Citrus Sinensis ID: 041786

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260
Protein Sequence
MTTVAAAKTSKEDYFAAVNHIANIVRHDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQFDDAFCFFSEMQIKTHPPNRPVYA
Secondary Structure (PSIPRED)
cHHHHccccccccHHHHHccccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHccHHHHHHHHHHHHHHcccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHccccccEEEHHHHHHHHHHcccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHccccccEEEEc
Coil and Loop (DISEMBL)
MTTVAAAKTSKEDYFAAVNHIANIVRHDIYAERTLNRLNLTLISELSMWKTIelmkpdslsvfPQTLSLIIEEFGKHGLIDNAVEVFNKctafncqqcvLLYNSLHVCFVRMIrkgfvpdkrthTILVNAwcssgkmrEAQEFLQELsdkgfnppvrSAKQMVNKMikqgsvpdletFNSLIETICKsgelglcadvntnkisipavskeFMIDEAFRLLCNLVEdghklfpslgqfddafcffsemqikthppnrpvya
Flexible Loop (DISEMBL)
mttvaaaktskedyfAAVNHIANIVRHDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRkgfvpdkrthTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSgelglcadvntNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQFDDAFCFFSEMqikthppnrpvya
Low Complexity Region (SEG)
MTTVAAAKTSKEDYFAAVNHIANIVRHDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQFDDAFCFFSEMQIKTHPPNRPVYA
Disordered region (IsUnstruct)
************DYFAAVNHIANIVRHDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSG************************************VPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQFDDAFCFFSEMQ************
Disordered Region (DISOPRED)
MTTVA*AKTSKEDYFAAVNHIANIVRHDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQFDDAFCFFSEMQIKTHPPNRPVYA
Disordered Region (DISEMBL)
*********SKEDYFAAVNHIANIVRHDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQFDDAFCFFSEMQIKTHPPNRPVYA
Disordered Region (DISPRO)
MTTVAAAKTSKEDYFAAVNHIANIVRHDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQFDDAFCFFSEMQIKTHPPNRPVYA
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTTVAAAKTSKEDYFAAVNHIANIVRHDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQFDDAFCFFSEMQIKTHPPNRPVYA
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	260	2.2.26 [Sep-21-2011]
Q94JX6	459	Pentatricopeptide repeat-	yes	no	0.961	0.544	0.453	1e-73
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.476	0.192	0.287	2e-11
Q9FMF6	730	Pentatricopeptide repeat-	no	no	0.715	0.254	0.270	6e-11
Q9M302	659	Pentatricopeptide repeat-	no	no	0.657	0.259	0.261	7e-11
Q9LSL9	915	Pentatricopeptide repeat-	no	no	0.746	0.212	0.257	1e-10
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.657	0.228	0.258	2e-10
Q9ZUE9	536	Pentatricopeptide repeat-	no	no	0.738	0.358	0.242	3e-10
Q9ASZ8	621	Pentatricopeptide repeat-	no	no	0.565	0.236	0.241	4e-10
Q9SZ52	1112	Pentatricopeptide repeat-	no	no	0.630	0.147	0.252	4e-10
Q9SAJ5	780	Pentatricopeptide repeat-	no	no	0.811	0.270	0.211	6e-10

>sp|Q94JX6|PP391_ARATH Pentatricopeptide repeat-containing protein At5g18390, mitochondrial OS=Arabidopsis thaliana GN=At5g18390 PE=2 SV=2

 Score =  276 bits (705), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 160/353 (45%), Positives = 192/353 (54%), Gaps = 103/353 (29%)

Query: 10  SKEDYFAAVNHIANIVRHDIYAERTLNRLNLTLISEL----------------------- 46
           +K DYFAA+NH+ NIVR +I+ ER+LN L L + SE                        
Sbjct: 43  TKGDYFAAINHVVNIVRREIHPERSLNSLRLPVTSEFVFRVLRATSRSSNDSLRFFNWAR 102

Query: 47  --------------------------SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLI 80
                                     SMWK ++ MK  SL +  +TL  IIE++GK+G +
Sbjct: 103 SNPSYTPTSMEYEELAKSLASHKKYESMWKILKQMKDLSLDISGETLCFIIEQYGKNGHV 162

Query: 81  DNAVEVFNKC-TAFNCQQCVLLYNSL-------------HVCFVRMIRKGFVPDKRTHTI 126
           D AVE+FN       CQQ V +YNSL             +    RMIRKG  PDKRT+ I
Sbjct: 163 DQAVELFNGVPKTLGCQQTVDVYNSLLHALCDVKMFHGAYALIRRMIRKGLKPDKRTYAI 222

Query: 127 LVNAWCSSGKMREAQEFLQELSDKGFNPPVR----------------SAKQMVNKMIKQG 170
           LVN WCS+GKM+EAQEFL E+S +GFNPP R                SAK+MV+KM K G
Sbjct: 223 LVNGWCSAGKMKEAQEFLDEMSRRGFNPPARGRDLLIEGLLNAGYLESAKEMVSKMTKGG 282

Query: 171 SVPDLETFNSLIETICKSGE-------------LGLCADVNTNKISIPAVSKEFMIDEAF 217
            VPD++TFN LIE I KSGE             LGLC D++T K  IPAVSK   IDEAF
Sbjct: 283 FVPDIQTFNILIEAISKSGEVEFCIEMYYTACKLGLCVDIDTYKTLIPAVSKIGKIDEAF 342

Query: 218 RLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIKTHPPNRPVY 259
           RLL N VEDGHK FPSL           G FDDAF FFS+M++K HPPNRPVY
Sbjct: 343 RLLNNCVEDGHKPFPSLYAPIIKGMCRNGMFDDAFSFFSDMKVKAHPPNRPVY 395

Arabidopsis thaliana (taxid: 3702)

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

 Score = 69.3 bits (168), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 73/153 (47%), Gaps = 29/153 (18%)

Query: 68  SLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVR-------------MIR 114
           S+II+   K G +DNA  +FN+      +  ++ YN+L   F               MI+
Sbjct: 267 SIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAKLLRDMIK 326

Query: 115 KGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNP----------------PVRS 158
           +   P+  T ++L++++   GK+REA + L+E+  +G  P                 +  
Sbjct: 327 RKISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAPNTITYNSLIDGFCKENRLEE 386

Query: 159 AKQMVNKMIKQGSVPDLETFNSLIETICKSGEL 191
           A QMV+ MI +G  PD+ TFN LI   CK+  +
Sbjct: 387 AIQMVDLMISKGCDPDIMTFNILINGYCKANRI 419

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FMF6|PP444_ARATH Pentatricopeptide repeat-containing protein At5g64320, mitochondrial OS=Arabidopsis thaliana GN=At5g64320 PE=2 SV=1

 Score = 68.2 bits (165), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 65/240 (27%), Positives = 100/240 (41%), Gaps = 54/240 (22%)

Query: 70  IIEEFGKHGLIDNAVEVF-NKCTAFNCQQCVLLYNSLHVCFVR-------------MIRK 115
           +I  F  HG +D+A  V  +  T++     V  YNSL   + +             M  K
Sbjct: 359 LIHGFVTHGRLDDAKAVLSDMVTSYGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNK 418

Query: 116 GFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNP----------------PVRSA 159
           G  P+  ++TILV+ +C  GK+ EA   L E+S  G  P                 +  A
Sbjct: 419 GCKPNVYSYTILVDGFCKLGKIDEAYNVLNEMSADGLKPNTVGFNCLISAFCKEHRIPEA 478

Query: 160 KQMVNKMIKQGSVPDLETFNSLIETICKSGEL-------------GLCADVNTNKISIPA 206
            ++  +M ++G  PD+ TFNSLI  +C+  E+             G+ A+  T    I A
Sbjct: 479 VEIFREMPRKGCKPDVYTFNSLISGLCEVDEIKHALWLLRDMISEGVVANTVTYNTLINA 538

Query: 207 VSKEFMIDEAFRLLCNLVEDGHKL----FPSL-------GQFDDAFCFFSEMQIKTHPPN 255
             +   I EA +L+  +V  G  L    + SL       G+ D A   F +M    H P+
Sbjct: 539 FLRRGEIKEARKLVNEMVFQGSPLDEITYNSLIKGLCRAGEVDKARSLFEKMLRDGHAPS 598

Arabidopsis thaliana (taxid: 3702)

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

 Score = 67.8 bits (164), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 56/214 (26%), Positives = 95/214 (44%), Gaps = 43/214 (20%)

Query: 70  IIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNS-------------LHVCFVRMIRKG 116
           +I  + + GL + AVE+F +   F C   V +YN              +++ +  M R G
Sbjct: 117 VISVYRQVGLAERAVEMFYRIKEFGCDPSVKIYNHVLDTLLGENRIQMIYMVYRDMKRDG 176

Query: 117 FVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSV---- 172
           F P+  T+ +L+ A C + K+  A++ L E+S+KG  P   S   +++ M + G V    
Sbjct: 177 FEPNVFTYNVLLKALCKNNKVDGAKKLLVEMSNKGCCPDAVSYTTVISSMCEVGLVKEGR 236

Query: 173 -------PDLETFNSLIETICK----SGELGLCADVNTNKISIPAVSKEFMIDEAFRLLC 221
                  P +  +N+LI  +CK     G   L  ++    IS   +S   +I+    +LC
Sbjct: 237 ELAERFEPVVSVYNALINGLCKEHDYKGAFELMREMVEKGISPNVISYSTLIN----VLC 292

Query: 222 NLVEDGHKLFPSLGQFDDAFCFFSEMQIKTHPPN 255
           N            GQ + AF F ++M  +   PN
Sbjct: 293 N-----------SGQIELAFSFLTQMLKRGCHPN 315

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LSL9|PP445_ARATH Pentatricopeptide repeat-containing protein At5g65560 OS=Arabidopsis thaliana GN=At5g65560 PE=2 SV=1

 Score = 67.4 bits (163), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 62/241 (25%), Positives = 101/241 (41%), Gaps = 47/241 (19%)

Query: 52  IELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSL------ 105
           +ELM+   LS   +T + +I+ + K   +  A+ V NK         V+ YNSL      
Sbjct: 416 VELMESRKLSPNTRTYNELIKGYCKSN-VHKAMGVLNKMLERKVLPDVVTYNSLIDGQCR 474

Query: 106 -------HVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNP---- 154
                  +     M  +G VPD+ T+T ++++ C S ++ EA +    L  KG NP    
Sbjct: 475 SGNFDSAYRLLSLMNDRGLVPDQWTYTSMIDSLCKSKRVEEACDLFDSLEQKGVNPNVVM 534

Query: 155 ------------PVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKI 202
                        V  A  M+ KM+ +  +P+  TFN+LI  +C  G+L     +    +
Sbjct: 535 YTALIDGYCKAGKVDEAHLMLEKMLSKNCLPNSLTFNALIHGLCADGKLKEATLLEEKMV 594

Query: 203 SI---PAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQFDDAFCFFSEMQIKTHPPNRPVY 259
            I   P VS + +      L+  L++D        G FD A+  F +M      P+   Y
Sbjct: 595 KIGLQPTVSTDTI------LIHRLLKD--------GDFDHAYSRFQQMLSSGTKPDAHTY 640

Query: 260 A 260
            
Sbjct: 641 T 641

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIX3|PP407_ARATH Pentatricopeptide repeat-containing protein At5g39710 OS=Arabidopsis thaliana GN=EMB2745 PE=2 SV=1

 Score = 65.9 bits (159), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 53/205 (25%), Positives = 87/205 (42%), Gaps = 34/205 (16%)

Query: 73  EFGKHGLIDNAVE----VFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILV 128
           E  +HGL  + +     + + C A N  + +   + + V       +G  P++RT+T LV
Sbjct: 335 EMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRV-------RGLCPNERTYTTLV 387

Query: 129 NAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKS 188
           + +   G M EA   L+E++D GF+P V +   ++N     G + D       I  +   
Sbjct: 388 DGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMED------AIAVLEDM 441

Query: 189 GELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHK----LFPSLGQFDDAFC-- 242
            E GL  DV +    +    + + +DEA R+   +VE G K     + SL Q    FC  
Sbjct: 442 KEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTITYSSLIQ---GFCEQ 498

Query: 243 --------FFSEMQIKTHPPNRPVY 259
                    + EM     PP+   Y
Sbjct: 499 RRTKEACDLYEEMLRVGLPPDEFTY 523

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZUE9|PP149_ARATH Pentatricopeptide repeat-containing protein At2g06000 OS=Arabidopsis thaliana GN=At2g06000 PE=2 SV=1

 Score = 65.9 bits (159), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 61/252 (24%), Positives = 106/252 (42%), Gaps = 60/252 (23%)

Query: 65  QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRM------------ 112
           +T +++I      G  + A+E+    + F C+  ++ YN+L   F +             
Sbjct: 207 KTFNILIRGLCGVGKAEKALELLGVMSGFGCEPDIVTYNTLIQGFCKSNELNKASEMFKD 266

Query: 113 IRKGFV--PDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPP--------------- 155
           ++ G V  PD  T+T +++ +C +GKMREA   L ++   G  P                
Sbjct: 267 VKSGSVCSPDVVTYTSMISGYCKAGKMREASSLLDDMLRLGIYPTNVTFNVLVDGYAKAG 326

Query: 156 -VRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGEL-------------GLCADVNTNK 201
            + +A+++  KMI  G  PD+ TF SLI+  C+ G++             G+  +  T  
Sbjct: 327 EMLTAEEIRGKMISFGCFPDVVTFTSLIDGYCRVGQVSQGFRLWEEMNARGMFPNAFTYS 386

Query: 202 ISIPAVSKEFMIDEAFRLLCNL--------------VEDGHKLFPSLGQFDDAFCFFSEM 247
           I I A+  E  + +A  LL  L              V DG   F   G+ ++A     EM
Sbjct: 387 ILINALCNENRLLKARELLGQLASKDIIPQPFMYNPVIDG---FCKAGKVNEANVIVEEM 443

Query: 248 QIKTHPPNRPVY 259
           + K   P++  +
Sbjct: 444 EKKKCKPDKITF 455

Arabidopsis thaliana (taxid: 3702)

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

 Score = 65.5 bits (158), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 45/186 (24%), Positives = 85/186 (45%), Gaps = 39/186 (20%)

Query: 95  CQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNP 154
           C++  L ++++     ++I+ G+ PD  T + L+N  C  G++ EA E +  + + G  P
Sbjct: 120 CRKLSLAFSAMG----KIIKLGYEPDTVTFSTLINGLCLEGRVSEALELVDRMVEMGHKP 175

Query: 155 ----------------PVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADV- 197
                            V  A  ++++M++ G  P+  T+  +++ +CKSG+  L  ++ 
Sbjct: 176 TLITLNALVNGLCLNGKVSDAVLLIDRMVETGFQPNEVTYGPVLKVMCKSGQTALAMELL 235

Query: 198 ---NTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQFDDAFCFFSEMQIKTHPP 254
                 KI + AV    +ID        L +D        G  D+AF  F+EM+IK    
Sbjct: 236 RKMEERKIKLDAVKYSIIID-------GLCKD--------GSLDNAFNLFNEMEIKGFKA 280

Query: 255 NRPVYA 260
           +  +Y 
Sbjct: 281 DIIIYT 286

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZ52|PP344_ARATH Pentatricopeptide repeat-containing protein At4g31850, chloroplastic OS=Arabidopsis thaliana GN=PGR3 PE=1 SV=1

 Score = 65.5 bits (158), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 50/198 (25%), Positives = 85/198 (42%), Gaps = 34/198 (17%)

Query: 22   ANIVRHDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLID 81
            AN + H+I     +   N+     L ++   +LM     S    T   +I+   K G + 
Sbjct: 853  ANTITHNIVISGLVKAGNVD--DALDLY--YDLMSDRDFSPTACTYGPLIDGLSKSGRLY 908

Query: 82   NAVEVFNKCTAFNCQQCVLLYNSL-----------HVC--FVRMIRKGFVPDKRTHTILV 128
             A ++F     + C+    +YN L             C  F RM+++G  PD +T+++LV
Sbjct: 909  EAKQLFEGMLDYGCRPNCAIYNILINGFGKAGEADAACALFKRMVKEGVRPDLKTYSVLV 968

Query: 129  NAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIK-----------------QGS 171
            +  C  G++ E   + +EL + G NP V     ++N + K                 +G 
Sbjct: 969  DCLCMVGRVDEGLHYFKELKESGLNPDVVCYNLIINGLGKSHRLEEALVLFNEMKTSRGI 1028

Query: 172  VPDLETFNSLIETICKSG 189
             PDL T+NSLI  +  +G
Sbjct: 1029 TPDLYTYNSLILNLGIAG 1046

Plays a role in the stabilization of the primary polycistronic transcript of the petL operon encoding subunits of the cytochrome b6-f complex.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SAJ5|PP133_ARATH Pentatricopeptide repeat-containing protein At1g79540 OS=Arabidopsis thaliana GN=At1g79540 PE=2 SV=1

 Score = 64.7 bits (156), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 56/265 (21%), Positives = 103/265 (38%), Gaps = 54/265 (20%)

Query: 49  WKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVC 108
           W+T+E +K   +SV      ++I  + K G+ + AVE F +   F+C+  V  YN +   
Sbjct: 112 WQTLEELKSGGVSVDSYCFCVLISAYAKMGMAEKAVESFGRMKEFDCRPDVFTYNVILRV 171

