q ss_pred             HHHHHHHHHHHHhCCCCCchhhHHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 040367          301 IEGALSLYGEMLSKGIKPDVVIYNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFID  363 (400)
Q Consensus       301 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  363 (400)
                      .=+..+-+..+......|++....+.+++|.+.+++..|+++|+..+.+ ..++...|..+++
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilq   83 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   83 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHH
Confidence            3345555666666667777777777777777777777777777776654 2233445554443

>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=93.01  E-value=0.52  Score=28.68  Aligned_cols=46  Identities=7%  Similarity=0.149  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040367          233 EASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRAKELFVSMES  278 (400)
Q Consensus       233 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  278 (400)
                      ++.+-++.+....+.|++.+..+.+.+|.+.+|+.-|.++++.+..
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~   69 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   69 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4444444444445555555555555555555555555555555544

>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=92.59  E-value=2.2  Score=34.92  Aligned_cols=182  Identities=10%  Similarity=-0.008  Sum_probs=114.8

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHH----HHHhCCChHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHH
Q 040367          194 NDWNEAKCLLIEMMDQGVQPNVVTFNVIMD----ELCKNGKMDEASRLLDLMIQIGVRPNAFVYNTLMDGFCLTGRVNRA  269 (400)
Q Consensus       194 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  269 (400)
                      .+.+.|...+....... ..+..-+..+-.    .....+..+.+...+......+  .+.....-.+......+++..+
T Consensus       228 ~d~~~a~~~l~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~  304 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGL  304 (450)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cChhHHHHHHHhhhhcc-cccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHH
Confidence            57788888888776543 222222222222    2234566777877777776643  2444444455556677899988


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhC------------CCCCc----------hhh-----
Q 040367          270 KELFVSMESMGCTHTVFSYSILINGYCKNKEIEGALSLYGEMLSK------------GIKPD----------VVI-----  322 (400)
Q Consensus       270 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------------~~~~~----------~~~-----  322 (400)
                      ...+..+.... .......--+.+++...|+.+.|...|..+...            |.+++          ...     
T Consensus       305 ~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~~~fYG~LAa~~Lg~~~~~~~~~~~~~~~~~~~~~~  383 (450)
T d1qsaa1         305 NTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQQRGFYPMVAAQRIGEEYELKIDKAPQNVDSALTQGP  383 (450)
T ss_dssp             HHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSHHHHHHHHHTTCCCCCCCCCCCSCCCCHHHHSH
T ss_pred             HHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcCCChHHHHHHHHcCCCCCCCcCCCCccHHHhhhcCh
Confidence            88888775432 223444567788888999999999988887542            11110          000     


Q ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 040367          323 YNTLFVVLFEIHQVERAFKLFDEMQRDGVAADTWTYRTFIDGLCKNSYIVEAVELFRTLR  382 (400)
Q Consensus       323 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  382 (400)
                      -...+..+...|....|...+..+... .  +......+.....+.|.++.|+....+..
T Consensus       384 ~~~ra~~L~~~g~~~~A~~e~~~l~~~-~--~~~~~~~la~lA~~~g~~~~aI~a~~~~~  440 (450)
T d1qsaa1         384 EMARVRELMYWNLDNTARSEWANLVKS-K--SKTEQAQLARYAFNNQWWDLSVQATIAGK  440 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTT-C--CHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCchHHHHHHHHHHhC-C--CHHHHHHHHHHHHHCCChhHHHHHHHHHH
Confidence            012345566788999998888887754 2  45566677777888899999887766553

>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=80.07  E-value=6.3  Score=26.21  Aligned_cols=110  Identities=13%  Similarity=0.044  Sum_probs=72.7

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 040367           30 NKHYDTVLSLFKRLNSTGLFPDLYTYNILINCFCKMGRVSHGFVVLGRILRSCFTPNAVTFTSLIKGLCAESRIMEAAAL  109 (400)
Q Consensus        30 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  109 (400)
                      ..+.+-|+   +...+.|++-....|..-++.+...|++++|-.+-....+ |+-.+..|.+.+-.+-...|...-.+.+
T Consensus        12 l~n~~la~---~lA~r~~LpGAd~l~~~~F~~lf~~g~y~eAA~~aA~sP~-giLRt~~Ti~rFk~~~~~pGq~spLL~Y   87 (157)
T d1bpoa1          12 LQNPDLAL---RMAVRNNLAGAEELFARKFNALFAQGNYSEAAKVAANAPK-GILRTPDTIRRFQSVPAQPGQTSPLLQY   87 (157)
T ss_dssp             TCCHHHHH---HHHHHTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSGG-GSSCSHHHHHHHTTSCCCTTSCCHHHHH
T ss_pred             cCCHHHHH---HHHHhcCCCChHHHHHHHHHHHHHcCCHHHHHHHHHhCCc-ccccCHHHHHHHHcCCCCCCCCCHHHHH
Confidence            35555553   3456667777788888889999999999999888766553 4445666666555444456667777788


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 040367          110 FTKLRVFGCEPNVFTYNTLINGLYRTGHTIVALNL  144 (400)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  144 (400)
                      |..+.+.| ..|..--.-+++.-...|+.+-..++
T Consensus        88 F~~Ll~~~-~LN~~ESlEl~r~vL~q~r~~lve~W  121 (157)
T d1bpoa1          88 FGILLDQG-QLNKYESLELCRPVLQQGRKQLLEKW  121 (157)
T ss_dssp             HHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHhcC-CCchHHhHHHHHHHHhcCcHHHHHHH
Confidence            88887776 45555445566666666665444444