Query: 109 FVR--------------MIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNP 154
            +R              M++    P+  T  IL++     G+  +AQ+   +++ +G +P
Sbjct: 172 MMREEVFFMLAFAVYNEMLKCNCSPNLYTFGILMDGLYKKGRTSDAQKMFDDMTGRGISP 231

Query: 155 ----------------PVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGEL------- 191
                               A+++  +M   G+ PD    N+L++  CK G +       
Sbjct: 232 NRVTYTILISGLCQRGSADDARKLFYEMQTSGNYPDSVAHNALLDGFCKLGRMVEAFELL 291

Query: 192 ------GLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHK----LFPSL------- 234
                 G    +      I  + +     +AF L  N+++   K    L+  L       
Sbjct: 292 RLFEKDGFVLGLRGYSSLIDGLFRARRYTQAFELYANMLKKNIKPDIILYTILIQGLSKA 351

Query: 235 GQFDDAFCFFSEMQIKTHPPNRPVY 259
           G+ +DA    S M  K   P+   Y
Sbjct: 352 GKIEDALKLLSSMPSKGISPDTYCY 376

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	260
224144668	422	predicted protein [Populus trichocarpa]	0.984	0.606	0.463	2e-76
449449535	455	PREDICTED: pentatricopeptide repeat-cont	0.984	0.562	0.443	4e-73
255562047	451	pentatricopeptide repeat-containing prot	0.984	0.567	0.444	1e-72
15238810	459	pentatricopeptide repeat-containing prot	0.961	0.544	0.453	7e-72
297807861	459	pentatricopeptide repeat-containing prot	0.961	0.544	0.450	3e-71
225430658	454	PREDICTED: pentatricopeptide repeat-cont	0.95	0.544	0.429	4e-70
356510681	450	PREDICTED: pentatricopeptide repeat-cont	0.988	0.571	0.413	4e-67
125562258	465	hypothetical protein OsI_29963 [Oryza sa	0.965	0.539	0.365	1e-57
125604075	461	hypothetical protein OsJ_28005 [Oryza sa	0.965	0.544	0.365	1e-57
326513918	459	predicted protein [Hordeum vulgare subsp	0.965	0.546	0.353	4e-55

>gi|224144668|ref|XP_002325369.1| predicted protein [Populus trichocarpa] gi|222862244|gb|EEE99750.1| predicted protein [Populus trichocarpa]

 Score =  291 bits (745), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 167/360 (46%), Positives = 205/360 (56%), Gaps = 104/360 (28%)

Query: 5   AAAKTSKEDYFAAVNHIANIVRHDIYAERTLNRLNLTLISEL------------------ 46
           +    +++ YF+ +++I NI+R ++Y ERTLN+LNL + SEL                  
Sbjct: 1   STTTNNRDAYFSLIHNITNIIRKEVYPERTLNKLNLPITSELVFRVLRACSNSPSESLRF 60

Query: 47  -----------------------------SMWKTIELMK---PDSLSVFPQTLSLIIEEF 74
                                        SMWK I  +K    D  SV   T+  IIEE+
Sbjct: 61  FNWARSYYSPTTIEYEELIITLVRNKKYASMWKLIAQVKDNLGDKFSVSSDTVCSIIEEY 120

Query: 75  GKHGLIDNAVEVFNKCT-AFNCQQCVLLYNSL--HVCFV-----------RMIRKGFVPD 120
           GKHGLID AVEVFNKC+ + NCQ  V +YNSL   +C V           RMIRKG VPD
Sbjct: 121 GKHGLIDQAVEVFNKCSRSLNCQHNVCVYNSLLFALCEVKMFHGAYALVRRMIRKGIVPD 180

Query: 121 KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVR----------------SAKQMVN 164
           KRT+ +LVN WCSSGK+REA+ FL+E+S KGFNPPVR                SAK MV 
Sbjct: 181 KRTYGVLVNGWCSSGKLREAKGFLEEMSKKGFNPPVRGRDLLIEGLLNAGYLESAKDMVR 240

Query: 165 KMIKQGSVPDLETFNSLIETICKSGE-------------LGLCADVNTNKISIPAVSKEF 211
           +M+K+G VPD+ TFNS++E IC +GE             LG C D+N+ KI IPAVSK  
Sbjct: 241 RMMKEGLVPDVNTFNSMVEAICNAGEVDFCVDMYHSVCKLGFCPDINSYKILIPAVSKVG 300

Query: 212 MIDEAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIKTHPPNRPVYA 260
            IDEAFRLL NL+EDGHK FPSL           GQFDDAFCFFSEM++K HPPNRPVY 
Sbjct: 301 RIDEAFRLLHNLIEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKVKGHPPNRPVYT 360

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449449535|ref|XP_004142520.1| PREDICTED: pentatricopeptide repeat-containing protein At5g18390, mitochondrial-like [Cucumis sativus] gi|449518358|ref|XP_004166209.1| PREDICTED: pentatricopeptide repeat-containing protein At5g18390, mitochondrial-like [Cucumis sativus]

 Score =  280 bits (716), Expect = 4e-73,   Method: Compositional matrix adjust.
 Identities = 160/361 (44%), Positives = 200/361 (55%), Gaps = 105/361 (29%)

Query: 5   AAAKTSKEDYFAAVNHIANIVRHDIYAERTLNRLNLT-LISEL----------------- 46
            +   SK+DYFAA++HI++IVR D Y ERTLN+L ++ L SEL                 
Sbjct: 32  GSTAPSKDDYFAAIHHISHIVRRDFYMERTLNKLRISNLNSELVFRVLRACSNSGTESFR 91

Query: 47  ---------------------------------SMWKTIELMKPDSLSVFPQTLSLIIEE 73
                                            +MWK +  MK  +L + P+T+S II+E
Sbjct: 92  FFNWACSHNPSYQPTTLEFEELVKTLARTRKYTTMWKVLLQMKTQNLKISPETISFIIQE 151

Query: 74  FGKHGLIDNAVEVFNKCT-AFNCQQCVLLYNSL-------------HVCFVRMIRKGFVP 119
           +GK GL+DNAV +FN+C+ + +C Q V +YN+L             +    RMIRKG  P
Sbjct: 152 YGKQGLVDNAVTIFNQCSKSIDCPQTVEVYNALLFALCEVKMFHGAYALIRRMIRKGVTP 211

Query: 120 DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVR----------------SAKQMV 163
           DK+T+  LV  WCS+GKM+EAQEFL+E+S KGFNPP+R                SAK MV
Sbjct: 212 DKKTYGTLVTGWCSAGKMKEAQEFLEEMSQKGFNPPLRGRDLLVEGLLNAGYLESAKDMV 271

Query: 164 NKMIKQGSVPDLETFNSLIETICKSGE-------------LGLCADVNTNKISIPAVSKE 210
            KM K+GSVPD+ TFNSLI+ IC SGE             LGLC D+NT KI IPA SK 
Sbjct: 272 RKMTKEGSVPDIGTFNSLIDVICNSGEVDFCINIFHEVCKLGLCPDINTYKILIPATSKV 331

Query: 211 FMIDEAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIKTHPPNRPVY 259
             IDEAFRLL   +EDGH  FPSL           GQFDDAFCFF +M+ K HPPNRPVY
Sbjct: 332 GRIDEAFRLLHCCIEDGHVPFPSLYGPILKGMCKRGQFDDAFCFFGDMKHKGHPPNRPVY 391

Query: 260 A 260
            
Sbjct: 392 T 392

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255562047|ref|XP_002522032.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223538836|gb|EEF40436.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  278 bits (712), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 159/358 (44%), Positives = 195/358 (54%), Gaps = 102/358 (28%)

Query: 5   AAAKTSKEDYFAAVNHIANIVRHDIYAERTLNRLNLTLISEL------------------ 46
            +   +K+ YFA ++HI NIVR D Y ERTLN+LN  + SEL                  
Sbjct: 31  TSTNNTKDAYFALIHHITNIVRRDFYPERTLNKLNAPVTSELVFRVLRACSRSPTESLRF 90

Query: 47  -----------------------------SMWKTIELMKPDS--LSVFPQTLSLIIEEFG 75
                                        SMWK I  MK  +   S+  +T+  IIEE+G
Sbjct: 91  FNWSRAYYTPTSIEYEELIKILAKSKRYSSMWKLITQMKDQNPQFSISSETVRSIIEEYG 150

Query: 76  KHGLIDNAVEVFNKCTAFNCQQCVLLYNSL-------------HVCFVRMIRKGFVPDKR 122
           + GLID AVEVFN+C + NC+Q V +YNSL             +    R+IRKG  P+K 
Sbjct: 151 RSGLIDQAVEVFNQCNSLNCEQNVDIYNSLLFALCEVKLFHGAYALVRRLIRKGLAPNKT 210

Query: 123 THTILVNAWCSSGKMREAQEFLQELSDKGFNPPVR----------------SAKQMVNKM 166
           T+++LVN WCS+GK +EAQ FL+E+S KGFNPPVR                SAK+MV KM
Sbjct: 211 TYSVLVNGWCSNGKFKEAQLFLEEMSKKGFNPPVRGRDLLIEGLLNAGYFESAKEMVFKM 270

Query: 167 IKQGSVPDLETFNSLIETICKSGE-------------LGLCADVNTNKISIPAVSKEFMI 213
            K+G VPD+ TFN LIE IC SGE             LG C D+N+ KI IPAVSK   I
Sbjct: 271 SKEGFVPDVNTFNCLIEAICNSGEVDFCVDMYYSLRKLGFCPDINSYKILIPAVSKVGKI 330

Query: 214 DEAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIKTHPPNRPVYA 260
           DEAF+LL N +EDGHK FP L           GQFDDAFCFF EM++K HPPNRPVY 
Sbjct: 331 DEAFKLLNNSIEDGHKPFPGLYAPIIKGMCRRGQFDDAFCFFGEMKVKGHPPNRPVYT 388

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15238810|ref|NP_197340.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|223635760|sp|Q94JX6.2|PP391_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At5g18390, mitochondrial; Flags: Precursor gi|332005166|gb|AED92549.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  276 bits (705), Expect = 7e-72,   Method: Compositional matrix adjust.
 Identities = 160/353 (45%), Positives = 192/353 (54%), Gaps = 103/353 (29%)

Query: 10  SKEDYFAAVNHIANIVRHDIYAERTLNRLNLTLISEL----------------------- 46
           +K DYFAA+NH+ NIVR +I+ ER+LN L L + SE                        
Sbjct: 43  TKGDYFAAINHVVNIVRREIHPERSLNSLRLPVTSEFVFRVLRATSRSSNDSLRFFNWAR 102

Query: 47  --------------------------SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLI 80
                                     SMWK ++ MK  SL +  +TL  IIE++GK+G +
Sbjct: 103 SNPSYTPTSMEYEELAKSLASHKKYESMWKILKQMKDLSLDISGETLCFIIEQYGKNGHV 162

Query: 81  DNAVEVFNKC-TAFNCQQCVLLYNSL-------------HVCFVRMIRKGFVPDKRTHTI 126
           D AVE+FN       CQQ V +YNSL             +    RMIRKG  PDKRT+ I
Sbjct: 163 DQAVELFNGVPKTLGCQQTVDVYNSLLHALCDVKMFHGAYALIRRMIRKGLKPDKRTYAI 222

Query: 127 LVNAWCSSGKMREAQEFLQELSDKGFNPPVR----------------SAKQMVNKMIKQG 170
           LVN WCS+GKM+EAQEFL E+S +GFNPP R                SAK+MV+KM K G
Sbjct: 223 LVNGWCSAGKMKEAQEFLDEMSRRGFNPPARGRDLLIEGLLNAGYLESAKEMVSKMTKGG 282

Query: 171 SVPDLETFNSLIETICKSGE-------------LGLCADVNTNKISIPAVSKEFMIDEAF 217
            VPD++TFN LIE I KSGE             LGLC D++T K  IPAVSK   IDEAF
Sbjct: 283 FVPDIQTFNILIEAISKSGEVEFCIEMYYTACKLGLCVDIDTYKTLIPAVSKIGKIDEAF 342

Query: 218 RLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIKTHPPNRPVY 259
           RLL N VEDGHK FPSL           G FDDAF FFS+M++K HPPNRPVY
Sbjct: 343 RLLNNCVEDGHKPFPSLYAPIIKGMCRNGMFDDAFSFFSDMKVKAHPPNRPVY 395

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297807861|ref|XP_002871814.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297317651|gb|EFH48073.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  274 bits (700), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 159/353 (45%), Positives = 192/353 (54%), Gaps = 103/353 (29%)

Query: 10  SKEDYFAAVNHIANIVRHDIYAERTLNRLNLTLISEL----------------------- 46
           +K DYFAA+NH+ NIVR +I+ ER+LN L L + SE                        
Sbjct: 43  TKGDYFAAINHVVNIVRREIHPERSLNSLRLPVTSEFVFRVLRATSRSANDSLRFFNWAR 102

Query: 47  --------------------------SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLI 80
                                     SMWK ++ MK  SL +  +TL  IIE++GK+G +
Sbjct: 103 SNPSYTPTSMEYEELAKSLASHKKYESMWKILKQMKDLSLDISGETLCFIIEQYGKNGHV 162

Query: 81  DNAVEVFNKC-TAFNCQQCVLLYNSL-------------HVCFVRMIRKGFVPDKRTHTI 126
           D AVE+FN       CQQ V +YN+L             +    RMIRKG  PDKRT+ I
Sbjct: 163 DQAVELFNGVPKTLGCQQTVDVYNALLHALCDVKMFHGAYALIRRMIRKGLKPDKRTYAI 222

Query: 127 LVNAWCSSGKMREAQEFLQELSDKGFNPPVR----------------SAKQMVNKMIKQG 170
           LVN WCS+GKM+EAQEFL E+S KGFNPP R                SAK++V+KM K G
Sbjct: 223 LVNGWCSAGKMKEAQEFLDEMSRKGFNPPARGRDLLIEGLLNAGYLESAKEIVDKMTKGG 282

Query: 171 SVPDLETFNSLIETICKSGE-------------LGLCADVNTNKISIPAVSKEFMIDEAF 217
            VPD+ TFN+LIE I KSGE             LGLC D++T K  IPAVSK   IDEAF
Sbjct: 283 FVPDILTFNTLIEAISKSGEVEFCIEMYYTACKLGLCVDIDTYKTLIPAVSKIGKIDEAF 342

Query: 218 RLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIKTHPPNRPVY 259
           RLL N VEDGHK FPSL           G FDDAF FFS+M++K HPPNRPVY
Sbjct: 343 RLLNNCVEDGHKPFPSLYAPIIKGMCRNGMFDDAFSFFSDMKVKAHPPNRPVY 395

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225430658|ref|XP_002268375.1| PREDICTED: pentatricopeptide repeat-containing protein At5g18390, mitochondrial [Vitis vinifera] gi|296085168|emb|CBI28663.3| unnamed protein product [Vitis vinifera]

 Score =  270 bits (691), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 152/354 (42%), Positives = 196/354 (55%), Gaps = 107/354 (30%)

Query: 9   TSKEDYFAAVNHIANIVRHDIYAERTLNRLNLTLISEL---------------------- 46
           + K+DYFA V+HI+ IVR D Y ERTLN+L +++ S+L                      
Sbjct: 41  SKKDDYFAVVHHISAIVRRDFYLERTLNKLPISVTSDLVYRVLRSCPNSGTESLRFFNWA 100

Query: 47  ---------------------------SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGL 79
                                       MWK    M+    ++ P  +S IIEEFGKHGL
Sbjct: 101 RSHLSYQPTTLEYEELLKTLARTKQFQPMWKIAHQMQ----TLSPTVVSSIIEEFGKHGL 156

Query: 80  IDNAVEVFNKC-TAFNCQQCVLLYNSL-------------HVCFVRMIRKGFVPDKRTHT 125
           +D AVEVFNK  +A NC Q + +YNSL             +    RMIRKG  P+K+T++
Sbjct: 157 VDQAVEVFNKAKSALNCPQTIEVYNSLLFALCEVKYFHGAYALIRRMIRKGVTPNKQTYS 216

Query: 126 ILVNAWCSSGKMREAQEFLQELSDKGFNPPVR----------------SAKQMVNKMIKQ 169
           +LVN WC++GKM+EAQ+FL+E+S KGFNPPVR                +AK+MV KM K+
Sbjct: 217 VLVNGWCAAGKMKEAQDFLEEMSRKGFNPPVRGRDLLVDGLLNAGYLEAAKEMVRKMTKE 276

Query: 170 GSVPDLETFNSLIETICKSGE-------------LGLCADVNTNKISIPAVSKEFMIDEA 216
           G  PD+ET NS++E ICK+GE             LG+  +V T KI IPA  KE  IDEA
Sbjct: 277 GCAPDVETLNSMLEAICKAGEAEFCIDIYNDVCRLGVSPNVGTYKIMIPAACKEGRIDEA 336

Query: 217 FRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIKTHPPNRPVY 259
           FR+L   +EDGH+ FPSL           GQFDDAFCFFS+M++K HPPNRPVY
Sbjct: 337 FRILHRSIEDGHRPFPSLYAPIIKALCRNGQFDDAFCFFSDMKVKGHPPNRPVY 390

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356510681|ref|XP_003524064.1| PREDICTED: pentatricopeptide repeat-containing protein At5g18390, mitochondrial-like [Glycine max]

 Score =  260 bits (664), Expect = 4e-67,   Method: Compositional matrix adjust.
 Identities = 149/360 (41%), Positives = 196/360 (54%), Gaps = 103/360 (28%)

Query: 3   TVAAAKTSKEDYFAAVNHIANIVRHDIYAERTLNRLNLTLISEL---------------- 46
           T+  A +S+++YFA ++H++NIVR D Y ERTLN+L +T+  EL                
Sbjct: 27  TLTTASSSRDEYFAVIHHVSNIVRRDFYLERTLNKLRITVTPELVFRVLRACSNNPTESL 86

Query: 47  ---------------------------------SMWKTI-ELMKPDSLSVFPQTLSLIIE 72
                                            SMW  I ++     LS+ P  ++ +IE
Sbjct: 87  RFFNWARTHPSYSPTSLEFEQIVTTLARANTYQSMWALIRQVTLHHRLSLSPSAVASVIE 146

Query: 73  EFGKHGLIDNAVEVFNKCTAF-NCQQCVLLYNSL----------HVCFV---RMIRKGFV 118
            +G +  +D +V+VFNK     NC Q + LYN+L          H  +    RM+RKG  
Sbjct: 147 AYGDNRHVDQSVQVFNKSPLLLNCPQTLPLYNALLRSLCHNKLFHGAYALVRRMLRKGLR 206

Query: 119 PDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVR----------------SAKQM 162
           PDK T+ +LVNAWCS+GK+REA+ FL+E+S+KGFNPPVR                SAK M
Sbjct: 207 PDKTTYAVLVNAWCSNGKLREAKLFLEEMSEKGFNPPVRGRDLLVEGLLNAGYVESAKGM 266

Query: 163 VNKMIKQGSVPDLETFNSLIETICKSG------------ELGLCADVNTNKISIPAVSKE 210
           V  MIKQGSVPD+ TFN+++ET+ K               LG+  DVNT KI +PAVSK 
Sbjct: 267 VRNMIKQGSVPDVGTFNAVVETVSKEDVQFCVGLYHEVCALGMAPDVNTYKILVPAVSKS 326

Query: 211 FMIDEAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIKTHPPNRPVY 259
            M+DEAFRLL N +EDGHK FPSL           GQFDDAFCFF +M+ K HPPNRP+Y
Sbjct: 327 GMVDEAFRLLNNFIEDGHKPFPSLYAPVIKALCRRGQFDDAFCFFGDMKAKAHPPNRPLY 386

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125562258|gb|EAZ07706.1| hypothetical protein OsI_29963 [Oryza sativa Indica Group]

 Score =  228 bits (582), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 130/356 (36%), Positives = 175/356 (49%), Gaps = 105/356 (29%)

Query: 9   TSKEDYFAAVNHIANIVRHDIYAERTLNR----------LNLTLISELS----------- 47
           TSK+ YFAAV+H++ +VR D Y ERTLNR          L L +I   +           
Sbjct: 46  TSKDAYFAAVHHLSTVVRRDFYLERTLNRLRLPSPFPPDLALRVIRAAAPAEPLHAARFL 105

Query: 48  -------------------------------MWKTIELMKPDSLSVFPQTLSLIIEEFGK 76
                                          +W     M+   L + P T S +I  +G+
Sbjct: 106 AWLRAKPSFAASADHFDALLLPLARARLFTHLWSLAADMRALGLPLSPSTFSAVISSYGQ 165

Query: 77  HGLIDNAVEVFNKCTAFNCQQCVLLYNSL-------------HVCFVRMIRKGFVPDKRT 123
             L D AVEVFN+   F C Q   +YN+L             +    RM RKG  PD+ T
Sbjct: 166 SRLTDQAVEVFNRLPRFGCPQTTQVYNALLDALCANGSFAGAYKLLRRMARKGVAPDRAT 225

Query: 124 HTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRS----------------AKQMVNKMI 167
            + LV+AWC++GK+REAQ FL +++++GF+PPVR                 AK    +M 
Sbjct: 226 FSTLVDAWCAAGKLREAQAFLDDMAERGFHPPVRGRDLLVDGLVRAGRLEEAKAFALRMT 285

Query: 168 KQGSVPDLETFNSLIETICKSGEL-------------GLCADVNTNKISIPAVSKEFMID 214
           K+G +PD+ TFNSL E +C SG++             GLC D++T K+ IPAV+K   ID
Sbjct: 286 KEGVLPDVATFNSLAEALCSSGDVEFAVALLADASSRGLCPDISTYKVMIPAVAKAGRID 345

Query: 215 EAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIKTHPPNRPVY 259
           EAFRL    +EDGH+ FPSL           G+F DAF FF +M+ K HPPNRPVY
Sbjct: 346 EAFRLFYAALEDGHRPFPSLYAAIIKALCKAGRFADAFAFFGDMKSKGHPPNRPVY 401

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125604075|gb|EAZ43400.1| hypothetical protein OsJ_28005 [Oryza sativa Japonica Group]

 Score =  228 bits (582), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 130/356 (36%), Positives = 175/356 (49%), Gaps = 105/356 (29%)

Query: 9   TSKEDYFAAVNHIANIVRHDIYAERTLNR----------LNLTLISELS----------- 47
           TSK+ YFAAV+H++ +VR D Y ERTLNR          L L +I   +           
Sbjct: 42  TSKDAYFAAVHHLSTVVRRDFYLERTLNRLRLPSPFPPDLALRVIRAAAPAEPLHAARFL 101

Query: 48  -------------------------------MWKTIELMKPDSLSVFPQTLSLIIEEFGK 76
                                          +W     M+   L + P T S +I  +G+
Sbjct: 102 AWLRAKPSFAASADHFDALLLPLARARLFTHLWSLAADMRALGLPLSPSTFSAVISSYGQ 161

Query: 77  HGLIDNAVEVFNKCTAFNCQQCVLLYNSL-------------HVCFVRMIRKGFVPDKRT 123
             L D AVEVFN+   F C Q   +YN+L             +    RM RKG  PD+ T
Sbjct: 162 SRLTDQAVEVFNRLPRFGCPQTTQVYNALLDALCANGSFAGAYKLLRRMARKGVAPDRAT 221

Query: 124 HTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRS----------------AKQMVNKMI 167
            + LV+AWC++GK+REAQ FL +++++GF+PPVR                 AK    +M 
Sbjct: 222 FSTLVDAWCAAGKLREAQAFLDDMAERGFHPPVRGRDLLVDGLVRAGRLEEAKAFALRMT 281

Query: 168 KQGSVPDLETFNSLIETICKSGEL-------------GLCADVNTNKISIPAVSKEFMID 214
           K+G +PD+ TFNSL E +C SG++             GLC D++T K+ IPAV+K   ID
Sbjct: 282 KEGVLPDVATFNSLAEALCSSGDVEFAVALLADASSRGLCPDISTYKVMIPAVAKAGRID 341

Query: 215 EAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIKTHPPNRPVY 259
           EAFRL    +EDGH+ FPSL           G+F DAF FF +M+ K HPPNRPVY
Sbjct: 342 EAFRLFYAALEDGHRPFPSLYAAIIKALCKAGRFADAFAFFGDMKSKGHPPNRPVY 397

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326513918|dbj|BAJ92109.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  220 bits (561), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 126/356 (35%), Positives = 172/356 (48%), Gaps = 105/356 (29%)

Query: 9   TSKEDYFAAVNHIANIVRHDIYAERTLNR----------LNLTLISELS----------- 47
           TSK+ YFAAVNH++ IVR D Y ERTLNR          L L +I   +           
Sbjct: 40  TSKDAYFAAVNHLSTIVRRDFYLERTLNRLRLPSPFPPDLALRVIRAAAPSEPLHAARFL 99

Query: 48  -------------------------------MWKTIELMKPDSLSVFPQTLSLIIEEFGK 76
                                          +W     M+   L + P T S +I  +G 
Sbjct: 100 AWIRAKPNFSPSADHFDALLLPLARARLFTHLWTQASDMRALGLPLSPATFSAVISSYGH 159

Query: 77  HGLIDNAVEVFNKCTAFNCQQCVLLYNSL-------------HVCFVRMIRKGFVPDKRT 123
             L + AVEVFN+   F C Q   +YN+L             +    RM RKG  PD+ T
Sbjct: 160 SRLAEQAVEVFNRLPHFGCPQTTEVYNALLDALCANGNFAGAYKLLRRMARKGVAPDRAT 219

Query: 124 HTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRS----------------AKQMVNKMI 167
            + LV+AWC+SGK+REAQ FL +++ +GF PPVR                 AK    ++ 
Sbjct: 220 FSTLVDAWCASGKLREAQAFLDDMATRGFRPPVRGRDLLVDGLVRAGRLEEAKAFALRIT 279

Query: 168 KQGSVPDLETFNSLIETICKSGEL-------------GLCADVNTNKISIPAVSKEFMID 214
           K+G +PD+ TFNSL + +C +G++             G+C D++T K+ +PAV+K   I+
Sbjct: 280 KEGVLPDVATFNSLAQALCDAGDVEFAVGLLADASSRGMCPDISTYKVMLPAVAKAGRIE 339

Query: 215 EAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIKTHPPNRPVY 259
           EAFRL    +EDGH+ FPSL           G+F DAF FF +M+ K HPPNRPVY
Sbjct: 340 EAFRLFYAAIEDGHRPFPSLYAAIVKALCKAGRFADAFAFFGDMKSKGHPPNRPVY 395

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	260
TAIR|locus:2146288	459	AT5G18390 "AT5G18390" [Arabido	0.776	0.440	0.424	4.2e-47
TAIR|locus:2095309	687	AT3G09060 "AT3G09060" [Arabido	0.730	0.276	0.254	2.8e-09
TAIR|locus:2150024	729	AT5G01110 [Arabidopsis thalian	0.7	0.249	0.266	4.8e-08
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.588	0.204	0.269	1.9e-07
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.707	0.307	0.236	3.1e-07
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.476	0.192	0.294	3.5e-07
TAIR|locus:2099458	659	AT3G48810 "AT3G48810" [Arabido	0.865	0.341	0.236	4.8e-07
TAIR|locus:2012883	537	AT1G20300 [Arabidopsis thalian	0.530	0.256	0.231	1e-06
TAIR|locus:2049756	757	AT2G37230 [Arabidopsis thalian	0.773	0.265	0.257	1.7e-06
TAIR|locus:2038451	323	AT1G63230 [Arabidopsis thalian	0.488	0.393	0.243	2.7e-06

TAIR|locus:2146288 AT5G18390 "AT5G18390" [Arabidopsis thaliana (taxid:3702)]

 Score = 396 (144.5 bits), Expect = 4.2e-47, Sum P(2) = 4.2e-47
 Identities = 104/245 (42%), Positives = 136/245 (55%)

Query:    47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCT-AFNCQQCVLLYNSL 105
             SMWK ++ MK  SL +  +TL  IIE++GK+G +D AVE+FN       CQQ V +YNSL
Sbjct:   129 SMWKILKQMKDLSLDISGETLCFIIEQYGKNGHVDQAVELFNGVPKTLGCQQTVDVYNSL 188

Query:   106 -H-VCFV-----------RMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGF 152
              H +C V           RMIRKG  PDKRT+ ILVN WCS+GKM+EAQEFL E+S +GF
Sbjct:   189 LHALCDVKMFHGAYALIRRMIRKGLKPDKRTYAILVNGWCSAGKMKEAQEFLDEMSRRGF 248

Query:   153 NPPVR----------------SAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCAD 196
             NPP R                SAK+MV+KM K G VPD++TFN LIE I KSGE+  C +
Sbjct:   249 NPPARGRDLLIEGLLNAGYLESAKEMVSKMTKGGFVPDIQTFNILIEAISKSGEVEFCIE 308

Query:   197 VNTNKISIPAVSKEFMID-EAFRLLCNLVEDGHKLFPSLGQFDDAFCFFSEMQIKTHPPN 255
             +        A      +D + ++ L   V         +G+ D+AF   +      H P 
Sbjct:   309 MYYT-----ACKLGLCVDIDTYKTLIPAVS-------KIGKIDEAFRLLNNCVEDGHKPF 356

Query:   256 RPVYA 260
               +YA
Sbjct:   357 PSLYA 361

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2095309 AT3G09060 "AT3G09060" [Arabidopsis thaliana (taxid:3702)]

 Score = 162 (62.1 bits), Expect = 2.8e-09, P = 2.8e-09
 Identities = 55/216 (25%), Positives = 100/216 (46%)

Query:    35 LNRLNLT-LISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTA- 92
             L RL+ T +++ +S  + +EL++             +I+ +GK+ + D A++VF +    
Sbjct:    50 LRRLSETRMVNHVS--RIVELIRSQECKCDEDVALSVIKTYGKNSMPDQALDVFKRMREI 107

Query:    93 FNCQQCVLLYNSLHVCFV---RMIR----------KGFVPDKRTHTILVNAWCSSGKMRE 139
             F C+  +  YN+L   FV   + ++           G  P+ +T+ +L+   C   +  +
Sbjct:   108 FGCEPAIRSYNTLLNAFVEAKQWVKVESLFAYFETAGVAPNLQTYNVLIKMSCKKKEFEK 167

Query:   140 AQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPD-LETFNSLIETICKSGELGLCADVN 198
             A+ FL  +  +GF P V S   ++N + K G + D LE F+ +        E G+  DV 
Sbjct:   168 ARGFLDWMWKEGFKPDVFSYSTVINDLAKAGKLDDALELFDEM-------SERGVAPDVT 220

Query:   199 TNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL 234
                I I    KE     A  L   L+ED   ++P++
Sbjct:   221 CYNILIDGFLKEKDHKTAMELWDRLLEDS-SVYPNV 255

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2150024 AT5G01110 [Arabidopsis thaliana (taxid:3702)]

 Score = 152 (58.6 bits), Expect = 4.8e-08, P = 4.8e-08
 Identities = 55/206 (26%), Positives = 94/206 (45%)

Query:    61 SVFPQ--TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVR------- 111
             ++FP   TL+++I+   K G + NA+E+F K      +  V+ YN+L   F +       
Sbjct:   475 ALFPDSYTLTILIDGHCKLGNLQNAMELFQKMKEKRIRLDVVTYNTLLDGFGKVGDIDTA 534

Query:   112 ------MIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNK 165
                   M+ K  +P   +++ILVNA CS G + EA     E+  K   P V     M+  
Sbjct:   535 KEIWADMVSKEILPTPISYSILVNALCSKGHLAEAFRVWDEMISKNIKPTVMICNSMIKG 594

Query:   166 MIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVE 225
               + G+  D E+F   +E +   G +  C   NT    I    +E  + +AF L+  + E
Sbjct:   595 YCRSGNASDGESF---LEKMISEGFVPDCISYNT---LIYGFVREENMSKAFGLVKKMEE 648

Query:   226 DGHKLFPSLGQFDD---AFCFFSEMQ 248
             +   L P +  ++     FC  ++M+
Sbjct:   649 EQGGLVPDVFTYNSILHGFCRQNQMK 674

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2164910 EMB2745 "EMBRYO DEFECTIVE 2745" [Arabidopsis thaliana (taxid:3702)]

 Score = 147 (56.8 bits), Expect = 1.9e-07, P = 1.9e-07
 Identities = 46/171 (26%), Positives = 81/171 (47%)

Query:    63 FPQTLSLIIEEFGKHGLIDNAVE----VFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFV 118
             F Q L +  E   +HGL  + +     + + C A N  + +   + + V       +G  
Sbjct:   326 FHQALVMHAEML-RHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRV-------RGLC 377

Query:   119 PDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETF 178
             P++RT+T LV+ +   G M EA   L+E++D GF+P V +   ++N     G + D    
Sbjct:   378 PNERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAI-- 435

Query:   179 NSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHK 229
              +++E +    E GL  DV +    +    + + +DEA R+   +VE G K
Sbjct:   436 -AVLEDM---KEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIK 482

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

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

 Score = 144 (55.7 bits), Expect = 3.1e-07, P = 3.1e-07
 Identities = 53/224 (23%), Positives = 96/224 (42%)

Query:    66 TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSL--HVC-----------FVRM 112
             T ++++    K G +D A++  N   +  CQ  V+ +N +   +C              M
Sbjct:   276 TYNVLVNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIILRSMCSTGRWMDAEKLLADM 335

Query:   113 IRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKG-------FNPPVRS---AKQM 162
             +RKGF P   T  IL+N  C  G +  A + L+++   G       +NP +      K+M
Sbjct:   336 LRKGFSPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPNSLSYNPLLHGFCKEKKM 395

Query:   163 ------VNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEA 216
                   + +M+ +G  PD+ T+N+++  +CK G++    ++  N++S    S        
Sbjct:   396 DRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEI-LNQLSSKGCSPVL----- 449

Query:   217 FRLLCNLVEDGHKLFPSLGQFDDAFCFFSEMQIKTHPPNRPVYA 260
               +  N V DG       G+   A     EM+ K   P+   Y+
Sbjct:   450 --ITYNTVIDG---LAKAGKTGKAIKLLDEMRAKDLKPDTITYS 488

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

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

 Score = 144 (55.7 bits), Expect = 3.5e-07, P = 3.5e-07
 Identities = 45/153 (29%), Positives = 75/153 (49%)

Query:    68 SLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSL--HVC----------FVR-MIR 114
             S+II+   K G +DNA  +FN+      +  ++ YN+L    C           +R MI+
Sbjct:   267 SIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAKLLRDMIK 326

Query:   115 KGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPP----------------VRS 158
             +   P+  T ++L++++   GK+REA + L+E+  +G  P                 +  
Sbjct:   327 RKISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAPNTITYNSLIDGFCKENRLEE 386

Query:   159 AKQMVNKMIKQGSVPDLETFNSLIETICKSGEL 191
             A QMV+ MI +G  PD+ TFN LI   CK+  +
Sbjct:   387 AIQMVDLMISKGCDPDIMTFNILINGYCKANRI 419

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 143 (55.4 bits), Expect = 4.8e-07, P = 4.8e-07
 Identities = 64/271 (23%), Positives = 117/271 (43%)

Query:    14 YFAAVNHIANIVRHDIYAERTLNRLNLTLISEL-SMWKTIELMKPDSLSVFPQTLSLIIE 72
             +F ++ + +N+ +H       + R  L +  ++ S+   ++ MK             +I 
Sbjct:    62 FFKSIAN-SNLFKHTPLTFEVMIR-KLAMDGQVDSVQYLLQQMKLQGFHCSEDLFISVIS 119

Query:    73 EFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNS-------------LHVCFVRMIRKGFVP 119
              + + GL + AVE+F +   F C   V +YN              +++ +  M R GF P
Sbjct:   120 VYRQVGLAERAVEMFYRIKEFGCDPSVKIYNHVLDTLLGENRIQMIYMVYRDMKRDGFEP 179

Query:   120 DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSV------- 172
             +  T+ +L+ A C + K+  A++ L E+S+KG  P   S   +++ M + G V       
Sbjct:   180 NVFTYNVLLKALCKNNKVDGAKKLLVEMSNKGCCPDAVSYTTVISSMCEVGLVKEGRELA 239

Query:   173 ----PDLETFNSLIETICKS----GELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLV 224
                 P +  +N+LI  +CK     G   L  ++    IS   +S   +I+    +LCN  
Sbjct:   240 ERFEPVVSVYNALINGLCKEHDYKGAFELMREMVEKGISPNVISYSTLIN----VLCNS- 294

Query:   225 EDGHKLFPSLGQFDDAFCFFSEMQIKTHPPN 255
                       GQ + AF F ++M  +   PN
Sbjct:   295 ----------GQIELAFSFLTQMLKRGCHPN 315

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0048445 "carpel morphogenesis" evidence=RCA

TAIR|locus:2012883 AT1G20300 [Arabidopsis thaliana (taxid:3702)]

 Score = 139 (54.0 bits), Expect = 1.0e-06, P = 1.0e-06
 Identities = 35/151 (23%), Positives = 72/151 (47%)

Query:    49 WKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQ-----CVLLYN 103
             W  I+LMK  ++ +  +T +++I  + + GL   AV  FN+   + C        +++ N
Sbjct:   171 WHLIDLMKSRNVEISIETFTILIRRYVRAGLASEAVHCFNRMEDYGCVPDKIAFSIVISN 230

Query:   104 -------SLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPV 156
                    S    F   ++  F PD   +T LV  WC +G++ EA++  +E+   G  P V
Sbjct:   231 LSRKRRASEAQSFFDSLKDRFEPDVIVYTNLVRGWCRAGEISEAEKVFKEMKLAGIEPNV 290

Query:   157 RSAKQMVNKMIKQGSVPDL-ETFNSLIETIC 186
              +   +++ + + G +    + F  ++++ C
Sbjct:   291 YTYSIVIDALCRCGQISRAHDVFADMLDSGC 321

GO:0005739 "mitochondrion" evidence=ISM;IDA

TAIR|locus:2049756 AT2G37230 [Arabidopsis thaliana (taxid:3702)]

 Score = 139 (54.0 bits), Expect = 1.7e-06, P = 1.7e-06
 Identities = 57/221 (25%), Positives = 105/221 (47%)

Query:    22 ANIVRHDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLI-IEEFGKHGLI 80
             + ++RHD      + ++ L  +S+L+  + I L  P+    + + + ++ IE +GK G++
Sbjct:   143 SGLIRHDRDTHMKMIKM-LGEVSKLNHARCILLDMPEKGVPWDEDMFVVLIESYGKAGIV 201

Query:    81 DNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKG-FVPDKRTHTILVNAWCSSGKMRE 139
               +V++F K      ++ +  YNSL   F  ++R+G ++  KR      N   S G   E
Sbjct:   202 QESVKIFQKMKDLGVERTIKSYNSL---FKVILRRGRYMMAKR----YFNKMVSEGV--E 252

Query:   140 AQEFLQELSDKGFNPPVR--SAKQMVNKMIKQGSVPDLETFNSLIETICKSGELG----L 193
                    L   GF   +R  +A +    M  +G  PD  TFN++I   C+  ++     L
Sbjct:   253 PTRHTYNLMLWGFFLSLRLETALRFFEDMKTRGISPDDATFNTMINGFCRFKKMDEAEKL 312

Query:   194 CADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL 234
               ++  NKI    VS   MI + + L  + V+DG ++F  +
Sbjct:   313 FVEMKGNKIGPSVVSYTTMI-KGY-LAVDRVDDGLRIFEEM 351

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA

GO:0009534 "chloroplast thylakoid" evidence=IDA

TAIR|locus:2038451 AT1G63230 [Arabidopsis thaliana (taxid:3702)]

 Score = 132 (51.5 bits), Expect = 2.7e-06, P = 2.7e-06
 Identities = 38/156 (24%), Positives = 76/156 (48%)

Query:    65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSL--HVC-----------FVR 111
             Q    II    K G  ++A+ + +K    + +  V++YN++   +C           F  
Sbjct:    42 QPYGTIINGLCKMGDTESALNLLSKMEETHIKAHVVIYNAIIDRLCKDGHHIHAQNLFTE 101

Query:   112 MIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGS 171
             M  KG  PD  T++ +++++C SG+  +A++ L+++ ++  NP V +   ++N ++K+G 
Sbjct:   102 MHDKGIFPDVITYSGMIDSFCRSGRWTDAEQLLRDMIERQINPDVVTFSALINALVKEGK 161

Query:   172 VPDLE----------------TFNSLIETICKSGEL 191
             V + E                T+NS+I+  CK   L
Sbjct:   162 VSEAEEIYGDMLRRGIFPTTITYNSMIDGFCKQDRL 197

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	260
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-04

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

 Score = 40.8 bits (97), Expect = 1e-05
 Identities = 13/32 (40%), Positives = 19/32 (59%)

Query: 115 KGFVPDKRTHTILVNAWCSSGKMREAQEFLQE 146
           KG  PD  T+  L++  C +G++ EA E L E
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDE 32

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 = 40.5 bits (96), Expect = 3e-05
 Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 19/69 (27%)

Query: 119 PDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETF 178
           PD  T+  L++ +C  GK+ EA +                     N+M K+G  P++ T+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLF-------------------NEMKKRGIKPNVYTY 41

Query: 179 NSLIETICK 187
           + LI+ +CK
Sbjct: 42  SILIDGLCK 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 = 37.8 bits (89), Expect = 2e-04
 Identities = 13/63 (20%), Positives = 29/63 (46%), Gaps = 22/63 (34%)

Query: 70  IIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVN 129
           +I+ + K G ++ A+++FN+                      M ++G  P+  T++IL++
Sbjct: 9   LIDGYCKKGKVEEALKLFNE----------------------MKKRGIKPNVYTYSILID 46

Query: 130 AWC 132
             C
Sbjct: 47  GLC 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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 41.4 bits (97), Expect = 3e-04
 Identities = 47/217 (21%), Positives = 83/217 (38%), Gaps = 44/217 (20%)

Query: 55  MKPDSLSVFPQ--TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYN-SLHVC--- 108
           MK ++  + P   T+  +++     G +D A EV+     +N +    +Y  +++ C   
Sbjct: 568 MKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQK 627

Query: 109 ----FVR-----MIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRS- 158
               F       M +KG  PD+   + LV+    +G + +A E LQ+   +G      S 
Sbjct: 628 GDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSY 687

Query: 159 ---------------AKQMVNKMIKQGSVPDLETFNSLIETICKSGEL------------ 191
                          A ++   +      P + T N+LI  +C+  +L            
Sbjct: 688 SSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKR 747

Query: 192 -GLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDG 227
            GLC +  T  I + A  ++   D    LL    EDG
Sbjct: 748 LGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDG 784

Length = 1060

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	260
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PF13041	50	PPR_2: PPR repeat family	99.55
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.51
PF13041	50	PPR_2: PPR repeat family	99.49
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.44
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.42
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.32
PF12854	34	PPR_1: PPR repeat	99.21
PF12854	34	PPR_1: PPR repeat	99.16
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.09
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.97
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.66
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.64
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.63
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.63
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.5
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.46
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.38
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.26
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.22
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.2
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.16
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.96
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.95
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	97.94
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	97.94
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	97.92
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.91
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	97.9
PRK14574	822	hmsH outer membrane protein; Provisional	97.85
KOG1126	638	consensus DNA-binding cell division cycle control	97.8
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.79
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.75
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	97.68
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.63
KOG1129	478	consensus TPR repeat-containing protein [General f	97.63
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	97.59
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	97.54
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.5
PRK12370	553	invasion protein regulator; Provisional	97.48
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	97.46
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	97.43
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.41
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	97.38
KOG1126	638	consensus DNA-binding cell division cycle control	97.38
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	97.38
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	97.37
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.33
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.33
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.32
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	97.27
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.2
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.18
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.09
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.05
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	97.02
PRK14574	822	hmsH outer membrane protein; Provisional	96.97
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	96.97
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	96.89
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	96.88
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	96.81
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	96.78
PRK12370	553	invasion protein regulator; Provisional	96.73
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	96.69
PRK15359	144	type III secretion system chaperone protein SscB;	96.62
TIGR02552	135	LcrH_SycD type III secretion low calcium response	96.51
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	96.5
PRK11189	296	lipoprotein NlpI; Provisional	96.46
COG4783	484	Putative Zn-dependent protease, contains TPR repea	96.43
PRK15359	144	type III secretion system chaperone protein SscB;	96.41
KOG3941	406	consensus Intermediate in Toll signal transduction	96.34
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	96.26
KOG2003	840	consensus TPR repeat-containing protein [General f	96.26
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	96.22
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	96.21
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.07
PRK10370	198	formate-dependent nitrite reductase complex subuni	96.02
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	96.01
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	96.01
TIGR02552	135	LcrH_SycD type III secretion low calcium response	95.98
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	95.95
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	95.92
KOG2047	835	consensus mRNA splicing factor [RNA processing and	95.9
COG4783	484	Putative Zn-dependent protease, contains TPR repea	95.78
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.77
KOG0547	606	consensus Translocase of outer mitochondrial membr	95.76
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	95.72
PRK11189	296	lipoprotein NlpI; Provisional	95.67
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	95.64
KOG2076	895	consensus RNA polymerase III transcription factor	95.62
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	95.53
KOG0547	606	consensus Translocase of outer mitochondrial membr	95.53
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	95.46
KOG2003	840	consensus TPR repeat-containing protein [General f	95.44
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	95.42
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	95.27
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	95.27
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	95.25
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	95.23
KOG1129	478	consensus TPR repeat-containing protein [General f	95.16
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.1
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.01
KOG1915	677	consensus Cell cycle control protein (crooked neck	94.97
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	94.82
KOG2047	835	consensus mRNA splicing factor [RNA processing and	94.77
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.73
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	94.73
PRK10370	198	formate-dependent nitrite reductase complex subuni	94.55
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	94.53
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	94.52
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	94.44
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	94.37
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	94.27
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	94.19
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	94.0
KOG1915	677	consensus Cell cycle control protein (crooked neck	93.87
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	93.69
PF03704	146	BTAD: Bacterial transcriptional activator domain;	93.59
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	93.39
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	93.33
KOG3941	406	consensus Intermediate in Toll signal transduction	93.22
KOG2076	895	consensus RNA polymerase III transcription factor	93.19
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	93.15
KOG0495	913	consensus HAT repeat protein [RNA processing and m	92.71
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	92.7
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	92.61
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	92.56
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	92.54
KOG4340	459	consensus Uncharacterized conserved protein [Funct	92.49
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	92.39
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.31
KOG4570	418	consensus Uncharacterized conserved protein [Funct	92.1
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	91.84
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	91.65
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	91.62
PF13371	73	TPR_9: Tetratricopeptide repeat	91.57
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	91.48
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	91.2
COG3629	280	DnrI DNA-binding transcriptional activator of the	91.18
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	91.02
PRK10803	263	tol-pal system protein YbgF; Provisional	90.44
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	90.42
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	90.35
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	90.11
KOG3616	1636	consensus Selective LIM binding factor [Transcript	89.8
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	89.77
KOG3060	289	consensus Uncharacterized conserved protein [Funct	89.72
KOG0495	913	consensus HAT repeat protein [RNA processing and m	89.66
KOG4340	459	consensus Uncharacterized conserved protein [Funct	89.56
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	89.47
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	89.41
KOG1125	579	consensus TPR repeat-containing protein [General f	88.63
PF13762	145	MNE1: Mitochondrial splicing apparatus component	88.58
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	88.56
KOG0553	304	consensus TPR repeat-containing protein [General f	88.51
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	87.84
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	87.61
PF13428	44	TPR_14: Tetratricopeptide repeat	87.24
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	86.42
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	86.27
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	86.11
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.79
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.67
KOG3785	557	consensus Uncharacterized conserved protein [Funct	85.58
PF13428	44	TPR_14: Tetratricopeptide repeat	85.21
KOG3616	1636	consensus Selective LIM binding factor [Transcript	85.19
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	85.16
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	85.13
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	84.92
KOG1125	579	consensus TPR repeat-containing protein [General f	84.75
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	84.71
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	84.58
PRK10803	263	tol-pal system protein YbgF; Provisional	84.57
smart00299	140	CLH Clathrin heavy chain repeat homology.	84.2
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	83.84
KOG4570	418	consensus Uncharacterized conserved protein [Funct	83.47
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	83.28
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	83.17
KOG1128	777	consensus Uncharacterized conserved protein, conta	83.11
PF12688	120	TPR_5: Tetratrico peptide repeat	83.06
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	82.37
smart00299	140	CLH Clathrin heavy chain repeat homology.	82.34
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	82.3
PRK14720	906	transcript cleavage factor/unknown domain fusion p	82.12
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	81.91
PRK14720	906	transcript cleavage factor/unknown domain fusion p	81.9
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	81.63
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	81.53
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	80.58
PF13371	73	TPR_9: Tetratricopeptide repeat	80.42
PF12688	120	TPR_5: Tetratrico peptide repeat	80.31

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.3e-40  Score=301.51  Aligned_cols=233  Identities=19%  Similarity=0.204  Sum_probs=181.9

Q ss_pred             ccchhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHH
Q 041786           28 DIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHV  107 (260)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  107 (260)
                      +..+++.++..+.+++....|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.|+.||..+|+.||.
T Consensus       471 D~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~  550 (1060)
T PLN03218        471 DCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALIS  550 (1060)
T ss_pred             CHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            44556778888888888888888888888888888888888888888888888888888888888888888888888885


Q ss_pred             HH-------------HHHHh--CCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHH---------------
Q 041786          108 CF-------------VRMIR--KGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVR---------------  157 (260)
Q Consensus       108 ~~-------------~~m~~--~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---------------  157 (260)
                      ++             ++|..  .|+.||..+|++||.+|+++|++++|.++|++|.+.|+.|+..               
T Consensus       551 a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~  630 (1060)
T PLN03218        551 ACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDW  630 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCH
Confidence            54             55654  5788888888888888888888888888888888888766654               


Q ss_pred             -HHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-------------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          158 -SAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-------------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       158 -~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                       +|.++|++|.+.|+.||..+|+++|++|++.|+             .|+.||..+|+.||.+|++.|++++|.++|++|
T Consensus       631 deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM  710 (1060)
T PLN03218        631 DFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDI  710 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence             778888888888888888888888888888777             566777777777777777777777777777777


Q ss_pred             HHCCCCcCCCc-----------ccHHHHHHHHHHHHhcCCCCCCCCCC
Q 041786          224 VEDGHKLFPSL-----------GQFDDAFCFFSEMQIKTHPPNRPVYA  260 (260)
Q Consensus       224 ~~~~~~p~~~~-----------g~~~~a~~~~~~m~~~g~~p~~~ty~  260 (260)
                      .+.|+.|+..+           |++++|.++|++|...|+.||..||+
T Consensus       711 ~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~  758 (1060)
T PLN03218        711 KSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYS  758 (1060)
T ss_pred             HHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            77777766655           67777777777777677777766653

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.4e-39  Score=297.42  Aligned_cols=245  Identities=16%  Similarity=0.158  Sum_probs=228.0

Q ss_pred             hhhHHHHHHHH----cccchhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 041786           16 AAVNHIANIVR----HDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCT   91 (260)
Q Consensus        16 ~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   91 (260)
                      .+..-+..|.+    ++..+++.++..+.+.+...+|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.
T Consensus       490 ~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~  569 (1060)
T PLN03218        490 AMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMK  569 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            34444555554    45666788999999999999999999999999999999999999999999999999999999998


Q ss_pred             h--cCCCCcHHHHHHHHHHH-------------HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCH
Q 041786           92 A--FNCQQCVLLYNSLHVCF-------------VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPV  156 (260)
Q Consensus        92 ~--~~~~~~~~~~~~li~~~-------------~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~  156 (260)
                      .  .|+.||..+|+++|.++             +.|.+.|+.|+..+||++|.+|++.|++++|.++|++|.+.|+.|+.
T Consensus       570 ~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~  649 (1060)
T PLN03218        570 AETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDE  649 (1060)
T ss_pred             HhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Confidence            6  68999999999999665             78999999999999999999999999999999999999999999996


Q ss_pred             H----------------HHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-------------CCCCcchHHHHHHHHhh
Q 041786          157 R----------------SAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-------------LGLCADVNTNKISIPAV  207 (260)
Q Consensus       157 ~----------------~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-------------~~~~~~~~t~~~li~~~  207 (260)
                      .                +|.++|..|.+.|+.||..+|++||.+|++.|+             .++.||..+||.||.+|
T Consensus       650 ~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy  729 (1060)
T PLN03218        650 VFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITAL  729 (1060)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            4                899999999999999999999999999999999             68899999999999999


Q ss_pred             hhhccHHHHHHHHHHHHHCCCCcCCCc-----------ccHHHHHHHHHHHHhcCCCCCCCCCC
Q 041786          208 SKEFMIDEAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIKTHPPNRPVYA  260 (260)
Q Consensus       208 ~~~g~~~~a~~~~~~m~~~~~~p~~~~-----------g~~~~a~~~~~~m~~~g~~p~~~ty~  260 (260)
                      ++.|++++|.++|++|.+.|+.|+..+           |++++|.++|++|.+.|+.||..+|+
T Consensus       730 ~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tyn  793 (1060)
T PLN03218        730 CEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCR  793 (1060)
T ss_pred             HHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            999999999999999999999999888           99999999999999999999998874

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

Probab=100.00  E-value=1.9e-36  Score=272.43  Aligned_cols=230  Identities=14%  Similarity=0.120  Sum_probs=175.8

Q ss_pred             cccchhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHH
Q 041786           27 HDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLH  106 (260)
Q Consensus        27 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  106 (260)
                      ++..+.+.+...+.+++....|.++|++|.+    ||..+||+||.+|++.|++++|+++|++|.+.|+.|+..||+.++
T Consensus       156 ~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll  231 (697)
T PLN03081        156 PDQYMMNRVLLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVML  231 (697)
T ss_pred             cchHHHHHHHHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHH
Confidence            4455567777888888888888888888864    688889999999999999999999999998888888888887777


Q ss_pred             HHH-------------HHHHhCCC-------------------------------CCCHhhHHHHHHHHhccCCHHHHHH
Q 041786          107 VCF-------------VRMIRKGF-------------------------------VPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus       107 ~~~-------------~~m~~~g~-------------------------------~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      .++             ..+.+.|+                               .+|.++||+||.+|++.|++++|.+
T Consensus       232 ~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~  311 (697)
T PLN03081        232 RASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALC  311 (697)
T ss_pred             HHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHH
Confidence            332             22333343                               4555666666666666666666666


Q ss_pred             HHHHHHhCCCCCCHH----------------HHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC---------CCCCcch
Q 041786          143 FLQELSDKGFNPPVR----------------SAKQMVNKMIKQGSVPDLETFNSLIETICKSGE---------LGLCADV  197 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~----------------~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~---------~~~~~~~  197 (260)
                      +|++|.+.|+.|+..                .|.+++..|.+.|+.||..+|++||++|++.|+         .-..||+
T Consensus       312 lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~  391 (697)
T PLN03081        312 LYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNL  391 (697)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCe
Confidence            666666666666644                566677777777777777777777777777776         3346888


Q ss_pred             HHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-----------ccHHHHHHHHHHHHh-cCCCCCCCCCC
Q 041786          198 NTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQI-KTHPPNRPVYA  260 (260)
Q Consensus       198 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-----------g~~~~a~~~~~~m~~-~g~~p~~~ty~  260 (260)
                      .+||.||.+|++.|+.++|.++|++|.+.|+.|+..|           |.+++|.++|++|.+ .|+.|+..+|+
T Consensus       392 ~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~  466 (697)
T PLN03081        392 ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYA  466 (697)
T ss_pred             eeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchH
Confidence            9999999999999999999999999999999998888           889999999999976 49999988885

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

Probab=100.00  E-value=4.6e-35  Score=263.48  Aligned_cols=229  Identities=17%  Similarity=0.220  Sum_probs=197.5

Q ss_pred             HHHHHHcccchhHHHHHhhhhhcchHHHHHHHHhcccCCC-----------------------------------CCCHH
Q 041786           21 IANIVRHDIYAERTLNRLNLTLISELSMWKTIELMKPDSL-----------------------------------SVFPQ   65 (260)
Q Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~-----------------------------------~~~~~   65 (260)
                      +.+|..++..+.+.+...+.+.+...+|+++|++|.+.|+                                   .||..
T Consensus       181 f~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~  260 (697)
T PLN03081        181 FDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTF  260 (697)
T ss_pred             HhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccce
Confidence            3344445666667777777777766677777777755544                                   55566


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH-------------HHHHhCCCCCCHhhHHHHHHHHh
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF-------------VRMIRKGFVPDKRTHTILVNAWC  132 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-------------~~m~~~g~~p~~~~~~~li~~~~  132 (260)
                      +||+||++|++.|++++|.++|++|.+    +|..+||++|.++             ++|.+.|+.||..||+++|.+|+
T Consensus       261 ~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~  336 (697)
T PLN03081        261 VSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFS  336 (697)
T ss_pred             eHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            678889999999999999999999974    7899999999666             78999999999999999999999


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCH----------------HHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC------
Q 041786          133 SSGKMREAQEFLQELSDKGFNPPV----------------RSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE------  190 (260)
Q Consensus       133 ~~g~~~~a~~~~~~m~~~~~~~~~----------------~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~------  190 (260)
                      +.|++++|.+++.+|.+.|+.|+.                ..|.++|+.|.    .||..+||+||.+|++.|+      
T Consensus       337 ~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~  412 (697)
T PLN03081        337 RLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVE  412 (697)
T ss_pred             hccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHH
Confidence            999999999999999999988775                39999999985    4899999999999999998      


Q ss_pred             -------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHH-CCCCcCCCc-----------ccHHHHHHHHHHHHhcC
Q 041786          191 -------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVE-DGHKLFPSL-----------GQFDDAFCFFSEMQIKT  251 (260)
Q Consensus       191 -------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~-~~~~p~~~~-----------g~~~~a~~~~~~m~~~g  251 (260)
                             .|+.||..||+.+|.+|++.|.+++|.++|++|.+ .|+.|+..+           |++++|.+++++|   +
T Consensus       413 lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~  489 (697)
T PLN03081        413 MFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---P  489 (697)
T ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---C
Confidence                   89999999999999999999999999999999986 699999877           9999999999876   6


Q ss_pred             CCCCCCCCC
Q 041786          252 HPPNRPVYA  260 (260)
Q Consensus       252 ~~p~~~ty~  260 (260)
                      +.||..+|+
T Consensus       490 ~~p~~~~~~  498 (697)
T PLN03081        490 FKPTVNMWA  498 (697)
T ss_pred             CCCCHHHHH
Confidence            899988774

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.9e-34  Score=264.91  Aligned_cols=240  Identities=16%  Similarity=0.105  Sum_probs=160.1

Q ss_pred             HHHHHHHcccchhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcH
Q 041786           20 HIANIVRHDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCV   99 (260)
Q Consensus        20 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~   99 (260)
                      -+.+|.+++..+.++++..+.+.+...+|+++|++|.+.|+.||..||+.+|.+|++.|+++.|.+++..|.+.|+.||.
T Consensus       244 lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~  323 (857)
T PLN03077        244 VFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDV  323 (857)
T ss_pred             HHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccch
Confidence            34444455666667777777777777777777777777777777777777777777777777777777777666666666


Q ss_pred             HHHHHHHHHH---------HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHH-------------
Q 041786          100 LLYNSLHVCF---------VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVR-------------  157 (260)
Q Consensus       100 ~~~~~li~~~---------~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------  157 (260)
                      .+||+|+.++         .++.+.-..||..+||++|.+|++.|++++|.++|++|.+.|+.|+..             
T Consensus       324 ~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g  403 (857)
T PLN03077        324 SVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLG  403 (857)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccc
Confidence            6666666444         112222223344444444444444444444444444444444433321             


Q ss_pred             ---------------------------------------------------------------------HHHHHHHHHHH
Q 041786          158 ---------------------------------------------------------------------SAKQMVNKMIK  168 (260)
Q Consensus       158 ---------------------------------------------------------------------~a~~l~~~m~~  168 (260)
                                                                                           +|..+|++|.+
T Consensus       404 ~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~  483 (857)
T PLN03077        404 DLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL  483 (857)
T ss_pred             hHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence                                                                                 45555555543


Q ss_pred             CCCCCChhchHHHHHHHHhcCC-------------------------------------------CCCCcchHHHHHHHH
Q 041786          169 QGSVPDLETFNSLIETICKSGE-------------------------------------------LGLCADVNTNKISIP  205 (260)
Q Consensus       169 ~g~~p~~~~~~~li~~~~~~~~-------------------------------------------~~~~~~~~t~~~li~  205 (260)
                       ++.||..||+++|.+|++.|+                                           ....||+.+||.+|.
T Consensus       484 -~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~  562 (857)
T PLN03077        484 -TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLT  562 (857)
T ss_pred             -CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHH
Confidence             355666666555555554443                                           123778899999999


Q ss_pred             hhhhhccHHHHHHHHHHHHHCCCCcCCCc-----------ccHHHHHHHHHHHH-hcCCCCCCCCCC
Q 041786          206 AVSKEFMIDEAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQ-IKTHPPNRPVYA  260 (260)
Q Consensus       206 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-----------g~~~~a~~~~~~m~-~~g~~p~~~ty~  260 (260)
                      +|++.|+.++|.++|++|.+.|+.|+..|           |.+++|.++|++|. ..|+.||..||+
T Consensus       563 ~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~  629 (857)
T PLN03077        563 GYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYA  629 (857)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHH
Confidence            99999999999999999999999999988           99999999999999 569999988874

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=5.6e-34  Score=261.80  Aligned_cols=229  Identities=15%  Similarity=0.195  Sum_probs=181.8

Q ss_pred             ccchhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHH
Q 041786           28 DIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHV  107 (260)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  107 (260)
                      +....+.+...+.+++....|+++|++|.+    ||..+||+||.+|++.|++++|+++|++|...|+.||..||+.++.
T Consensus       120 ~~~~~n~li~~~~~~g~~~~A~~~f~~m~~----~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~  195 (857)
T PLN03077        120 GVRLGNAMLSMFVRFGELVHAWYVFGKMPE----RDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLR  195 (857)
T ss_pred             CchHHHHHHHHHHhCCChHHHHHHHhcCCC----CCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHH
Confidence            345567888888888888899999999964    6888999999999999999999999999999999999999999985


Q ss_pred             HH-------------HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC------------CCHHHHHHH
Q 041786          108 CF-------------VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFN------------PPVRSAKQM  162 (260)
Q Consensus       108 ~~-------------~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~------------~~~~~a~~l  162 (260)
                      +.             ..|.+.|+.||..+||+||.+|+++|+++.|.++|++|...+..            ....+|.++
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~l  275 (857)
T PLN03077        196 TCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLEL  275 (857)
T ss_pred             HhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHH
Confidence            43             56777888888888888888888888888888888888765442            233388888


Q ss_pred             HHHHHHCCCCCChhchHHHHHHHHhcCC-------------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCC
Q 041786          163 VNKMIKQGSVPDLETFNSLIETICKSGE-------------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHK  229 (260)
Q Consensus       163 ~~~m~~~g~~p~~~~~~~li~~~~~~~~-------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  229 (260)
                      |.+|.+.|+.||..||+++|.+|++.|+             .|+.||..+||.||.+|++.|++++|.++|++|...++.
T Consensus       276 f~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~  355 (857)
T PLN03077        276 FFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAV  355 (857)
T ss_pred             HHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCee
Confidence            8888888888888888888888888877             677778888888888888888888888888777654444


Q ss_pred             cCCCc-------ccHHHHHHHHHHHHhcCCCCCCCCCC
Q 041786          230 LFPSL-------GQFDDAFCFFSEMQIKTHPPNRPVYA  260 (260)
Q Consensus       230 p~~~~-------g~~~~a~~~~~~m~~~g~~p~~~ty~  260 (260)
                      .++.+       |++++|+++|++|...|+.||..||+
T Consensus       356 s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~  393 (857)
T PLN03077        356 SWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIA  393 (857)
T ss_pred             eHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHH
Confidence            44333       77777777777777777777777763

>PF13041 PPR_2: PPR repeat family

Probab=99.55  E-value=1.3e-14  Score=85.26  Aligned_cols=50  Identities=38%  Similarity=0.740  Sum_probs=46.4

Q ss_pred             CCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHh
Q 041786          119 PDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICK  187 (260)
Q Consensus       119 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~  187 (260)
                      ||..+||++|++|++.|++++|.++|++|.+                   .|+.||..||+++|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~-------------------~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKK-------------------RGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHH-------------------cCCCCCHHHHHHHHHHHcC
Confidence            8999999999999999999999999999884                   5689999999999999975

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.51  E-value=5.1e-12  Score=102.78  Aligned_cols=113  Identities=21%  Similarity=0.352  Sum_probs=88.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHH--H-------HHHHhCCCCCCHhhHHHHHHHHhc
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVC--F-------VRMIRKGFVPDKRTHTILVNAWCS  133 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~--~-------~~m~~~g~~p~~~~~~~li~~~~~  133 (260)
                      +..+|.+||.+.|+....+.|.+++++-.....+.+..+||.+|.+  |       .+|....++||..|||+++...++
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~K~Lv~EMisqkm~Pnl~TfNalL~c~ak  285 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVGKKLVAEMISQKMTPNLFTFNALLSCAAK  285 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhccHHHHHHHHHhhcCCchHhHHHHHHHHHH
Confidence            5679999999999999999999999999998889999999999933  3       789999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC
Q 041786          134 SGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE  190 (260)
Q Consensus       134 ~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~  190 (260)
                      .|+++.|..-               +.+++.+|++-|+.|...+|..+|.-+++-++
T Consensus       286 fg~F~~ar~a---------------alqil~EmKeiGVePsLsSyh~iik~f~re~d  327 (625)
T KOG4422|consen  286 FGKFEDARKA---------------ALQILGEMKEIGVEPSLSSYHLIIKNFKRESD  327 (625)
T ss_pred             hcchHHHHHH---------------HHHHHHHHHHhCCCcchhhHHHHHHHhcccCC
Confidence            9998876432               33344444445555555555555555554444

>PF13041 PPR_2: PPR repeat family

Probab=99.49  E-value=1.2e-13  Score=81.05  Aligned_cols=45  Identities=20%  Similarity=0.237  Sum_probs=36.3

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHH
Q 041786           62 VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLH  106 (260)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  106 (260)
                      ||+.+||+||++|++.|++++|.++|++|.+.|++||..||+++|
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li   45 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILI   45 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            899999999999999999999999999988765544444444433

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.44  E-value=3.7e-11  Score=101.64  Aligned_cols=241  Identities=12%  Similarity=0.029  Sum_probs=167.7

Q ss_pred             hhhhhHHHHHHHHcccc---hhHHHHHhhhhhcchHHHHHHHHhcccCCCCCC---HHHHHHHHHHHHhcCChHHHHHHH
Q 041786           14 YFAAVNHIANIVRHDIY---AERTLNRLNLTLISELSMWKTIELMKPDSLSVF---PQTLSLIIEEFGKHGLIDNAVEVF   87 (260)
Q Consensus        14 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~~~~~~~~~a~~~~   87 (260)
                      +..++..+.++++.+..   ....+-.++...+...+|.++++.+.+.+..++   ...+..+...|.+.|++++|..+|
T Consensus        51 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~  130 (389)
T PRK11788         51 PDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELF  130 (389)
T ss_pred             hHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            33455555555555432   234455556666677789999988876542222   356788888999999999999999


Q ss_pred             HHhhhcCCCCcHHHHHHHHHHH-------------HHHHhCCCCCC----HhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786           88 NKCTAFNCQQCVLLYNSLHVCF-------------VRMIRKGFVPD----KRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus        88 ~~m~~~~~~~~~~~~~~li~~~-------------~~m~~~g~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      +++.+.. +.+..+++.+..++             +.+.+.+..+.    ...|..+...+.+.|++++|...|+++.+.
T Consensus       131 ~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  209 (389)
T PRK11788        131 LQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAA  209 (389)
T ss_pred             HHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhH
Confidence            9988652 23456666666443             33444332222    123456677788899999999999988764


Q ss_pred             CC---------------CCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCCcchHHHHHHH
Q 041786          151 GF---------------NPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLCADVNTNKISI  204 (260)
Q Consensus       151 ~~---------------~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~~~~t~~~li  204 (260)
                      .-               ..+..+|.++|..+.+.+......+++.+..+|.+.|+           ....|+...+..+.
T Consensus       210 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la  289 (389)
T PRK11788        210 DPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALA  289 (389)
T ss_pred             CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHH
Confidence            31               11222888888888765433335678889999999998           34467777778899


Q ss_pred             HhhhhhccHHHHHHHHHHHHHCCCCcCCCc--------------ccHHHHHHHHHHHHhcCCCCCCC
Q 041786          205 PAVSKEFMIDEAFRLLCNLVEDGHKLFPSL--------------GQFDDAFCFFSEMQIKTHPPNRP  257 (260)
Q Consensus       205 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~--------------g~~~~a~~~~~~m~~~g~~p~~~  257 (260)
                      ..+.+.|++++|..+|+++.+.  .|+...              |+.++++.+|++|.+++++|++.
T Consensus       290 ~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        290 QLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            9999999999999999988765  354433              47889999999999998888864

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

Probab=99.42  E-value=3.6e-12  Score=111.53  Aligned_cols=206  Identities=18%  Similarity=0.160  Sum_probs=150.5

Q ss_pred             HHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH---HHHHhCCCCCCHhhHHH
Q 041786           50 KTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF---VRMIRKGFVPDKRTHTI  126 (260)
Q Consensus        50 ~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~---~~m~~~g~~p~~~~~~~  126 (260)
                      .++..+...|+.|+..||..+|..||..|+++.|- +|..|+-.....+...|+.++.++   ..|... -.|...||+.
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enp-kep~aDtyt~   88 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENP-KEPLADTYTN   88 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCC-CCCchhHHHH
Confidence            46677888999999999999999999999999999 999999888888899999999765   223322 3789999999


Q ss_pred             HHHHHhccCCHHH---HHHHHHHHH----hCCC-----------------CCCHH------HHHHHHHHHHHCC-CCCCh
Q 041786          127 LVNAWCSSGKMRE---AQEFLQELS----DKGF-----------------NPPVR------SAKQMVNKMIKQG-SVPDL  175 (260)
Q Consensus       127 li~~~~~~g~~~~---a~~~~~~m~----~~~~-----------------~~~~~------~a~~l~~~m~~~g-~~p~~  175 (260)
                      |+.+|...||+..   .++.+....    ..|+                 .|+..      .-..+.+...+-+ ..|..
T Consensus        89 Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvs  168 (1088)
T KOG4318|consen   89 LLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVS  168 (1088)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcc
Confidence            9999999998655   333222221    2232                 22222      1111122222221 01211


Q ss_pred             h-----------------chHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc----
Q 041786          176 E-----------------TFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL----  234 (260)
Q Consensus       176 ~-----------------~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~----  234 (260)
                      .                 -+-.+++. |+.. .+ .|+..+|..++..-.-+|+++.|..++.+|++.|.....+-    
T Consensus       169 a~~~p~~vfLrqnv~~ntpvekLl~~-cksl-~e-~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpL  245 (1088)
T KOG4318|consen  169 AWNAPFQVFLRQNVVDNTPVEKLLNM-CKSL-VE-APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPL  245 (1088)
T ss_pred             cccchHHHHHHHhccCCchHHHHHHH-HHHh-hc-CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhh
Confidence            1                 12222222 2222 23 79999999999999999999999999999999999888883    


Q ss_pred             ----ccHHHHHHHHHHHHhcCCCCCCCCCC
Q 041786          235 ----GQFDDAFCFFSEMQIKTHPPNRPVYA  260 (260)
Q Consensus       235 ----g~~~~a~~~~~~m~~~g~~p~~~ty~  260 (260)
                          ++..-+..+++-|...|+.|+.+||+
T Consensus       246 l~g~~~~q~~e~vlrgmqe~gv~p~seT~a  275 (1088)
T KOG4318|consen  246 LLGINAAQVFEFVLRGMQEKGVQPGSETQA  275 (1088)
T ss_pred             hhcCccchHHHHHHHHHHHhcCCCCcchhH
Confidence                88889999999999999999999974

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.32  E-value=1.7e-09  Score=88.36  Aligned_cols=118  Identities=8%  Similarity=0.096  Sum_probs=67.7

Q ss_pred             HcccchhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHH
Q 041786           26 RHDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSL  105 (260)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  105 (260)
                      .+-..+...+++...++.+...|.+++.+-.....+.+..+||.+|.+-+=    ....+++.+|....+.||..|||++
T Consensus       204 PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~----~~~K~Lv~EMisqkm~Pnl~TfNal  279 (625)
T KOG4422|consen  204 PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----SVGKKLVAEMISQKMTPNLFTFNAL  279 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----hccHHHHHHHHHhhcCCchHhHHHH
Confidence            344444555555555666666666666666555556666666666644321    1115566666666666666666666


Q ss_pred             HHHH-----------------HHHHhCCCCCCHhhHHHHHHHHhccCCHHH-HHHHHHHH
Q 041786          106 HVCF-----------------VRMIRKGFVPDKRTHTILVNAWCSSGKMRE-AQEFLQEL  147 (260)
Q Consensus       106 i~~~-----------------~~m~~~g~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~m  147 (260)
                      +.|.                 .+|++-|+.|...+|..+|.-+++.++..+ |..++.++
T Consensus       280 L~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI  339 (625)
T KOG4422|consen  280 LSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDI  339 (625)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHH
Confidence            6554                 556666666666666666666666655533 33333333

>PF12854 PPR_1: PPR repeat

Probab=99.21  E-value=1.9e-11  Score=64.99  Aligned_cols=34  Identities=32%  Similarity=0.696  Sum_probs=32.2

Q ss_pred             CCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 041786          115 KGFVPDKRTHTILVNAWCSSGKMREAQEFLQELS  148 (260)
Q Consensus       115 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  148 (260)
                      .|+.||..|||+||++||+.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            4899999999999999999999999999999984

>PF12854 PPR_1: PPR repeat

Probab=99.16  E-value=5.8e-11  Score=63.12  Aligned_cols=34  Identities=24%  Similarity=0.355  Sum_probs=32.5

Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 041786           58 DSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCT   91 (260)
Q Consensus        58 ~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   91 (260)
                      +|+.||..+||+||++|++.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            4899999999999999999999999999999985

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.09  E-value=1.7e-08  Score=85.41  Aligned_cols=198  Identities=13%  Similarity=0.101  Sum_probs=148.3

Q ss_pred             hHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcH----HHHHHHHH
Q 041786           32 ERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCV----LLYNSLHV  107 (260)
Q Consensus        32 ~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~li~  107 (260)
                      ...+...+...+....|.++|+.+.+.. ..+..+++.++..|.+.|++++|.+.|+.+.+.+-.+..    ..+..+..
T Consensus       110 ~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~  188 (389)
T PRK11788        110 LQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQ  188 (389)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHH
Confidence            4555666777778889999999987652 346788999999999999999999999999876533322    12333322


Q ss_pred             HH-------------HHHHhCCCCCC-HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC----------------CCHH
Q 041786          108 CF-------------VRMIRKGFVPD-KRTHTILVNAWCSSGKMREAQEFLQELSDKGFN----------------PPVR  157 (260)
Q Consensus       108 ~~-------------~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~----------------~~~~  157 (260)
                      .+             +++.+.  .|+ ...+..+...|.+.|++++|.++|+++...+-.                .+..
T Consensus       189 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~  266 (389)
T PRK11788        189 QALARGDLDAARALLKKALAA--DPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEA  266 (389)
T ss_pred             HHHhCCCHHHHHHHHHHHHhH--CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHH
Confidence            22             333332  343 557777889999999999999999998764321                2233


Q ss_pred             HHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCCcchHHHHHHHHhhhh---hccHHHHHHHHHHH
Q 041786          158 SAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLCADVNTNKISIPAVSK---EFMIDEAFRLLCNL  223 (260)
Q Consensus       158 ~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~~~~t~~~li~~~~~---~g~~~~a~~~~~~m  223 (260)
                      +|...++.+.+.  .|+...+..+...+.+.|+           ....|+..+++.++..+..   .|+.+++..+|++|
T Consensus       267 ~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~  344 (389)
T PRK11788        267 EGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDL  344 (389)
T ss_pred             HHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHHH
Confidence            788888888776  4677777889999999998           4557999999999988775   56999999999999


Q ss_pred             HHCCCCcCCCc
Q 041786          224 VEDGHKLFPSL  234 (260)
Q Consensus       224 ~~~~~~p~~~~  234 (260)
                      .+.++.|++.-
T Consensus       345 ~~~~~~~~p~~  355 (389)
T PRK11788        345 VGEQLKRKPRY  355 (389)
T ss_pred             HHHHHhCCCCE
Confidence            99888887754

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

Probab=99.00  E-value=2.9e-07  Score=85.52  Aligned_cols=204  Identities=11%  Similarity=0.018  Sum_probs=114.5

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH---------
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF---------  109 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~---------  109 (260)
                      +...+...+|.+.++.+.+.. +.+...|..+...+.+.|++++|.++++.+.+.+ +.+...+..+..++         
T Consensus       645 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A  722 (899)
T TIGR02917       645 YAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAA  722 (899)
T ss_pred             HHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHH
Confidence            333444445555555554332 1234555556666666666666666666655543 22333333333222         


Q ss_pred             ----HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCC---------------CCCHHHHHHHHHHHHHCC
Q 041786          110 ----VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGF---------------NPPVRSAKQMVNKMIKQG  170 (260)
Q Consensus       110 ----~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~---------------~~~~~~a~~l~~~m~~~g  170 (260)
                          +.+.+  ..|+..++..+..++.+.|+.++|.+.++.+.+...               ..+..+|..+|+.+.+..
T Consensus       723 ~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~  800 (899)
T TIGR02917       723 IQAYRKALK--RAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA  800 (899)
T ss_pred             HHHHHHHHh--hCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC
Confidence                22222  234445566666677777777777777766654321               122236777777776654


Q ss_pred             CCCChhchHHHHHHHHhcCC----------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-----
Q 041786          171 SVPDLETFNSLIETICKSGE----------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-----  234 (260)
Q Consensus       171 ~~p~~~~~~~li~~~~~~~~----------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-----  234 (260)
                       +.+...++.+...+.+.|+          ....| +..++..+...+...|++++|..+|+++.+.+.. ++.+     
T Consensus       801 -p~~~~~~~~l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~  878 (899)
T TIGR02917       801 -PDNAVVLNNLAWLYLELKDPRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLA  878 (899)
T ss_pred             -CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHH
Confidence             3456667777777776665          12222 3445556666777778888888888877775532 2222     


Q ss_pred             ------ccHHHHHHHHHHHH
Q 041786          235 ------GQFDDAFCFFSEMQ  248 (260)
Q Consensus       235 ------g~~~~a~~~~~~m~  248 (260)
                            |+.++|..++++|+
T Consensus       879 ~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       879 LALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHh
Confidence                  78888888887775

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=98.97  E-value=4.8e-07  Score=84.07  Aligned_cols=31  Identities=13%  Similarity=-0.047  Sum_probs=14.7

Q ss_pred             cchHHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          195 ADVNTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       195 ~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                      |+..++..+...+.+.|+.++|...++.+.+
T Consensus       734 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  764 (899)
T TIGR02917       734 PSSQNAIKLHRALLASGNTAEAVKTLEAWLK  764 (899)
T ss_pred             CCchHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3334444444445555555555555544443

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.66  E-value=5.3e-08  Score=52.03  Aligned_cols=34  Identities=29%  Similarity=0.686  Sum_probs=31.4

Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC
Q 041786          122 RTHTILVNAWCSSGKMREAQEFLQELSDKGFNPP  155 (260)
Q Consensus       122 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~  155 (260)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            4799999999999999999999999998887776

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=98.64  E-value=5.1e-08  Score=51.83  Aligned_cols=33  Identities=24%  Similarity=0.480  Sum_probs=31.0

Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCC
Q 041786          122 RTHTILVNAWCSSGKMREAQEFLQELSDKGFNP  154 (260)
Q Consensus       122 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  154 (260)
                      .+||++|.+|++.|+++.|.++|++|++.|+.|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            689999999999999999999999999888766

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.63  E-value=5.6e-08  Score=51.94  Aligned_cols=35  Identities=23%  Similarity=0.213  Sum_probs=32.8

Q ss_pred             HHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCC
Q 041786          198 NTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFP  232 (260)
Q Consensus       198 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  232 (260)
                      .+||++|.+|++.|++++|.++|++|.+.|+.|+.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37999999999999999999999999999999974

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=98.63  E-value=5.6e-08  Score=51.67  Aligned_cols=34  Identities=29%  Similarity=0.264  Sum_probs=32.3

Q ss_pred             hHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCc
Q 041786          197 VNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKL  230 (260)
Q Consensus       197 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  230 (260)
                      +.||+.+|.+|++.|+++.|.++|++|.+.|++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            3689999999999999999999999999999987

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.50  E-value=1.8e-07  Score=48.49  Aligned_cols=31  Identities=29%  Similarity=0.647  Sum_probs=28.9

Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHhCCC
Q 041786          122 RTHTILVNAWCSSGKMREAQEFLQELSDKGF  152 (260)
Q Consensus       122 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  152 (260)
                      ++||++|++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            5899999999999999999999999998764

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.

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.46  E-value=0.00021  Score=64.72  Aligned_cols=212  Identities=11%  Similarity=0.034  Sum_probs=135.3

Q ss_pred             hHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH--
Q 041786           32 ERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF--  109 (260)
Q Consensus        32 ~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--  109 (260)
                      ...+-..+...+....|.+.++...+.. +.+...+..+...+.+.|+.++|...++.+....-.+.. .+..+....  
T Consensus       113 ~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~-a~~~~~~l~~~  190 (656)
T PRK15174        113 VLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGD-MIATCLSFLNK  190 (656)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHc
Confidence            3444445556666668888888876542 224667778888888889999998888877654322222 222221111  


Q ss_pred             ----------HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHH---------------------H
Q 041786          110 ----------VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVR---------------------S  158 (260)
Q Consensus       110 ----------~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---------------------~  158 (260)
                                +.+.+....++...+..+..++.+.|++++|.+.|++.....  |+..                     .
T Consensus       191 g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~--p~~~~~~~~Lg~~l~~~G~~~eA~~~  268 (656)
T PRK15174        191 SRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG--LDGAALRRSLGLAYYQSGRSREAKLQ  268 (656)
T ss_pred             CCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHcCCchhhHHH
Confidence                      233332222334445556677888899999999888876543  2211                     2


Q ss_pred             HHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCCcc-hHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          159 AKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLCAD-VNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       159 a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      |...|+...+.. +.+...+..+...+.+.|+           ....|+ ...+..+-..|.+.|++++|...|+++...
T Consensus       269 A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~  347 (656)
T PRK15174        269 AAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLARE  347 (656)
T ss_pred             HHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            677777766543 2245677788888888887           333444 445666778888899999999999888765


Q ss_pred             CCCcCCCc------------ccHHHHHHHHHHHHhc
Q 041786          227 GHKLFPSL------------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       227 ~~~p~~~~------------g~~~~a~~~~~~m~~~  250 (260)
                      +  |+...            |+.++|...|++..+.
T Consensus       348 ~--P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        348 K--GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             C--ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            3  33211            8889999888887654

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.38  E-value=3.9e-07  Score=47.18  Aligned_cols=31  Identities=23%  Similarity=0.183  Sum_probs=29.1

Q ss_pred             HHHHHHHHhhhhhccHHHHHHHHHHHHHCCC
Q 041786          198 NTNKISIPAVSKEFMIDEAFRLLCNLVEDGH  228 (260)
Q Consensus       198 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~  228 (260)
                      +|||.+|++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4899999999999999999999999999875

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.

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

Probab=98.26  E-value=1.7e-05  Score=70.79  Aligned_cols=79  Identities=20%  Similarity=0.306  Sum_probs=67.7

Q ss_pred             HHhCCC-CCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHH-------------HHHHHHHHHHHCCCCCChhc
Q 041786          112 MIRKGF-VPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVR-------------SAKQMVNKMIKQGSVPDLET  177 (260)
Q Consensus       112 m~~~g~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~a~~l~~~m~~~g~~p~~~~  177 (260)
                      |.+.+. .|++.+|.++++.-.-+|+++.|..++.+|++.|+.-+..             .+..+.+.|...|+.|+..|
T Consensus       194 ~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g~~~~q~~e~vlrgmqe~gv~p~seT  273 (1088)
T KOG4318|consen  194 MCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLGINAAQVFEFVLRGMQEKGVQPGSET  273 (1088)
T ss_pred             HHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhcCccchHHHHHHHHHHHhcCCCCcch
Confidence            334433 4999999999999999999999999999999999855443             88888999999999999999


Q ss_pred             hHHHHHHHHhcCC
Q 041786          178 FNSLIETICKSGE  190 (260)
Q Consensus       178 ~~~li~~~~~~~~  190 (260)
                      +...+-.+...|.
T Consensus       274 ~adyvip~l~N~~  286 (1088)
T KOG4318|consen  274 QADYVIPQLSNGQ  286 (1088)
T ss_pred             hHHHHHhhhcchh
Confidence            9988888887655

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.22  E-value=0.00055  Score=52.89  Aligned_cols=170  Identities=10%  Similarity=0.003  Sum_probs=106.5

Q ss_pred             HHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhC
Q 041786           36 NRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRK  115 (260)
Q Consensus        36 ~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~  115 (260)
                      -..+...+...+|.+.+++..+.. +.+...+..+...|...|++++|.+.|++..+..                     
T Consensus        38 a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~---------------------   95 (234)
T TIGR02521        38 ALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN---------------------   95 (234)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC---------------------
Confidence            334444555557777777765442 2245677777888888888888888888766532                     


Q ss_pred             CCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----
Q 041786          116 GFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----  190 (260)
Q Consensus       116 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----  190 (260)
                        +.+...+..+...+...|++++|.+.|++.......                  ......+..+-..+...|+     
T Consensus        96 --~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~------------------~~~~~~~~~l~~~~~~~g~~~~A~  155 (234)
T TIGR02521        96 --PNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLY------------------PQPARSLENAGLCALKAGDFDKAE  155 (234)
T ss_pred             --CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccc------------------ccchHHHHHHHHHHHHcCCHHHHH
Confidence              123445666667777778888888887776642111                  1112233334444444444     


Q ss_pred             ------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc------------ccHHHHHHHHHHHHh
Q 041786          191 ------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       191 ------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a~~~~~~m~~  249 (260)
                            ....| +...+..+...+...|++++|...+++....  .|+...            |+.++|..+++.+..
T Consensus       156 ~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       156 KYLTRALQIDPQRPESLLELAELYYLRGQYKDARAYLERYQQT--YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence                  11122 3456777778888899999999999888775  232211            788888888777654

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.

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.20  E-value=0.00078  Score=61.12  Aligned_cols=206  Identities=12%  Similarity=0.059  Sum_probs=142.4

Q ss_pred             HhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCc-HHHHHHHHHHH------
Q 041786           37 RLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQC-VLLYNSLHVCF------  109 (260)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~------  109 (260)
                      ......+....|.+.++.+.... +-+...|..+...+.+.|++++|...|++..+.  .|+ ...+..+..++      
T Consensus        84 ~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~  160 (656)
T PRK15174         84 ISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKE  160 (656)
T ss_pred             hhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCh
Confidence            33444566668999999987653 124567888889999999999999999998865  344 44555554443      


Q ss_pred             -------HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC----------------CCHHHHHHHHHHH
Q 041786          110 -------VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFN----------------PPVRSAKQMVNKM  166 (260)
Q Consensus       110 -------~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~----------------~~~~~a~~l~~~m  166 (260)
                             +.+...  .|+.......+..+.+.|++++|..+++.+.+..-.                .+..+|...++..
T Consensus       161 ~eA~~~~~~~~~~--~P~~~~a~~~~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~a  238 (656)
T PRK15174        161 LQAISLARTQAQE--VPPRGDMIATCLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESA  238 (656)
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence                   222222  233322222234578899999999999987665321                2233677777777


Q ss_pred             HHCCCCCChhchHHHHHHHHhcCCC---------------CCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCc
Q 041786          167 IKQGSVPDLETFNSLIETICKSGEL---------------GLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKL  230 (260)
Q Consensus       167 ~~~g~~p~~~~~~~li~~~~~~~~~---------------~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  230 (260)
                      .+.. +.+...+..+-..|...|+.               ...| +...+..+...+.+.|++++|...+++....  .|
T Consensus       239 l~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P  315 (656)
T PRK15174        239 LARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HP  315 (656)
T ss_pred             HhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CC
Confidence            7654 23566777788888888862               2335 3567888889999999999999999998875  35


Q ss_pred             CCCc------------ccHHHHHHHHHHHHhc
Q 041786          231 FPSL------------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       231 ~~~~------------g~~~~a~~~~~~m~~~  250 (260)
                      +...            |++++|+..++++...
T Consensus       316 ~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~  347 (656)
T PRK15174        316 DLPYVRAMYARALRQVGQYTAASDEFVQLARE  347 (656)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            5443            9999999999988764

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

Probab=98.16  E-value=6.1e-06  Score=66.72  Aligned_cols=183  Identities=15%  Similarity=0.056  Sum_probs=61.8

Q ss_pred             hhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH----------
Q 041786           40 LTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF----------  109 (260)
Q Consensus        40 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~----------  109 (260)
                      ........|.+.++.+...+.. +...+..++.. ...+++++|.++++..-+..  ++...+...+..+          
T Consensus        55 ~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~  130 (280)
T PF13429_consen   55 WSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAE  130 (280)
T ss_dssp             -------------------------------------------------------------------H-HHHTT-HHHHH
T ss_pred             cccccccccccccccccccccc-ccccccccccc-cccccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHH
Confidence            3344444677777776655432 45556666666 56777777777766554332  2333333333222          


Q ss_pred             ---HHHHh-CCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHH
Q 041786          110 ---VRMIR-KGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETI  185 (260)
Q Consensus       110 ---~~m~~-~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~  185 (260)
                         +.... .....+...|..+-..+.+.|+.++|++++++..+..  |+                  |......++..+
T Consensus       131 ~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~--P~------------------~~~~~~~l~~~l  190 (280)
T PF13429_consen  131 ELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD--PD------------------DPDARNALAWLL  190 (280)
T ss_dssp             HHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-------------------HHHHHHHHHHH
T ss_pred             HHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CC------------------CHHHHHHHHHHH
Confidence               11111 2334567778888888888999999999998877632  22                  234444455444


Q ss_pred             HhcCC------------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc------------ccHHHHH
Q 041786          186 CKSGE------------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDDAF  241 (260)
Q Consensus       186 ~~~~~------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a~  241 (260)
                      ...|+            .....|...+..+-.+|...|+.++|...|++.....  |+...            |+.++|.
T Consensus       191 i~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~--p~d~~~~~~~a~~l~~~g~~~~A~  268 (280)
T PF13429_consen  191 IDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN--PDDPLWLLAYADALEQAGRKDEAL  268 (280)
T ss_dssp             CTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS--TT-HHHHHHHHHHHT---------
T ss_pred             HHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccc--cccccccccccccccccccccccc
Confidence            44444            1113455667788888888899999999998877643  32222            8888888


Q ss_pred             HHHHHHH
Q 041786          242 CFFSEMQ  248 (260)
Q Consensus       242 ~~~~~m~  248 (260)
                      .+.++..
T Consensus       269 ~~~~~~~  275 (280)
T PF13429_consen  269 RLRRQAL  275 (280)
T ss_dssp             -------
T ss_pred             ccccccc
Confidence            8776543

>TIGR00540 hemY_coli hemY protein

Probab=97.96  E-value=0.0032  Score=53.85  Aligned_cols=207  Identities=14%  Similarity=0.024  Sum_probs=133.6

Q ss_pred             HHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHH-------HHHH
Q 041786           33 RTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLL-------YNSL  105 (260)
Q Consensus        33 ~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-------~~~l  105 (260)
                      ...-++....+....|.+.++.+.+.. +-+...+..+...|.+.|+++.|.+++..+.+.++.++...       +..+
T Consensus       157 ~~~a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~  235 (409)
T TIGR00540       157 IARTRILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGL  235 (409)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            334556666777779999999998775 23567888999999999999999999999999875443322       2121


Q ss_pred             HHH-H--------HHHHhCCC---CCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHHCCCC
Q 041786          106 HVC-F--------VRMIRKGF---VPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVR-SAKQMVNKMIKQGSV  172 (260)
Q Consensus       106 i~~-~--------~~m~~~g~---~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~a~~l~~~m~~~g~~  172 (260)
                      +.- .        ..+.+...   +.+...+-.+...+...|+.++|.+++++..+..  |+.. ....++....... .
T Consensus       236 l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~-~  312 (409)
T TIGR00540       236 LDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLK-P  312 (409)
T ss_pred             HHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcC-C
Confidence            200 0        11122111   1377888899999999999999999999887642  2222 1111222222221 1


Q ss_pred             CChhchHHHHHHHHhcCCCCCCcch---HHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-----------ccHH
Q 041786          173 PDLETFNSLIETICKSGELGLCADV---NTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-----------GQFD  238 (260)
Q Consensus       173 p~~~~~~~li~~~~~~~~~~~~~~~---~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-----------g~~~  238 (260)
                      .|....-..+....+.     .|+.   ....++-..+.+.|++++|.+.|+........|+...           |+.+
T Consensus       313 ~~~~~~~~~~e~~lk~-----~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~  387 (409)
T TIGR00540       313 EDNEKLEKLIEKQAKN-----VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKA  387 (409)
T ss_pred             CChHHHHHHHHHHHHh-----CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHH
Confidence            2223333333333332     2443   3444666778899999999999995444444565554           9999


Q ss_pred             HHHHHHHHHH
Q 041786          239 DAFCFFSEMQ  248 (260)
Q Consensus       239 ~a~~~~~~m~  248 (260)
                      +|.+++++-.
T Consensus       388 ~A~~~~~~~l  397 (409)
T TIGR00540       388 EAAAMRQDSL  397 (409)
T ss_pred             HHHHHHHHHH
Confidence            9999998753

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.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.95  E-value=0.0073  Score=51.51  Aligned_cols=198  Identities=9%  Similarity=0.005  Sum_probs=126.1

Q ss_pred             HHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHH-------HHHHHHHH
Q 041786           36 NRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVL-------LYNSLHVC  108 (260)
Q Consensus        36 ~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-------~~~~li~~  108 (260)
                      -.++...+....|.+.++.+.+.. +-+...+..+...|.+.|++++|.+++..+.+.+..++..       +|..++.-
T Consensus       160 a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~  238 (398)
T PRK10747        160 VRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQ  238 (398)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHH
Confidence            456677778889999999987765 2357788899999999999999999999999887653321       22222211


Q ss_pred             H---------HHHHhC---CCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChh
Q 041786          109 F---------VRMIRK---GFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLE  176 (260)
Q Consensus       109 ~---------~~m~~~---g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~  176 (260)
                      .         ...-+.   ..+.+......+..++.+.|+.++|..++++..+..  ++. ....++..+..    .+..
T Consensus       239 ~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~--~~~-~l~~l~~~l~~----~~~~  311 (398)
T PRK10747        239 AMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQ--YDE-RLVLLIPRLKT----NNPE  311 (398)
T ss_pred             HHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCH-HHHHHHhhccC----CChH
Confidence            0         111111   223467788889999999999999999998877632  222 11122222211    1111


Q ss_pred             chHHHHHHHHhcCCCCCCcc-hHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-----------ccHHHHHHHH
Q 041786          177 TFNSLIETICKSGELGLCAD-VNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFF  244 (260)
Q Consensus       177 ~~~~li~~~~~~~~~~~~~~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-----------g~~~~a~~~~  244 (260)
                      .--..+..+.+.     .|+ ...+.++-..+.+.|++++|.+.|+...+..  |+...           |+.++|..++
T Consensus       312 ~al~~~e~~lk~-----~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~--P~~~~~~~La~~~~~~g~~~~A~~~~  384 (398)
T PRK10747        312 QLEKVLRQQIKQ-----HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQR--PDAYDYAWLADALDRLHKPEEAAAMR  384 (398)
T ss_pred             HHHHHHHHHHhh-----CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            112222222222     243 4456677777888888888888888877653  44443           8888888888


Q ss_pred             HHHH
Q 041786          245 SEMQ  248 (260)
Q Consensus       245 ~~m~  248 (260)
                      ++-.
T Consensus       385 ~~~l  388 (398)
T PRK10747        385 RDGL  388 (398)
T ss_pred             HHHH
Confidence            7553

>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=97.94  E-value=0.0036  Score=56.57  Aligned_cols=198  Identities=13%  Similarity=-0.004  Sum_probs=128.5

Q ss_pred             hHHHHHHHHhcccCC-CCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCc-HHHHHHHHHHH------------
Q 041786           45 ELSMWKTIELMKPDS-LSV-FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQC-VLLYNSLHVCF------------  109 (260)
Q Consensus        45 ~~~a~~~~~~m~~~g-~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~------------  109 (260)
                      ..+|.+.|+...+.+ ..| ....|+.+-..+...|++++|+..|++..+..  |+ ...|..+-.++            
T Consensus       310 y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~--P~~~~~~~~la~~~~~~g~~~eA~~~  387 (615)
T TIGR00990       310 YEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD--PRVTQSYIKRASMNLELGDPDKAEED  387 (615)
T ss_pred             HHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence            347888888876654 234 35678888888899999999999999988653  44 33444443333            


Q ss_pred             -HHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCC---------------CCCHHHHHHHHHHHHHCCCC
Q 041786          110 -VRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGF---------------NPPVRSAKQMVNKMIKQGSV  172 (260)
Q Consensus       110 -~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~---------------~~~~~~a~~l~~~m~~~g~~  172 (260)
                       ++..+  ..| +...|..+-..|...|++++|+..|++..+..-               ..+...|...|+...+.. +
T Consensus       388 ~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P  464 (615)
T TIGR00990       388 FDKALK--LNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-P  464 (615)
T ss_pred             HHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-C
Confidence             22222  234 467888888889999999999999998776431               122337777777766542 2


Q ss_pred             CChhchHHHHHHHHhcCC-----------CCCCcch--------HHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCC
Q 041786          173 PDLETFNSLIETICKSGE-----------LGLCADV--------NTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPS  233 (260)
Q Consensus       173 p~~~~~~~li~~~~~~~~-----------~~~~~~~--------~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  233 (260)
                      -+...|+.+-..+...|+           ....|+.        ..++.....+...|++++|..++++....  .|+..
T Consensus       465 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l--~p~~~  542 (615)
T TIGR00990       465 EAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALII--DPECD  542 (615)
T ss_pred             CChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--CCCcH
Confidence            346677777778888887           2222221        11222222334468888888888876654  35554


Q ss_pred             c------------ccHHHHHHHHHHHHh
Q 041786          234 L------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       234 ~------------g~~~~a~~~~~~m~~  249 (260)
                      .            |++++|+..|++...
T Consensus       543 ~a~~~la~~~~~~g~~~eAi~~~e~A~~  570 (615)
T TIGR00990       543 IAVATMAQLLLQQGDVDEALKLFERAAE  570 (615)
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            4            888888888887654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=97.94  E-value=0.0055  Score=59.42  Aligned_cols=216  Identities=13%  Similarity=0.054  Sum_probs=128.9

Q ss_pred             HHhhhhhcchHHHHHHHHhcccCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCc-HHHHHHHHHHH----
Q 041786           36 NRLNLTLISELSMWKTIELMKPDSLSV-FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQC-VLLYNSLHVCF----  109 (260)
Q Consensus        36 ~~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~----  109 (260)
                      -..+...+...+|.+.+++..+..  | +...+..+...|.+.|++++|...|++..+..  |+ ...+..+....    
T Consensus       468 a~~~~~~g~~~eA~~~~~~Al~~~--P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~--P~~~~~~~a~al~l~~~~  543 (1157)
T PRK11447        468 AEALENQGKWAQAAELQRQRLALD--PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK--PNDPEQVYAYGLYLSGSD  543 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHhCC
Confidence            334445566668888887776543  3 45666777788888888888888888876532  22 22221111110    


Q ss_pred             ------HHHHh---CCCCCC---------HhhHHHHHHHHhccCCHHHHHHHHHHHHhCC-----------CCCCHHHHH
Q 041786          110 ------VRMIR---KGFVPD---------KRTHTILVNAWCSSGKMREAQEFLQELSDKG-----------FNPPVRSAK  160 (260)
Q Consensus       110 ------~~m~~---~g~~p~---------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----------~~~~~~~a~  160 (260)
                            ..+.+   ....++         ...+..+...+...|+.++|..+++.-....           ...+..+|.
T Consensus       544 ~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~  623 (1157)
T PRK11447        544 RDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAAR  623 (1157)
T ss_pred             CHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHH
Confidence                  00100   000111         1112234556777777777777766210000           012223677


Q ss_pred             HHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCCcc-hHHHHHHHHhhhhhccHHHHHHHHHHHHHCCC
Q 041786          161 QMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLCAD-VNTNKISIPAVSKEFMIDEAFRLLCNLVEDGH  228 (260)
Q Consensus       161 ~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~  228 (260)
                      ..|+...+.. +.+...+..+...|...|+           ....|+ ...+..+-..+...|+.++|..+|+.+....-
T Consensus       624 ~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~  702 (1157)
T PRK11447        624 AAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAK  702 (1157)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCc
Confidence            7777766653 2357788888999988888           334443 45566677888899999999999999886532


Q ss_pred             CcCC----Cc------------ccHHHHHHHHHHHH-hcCCCCCC
Q 041786          229 KLFP----SL------------GQFDDAFCFFSEMQ-IKTHPPNR  256 (260)
Q Consensus       229 ~p~~----~~------------g~~~~a~~~~~~m~-~~g~~p~~  256 (260)
                      ...+    ..            |+.++|+..|++.. ..|+.|+.
T Consensus       703 ~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~~~~  747 (1157)
T PRK11447        703 SQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASGITPTR  747 (1157)
T ss_pred             cCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCCCC
Confidence            2111    01            99999999998765 44776653

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

Probab=97.92  E-value=4.7e-05  Score=61.56  Aligned_cols=191  Identities=18%  Similarity=0.147  Sum_probs=73.5

Q ss_pred             hhhhcchHHHHHHHHhcccCCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH--------
Q 041786           39 NLTLISELSMWKTIELMKPDSL-SVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF--------  109 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--------  109 (260)
                      ....+....|+++++.-..... .-+...|..+-......++.+.|+..++++...+.. +...+..++...        
T Consensus        18 ~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l~~~~~~~~A   96 (280)
T PF13429_consen   18 LYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQLLQDGDPEEA   96 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccccccc
Confidence            3444555588888865444432 234555666667777889999999999999876532 334444444322        


Q ss_pred             HHHHhCC--CCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHh
Q 041786          110 VRMIRKG--FVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICK  187 (260)
Q Consensus       110 ~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~  187 (260)
                      ..+.+.+  ..++...+..++..+.+.++++++.++++.....                  ....++...|..+-..+.+
T Consensus        97 ~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~------------------~~~~~~~~~~~~~a~~~~~  158 (280)
T PF13429_consen   97 LKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEEL------------------PAAPDSARFWLALAEIYEQ  158 (280)
T ss_dssp             ---------------------H-HHHTT-HHHHHHHHHHHHH-------------------T---T-HHHHHHHHHHHHH
T ss_pred             ccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhc------------------cCCCCCHHHHHHHHHHHHH
Confidence            1122222  2356677778888888999999999988886642                  2234577777788888888


Q ss_pred             cCC-----------CCCCcc-hHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-----------ccHHHHHHHH
Q 041786          188 SGE-----------LGLCAD-VNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFF  244 (260)
Q Consensus       188 ~~~-----------~~~~~~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-----------g~~~~a~~~~  244 (260)
                      .|+           ....|+ ....+.++..+...|+.+++..++....+.. ..++..           |+.++|+..|
T Consensus       159 ~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~  237 (280)
T PF13429_consen  159 LGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYL  237 (280)
T ss_dssp             CCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccc
Confidence            887           445664 6778889999999999999999998887764 223333           9999999999


Q ss_pred             HHHHh
Q 041786          245 SEMQI  249 (260)
Q Consensus       245 ~~m~~  249 (260)
                      ++...
T Consensus       238 ~~~~~  242 (280)
T PF13429_consen  238 EKALK  242 (280)
T ss_dssp             HHHHH
T ss_pred             ccccc
Confidence            98775

>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=97.91  E-value=0.00019  Score=54.38  Aligned_cols=89  Identities=19%  Similarity=0.346  Sum_probs=74.6

Q ss_pred             CCCHHHHHHHHHHHHhc-----CChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH--------------------------
Q 041786           61 SVFPQTLSLIIEEFGKH-----GLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF--------------------------  109 (260)
Q Consensus        61 ~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--------------------------  109 (260)
                      ..+..+|..+|+.|.+.     |.++=....+..|.+.|+..|..+|+.||.++                          
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            45888999999998865     67777788889999999999999999999776                          


Q ss_pred             ---HHHHhCCCCCCHhhHHHHHHHHhccCC-HHHHHHHHHHHHh
Q 041786          110 ---VRMIRKGFVPDKRTHTILVNAWCSSGK-MREAQEFLQELSD  149 (260)
Q Consensus       110 ---~~m~~~g~~p~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~  149 (260)
                         ++|...|+.||..++..|++.|.+.+. +.+..++.-.|.+
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWmpk  167 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWMPK  167 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHHHH
Confidence               889999999999999999999988775 4456666666654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>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=97.90  E-value=0.0021  Score=57.99  Aligned_cols=211  Identities=14%  Similarity=0.023  Sum_probs=123.7

Q ss_pred             cchhhhhHHHHHHHHcc---c---chhHHHHHhhhhhcchHHHHHHHHhcccCCCCCC-HHHHHHHHHHHHhcCChHHHH
Q 041786           12 EDYFAAVNHIANIVRHD---I---YAERTLNRLNLTLISELSMWKTIELMKPDSLSVF-PQTLSLIIEEFGKHGLIDNAV   84 (260)
Q Consensus        12 ~~~~~~~~~~~~~~~~~---~---~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~~~~~~a~   84 (260)
                      +.|-.++.-+...+..+   .   .....+..++...+...+|...++...+.  .|+ ...|..+...+...|++++|.
T Consensus       308 ~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~  385 (615)
T TIGR00990       308 ESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAE  385 (615)
T ss_pred             hhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHH
Confidence            45555555555555432   1   11233333444556666888888776554  344 557777788888888888888


Q ss_pred             HHHHHhhhcCCCCcHHHHHHHHHHH-------------HHHHhCCCCCC-HhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786           85 EVFNKCTAFNCQQCVLLYNSLHVCF-------------VRMIRKGFVPD-KRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus        85 ~~~~~m~~~~~~~~~~~~~~li~~~-------------~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      ..|++..+.. +.+..+|..+-.++             ++..  .+.|+ ...+..+-..+.+.|++++|+..|++..+.
T Consensus       386 ~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal--~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  462 (615)
T TIGR00990       386 EDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSI--DLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN  462 (615)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            8888876653 12344555444333             1111  23343 455666777788888888888888876653


Q ss_pred             CC---------------CCCHHHHHHHHHHHHHCCCCCChhc------hHHHHHHHHhcCC-----------CCCCcc-h
Q 041786          151 GF---------------NPPVRSAKQMVNKMIKQGSVPDLET------FNSLIETICKSGE-----------LGLCAD-V  197 (260)
Q Consensus       151 ~~---------------~~~~~~a~~l~~~m~~~g~~p~~~~------~~~li~~~~~~~~-----------~~~~~~-~  197 (260)
                      .-               ..+..+|...|+...+..-..+...      ++.....+...|+           ....|+ .
T Consensus       463 ~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~  542 (615)
T TIGR00990       463 FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECD  542 (615)
T ss_pred             CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcH
Confidence            21               1122267777776554421111111      1111122222344           233454 4


Q ss_pred             HHHHHHHHhhhhhccHHHHHHHHHHHHHCC
Q 041786          198 NTNKISIPAVSKEFMIDEAFRLLCNLVEDG  227 (260)
Q Consensus       198 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~~  227 (260)
                      ..+..+...+.+.|++++|...|++..+..
T Consensus       543 ~a~~~la~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       543 IAVATMAQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHh
Confidence            468889999999999999999999987653

>PRK14574 hmsH outer membrane protein; Provisional

Probab=97.85  E-value=0.024  Score=52.57  Aligned_cols=134  Identities=7%  Similarity=-0.016  Sum_probs=69.6

Q ss_pred             hhhhHHHHHHHHcccch---hHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 041786           15 FAAVNHIANIVRHDIYA---ERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCT   91 (260)
Q Consensus        15 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   91 (260)
                      ..+++.+...++.+...   -..+..++...+...+|+..++..... -..+......+...|...|++++|+++|+++.
T Consensus        51 ~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~Aiely~kaL  129 (822)
T PRK14574         51 APVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQALALWQSSL  129 (822)
T ss_pred             HHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34555555555554432   124455555666777788777776621 11122233333557777788888888888887


Q ss_pred             hcCCCCcHHHHHHHHHHH----------HHHHh-CCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786           92 AFNCQQCVLLYNSLHVCF----------VRMIR-KGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus        92 ~~~~~~~~~~~~~li~~~----------~~m~~-~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      +..-. +...+..+...+          +...+ ....|+...+-.++..+...++..+|++.++++.+.
T Consensus       130 ~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~  198 (822)
T PRK14574        130 KKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRL  198 (822)
T ss_pred             hhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHh
Confidence            65411 233343433322          11111 134555555533333333344554577777777654

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

Probab=97.80  E-value=0.0013  Score=57.42  Aligned_cols=195  Identities=12%  Similarity=0.047  Sum_probs=131.2

Q ss_pred             HHHHHHHhcccCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHhhhcC-C-CCcHHHHHHHHHHH-HHH----HhC---
Q 041786           47 SMWKTIELMKPDSLSVFP-QTLSLIIEEFGKHGLIDNAVEVFNKCTAFN-C-QQCVLLYNSLHVCF-VRM----IRK---  115 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~-~~~~~~~~~li~~~-~~m----~~~---  115 (260)
                      +|..+|..+.+.  .+|+ .+...+=.+|...+++++|..+|+.+++.. . .-+..+|++.+... +.+    +.+   
T Consensus       337 ~A~~~~~klp~h--~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li  414 (638)
T KOG1126|consen  337 EALNLFEKLPSH--HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLI  414 (638)
T ss_pred             HHHHHHHhhHHh--cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHH
Confidence            888888885443  2333 555667789999999999999999998753 1 12567888888433 111    111   


Q ss_pred             CCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC--------C-------CHHHHHHHHHHHHHCCCCCChhchH
Q 041786          116 GFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFN--------P-------PVRSAKQMVNKMIKQGSVPDLETFN  179 (260)
Q Consensus       116 g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--------~-------~~~~a~~l~~~m~~~g~~p~~~~~~  179 (260)
                      ...| ...+|-++=+.|.-.++.+.|+..|++..+.+-.        +       +.++|..-|+.    .+..|+..|+
T Consensus       415 ~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~----Al~~~~rhYn  490 (638)
T KOG1126|consen  415 DTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRK----ALGVDPRHYN  490 (638)
T ss_pred             hhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHh----hhcCCchhhH
Confidence            1233 4579999999999999999999999988764320        0       11144444433    3556777776


Q ss_pred             HH---HHHHHhcCC-----------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc----------
Q 041786          180 SL---IETICKSGE-----------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL----------  234 (260)
Q Consensus       180 ~l---i~~~~~~~~-----------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~----------  234 (260)
                      +.   --.|.+.+.           ..+-| +.+.-..+...+-+.|+.|+|.++|++.....  |....          
T Consensus       491 AwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld--~kn~l~~~~~~~il~  568 (638)
T KOG1126|consen  491 AWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD--PKNPLCKYHRASILF  568 (638)
T ss_pred             HHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC--CCCchhHHHHHHHHH
Confidence            54   445566665           34444 45556666677888899999999998876543  22222          


Q ss_pred             --ccHHHHHHHHHHHHh
Q 041786          235 --GQFDDAFCFFSEMQI  249 (260)
Q Consensus       235 --g~~~~a~~~~~~m~~  249 (260)
                        ++.++|+..++++++
T Consensus       569 ~~~~~~eal~~LEeLk~  585 (638)
T KOG1126|consen  569 SLGRYVEALQELEELKE  585 (638)
T ss_pred             hhcchHHHHHHHHHHHH
Confidence              899999999999874

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.79  E-value=0.00037  Score=47.13  Aligned_cols=88  Identities=10%  Similarity=0.148  Sum_probs=58.2

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC-CCCHhhHHHHHHHHhccCCHHHHHHHHHH
Q 041786           68 SLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF-VPDKRTHTILVNAWCSSGKMREAQEFLQE  146 (260)
Q Consensus        68 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~  146 (260)
                      ..-|..+...+++.....+|+.+++                      .|+ .|+..+|+.++.+.++...=.  ..+-.+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkR----------------------N~i~lPsv~~Yn~VL~Si~~R~lD~--~~ie~k   84 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKR----------------------NGITLPSVELYNKVLKSIAKRELDS--EDIENK   84 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHh----------------------cCCCCCcHHHHHHHHHHHHHccccc--hhHHHH
Confidence            3445555566777777777776664                      555 677777777777776643211  112222


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhc
Q 041786          147 LSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKS  188 (260)
Q Consensus       147 m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~  188 (260)
                      |-         ..+.++.+|...+++|+..||+.++..+.+.
T Consensus        85 l~---------~LLtvYqDiL~~~lKP~~etYnivl~~Llkg  117 (120)
T PF08579_consen   85 LT---------NLLTVYQDILSNKLKPNDETYNIVLGSLLKG  117 (120)
T ss_pred             HH---------HHHHHHHHHHHhccCCcHHHHHHHHHHHHHh
Confidence            33         3566777777888999999999999887653

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 [, , ].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.75  E-value=0.00044  Score=46.79  Aligned_cols=77  Identities=12%  Similarity=0.156  Sum_probs=53.4

Q ss_pred             cchHHHHHHHHhcccCCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCH
Q 041786           43 ISELSMWKTIELMKPDSL-SVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDK  121 (260)
Q Consensus        43 ~~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~  121 (260)
                      .....-.-++.-+++.|+ .|++.+|+.++.+.++..--..+  +=++|            ..++.||..|...+++|+.
T Consensus        39 ~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~--ie~kl------------~~LLtvYqDiL~~~lKP~~  104 (120)
T PF08579_consen   39 EDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSED--IENKL------------TNLLTVYQDILSNKLKPND  104 (120)
T ss_pred             cchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchh--HHHHH------------HHHHHHHHHHHHhccCCcH
Confidence            444467778889999999 89999999999998876532211  11111            2245667777777777888


Q ss_pred             hhHHHHHHHHhc
Q 041786          122 RTHTILVNAWCS  133 (260)
Q Consensus       122 ~~~~~li~~~~~  133 (260)
                      .||+.+|..+.+
T Consensus       105 etYnivl~~Llk  116 (120)
T PF08579_consen  105 ETYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHHH
Confidence            888877777654

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 [, , ].

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=97.68  E-value=0.0091  Score=45.94  Aligned_cols=170  Identities=14%  Similarity=0.026  Sum_probs=102.5

Q ss_pred             hhhhhHHHHHHHHcccc---hhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHh
Q 041786           14 YFAAVNHIANIVRHDIY---AERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKC   90 (260)
Q Consensus        14 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m   90 (260)
                      +-.+...+...+..+..   ....+-..+...+....|.+.++...+.. +.+...+..+...+...|++++|.+.|++.
T Consensus        47 ~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~  125 (234)
T TIGR02521        47 LEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFLCQQGKYEQAMQQFEQA  125 (234)
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            33444445544444322   22334444555666668999998876653 235667888889999999999999999988


Q ss_pred             hhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC
Q 041786           91 TAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQG  170 (260)
Q Consensus        91 ~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g  170 (260)
                      ......                     ......+..+-..+.+.|++++|.+.|.+..+..  |                
T Consensus       126 ~~~~~~---------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~----------------  166 (234)
T TIGR02521       126 IEDPLY---------------------PQPARSLENAGLCALKAGDFDKAEKYLTRALQID--P----------------  166 (234)
T ss_pred             Hhcccc---------------------ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--c----------------
Confidence            753211                     1123344445566667777777777776655421  1                


Q ss_pred             CCCChhchHHHHHHHHhcCC------------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          171 SVPDLETFNSLIETICKSGE------------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       171 ~~p~~~~~~~li~~~~~~~~------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                        .+...+..+...+...|+            .....+...+..+...+...|+.+.|..+++.+..
T Consensus       167 --~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       167 --QRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             --CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence              112233333333444443            11123445566677788889999999998887754

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

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.63  E-value=0.014  Score=49.82  Aligned_cols=203  Identities=11%  Similarity=0.093  Sum_probs=127.1

Q ss_pred             cchHHHHHHHHhcccCCCCCCHHHHHHH-HHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHH----HH--------
Q 041786           43 ISELSMWKTIELMKPDSLSVFPQTLSLI-IEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHV----CF--------  109 (260)
Q Consensus        43 ~~~~~a~~~~~~m~~~g~~~~~~~~~~l-i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~----~~--------  109 (260)
                      +....|.+.+..-.+..  ++...+-.+ .....+.|+++.|.+.|.++.+.  .|+....-.+..    ..        
T Consensus        98 Gd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         98 GDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            44447776666543332  223333333 34447889999999999998764  344433322221    11        


Q ss_pred             ---HHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHH-------HHHHHHHHH----------
Q 041786          110 ---VRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSA-------KQMVNKMIK----------  168 (260)
Q Consensus       110 ---~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a-------~~l~~~m~~----------  168 (260)
                         +...+  ..| +......+...|.+.|++++|.+++..+.+.+..++....       ..++....+          
T Consensus       174 ~~l~~~~~--~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        174 HGVDKLLE--VAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHh--cCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence               33333  335 4567788899999999999999999999988766433211       111111111          


Q ss_pred             -----CCCCCChhchHHHHHHHHhcCC-----------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCC
Q 041786          169 -----QGSVPDLETFNSLIETICKSGE-----------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFP  232 (260)
Q Consensus       169 -----~g~~p~~~~~~~li~~~~~~~~-----------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  232 (260)
                           ...+.++.....+..++...|+           ....|+.  --.++.+....++.+++.+..+...+.  .|+.
T Consensus       252 w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~~--~l~~l~~~l~~~~~~~al~~~e~~lk~--~P~~  327 (398)
T PRK10747        252 WKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQYDE--RLVLLIPRLKTNNPEQLEKVLRQQIKQ--HGDT  327 (398)
T ss_pred             HHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH--HHHHHHhhccCCChHHHHHHHHHHHhh--CCCC
Confidence                 0123466677888888999998           3334444  223455556679999999999988865  3444


Q ss_pred             Cc------------ccHHHHHHHHHHHHhcCCCCCCC
Q 041786          233 SL------------GQFDDAFCFFSEMQIKTHPPNRP  257 (260)
Q Consensus       233 ~~------------g~~~~a~~~~~~m~~~g~~p~~~  257 (260)
                      ..            +++++|.+.|+...+.  .|+..
T Consensus       328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~  362 (398)
T PRK10747        328 PLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAY  362 (398)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHH
Confidence            33            9999999999999864  46544

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

Probab=97.63  E-value=0.018  Score=46.68  Aligned_cols=186  Identities=11%  Similarity=-0.014  Sum_probs=100.0

Q ss_pred             HhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCC
Q 041786           37 RLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKG  116 (260)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g  116 (260)
                      +++.+.+-..+|.+.|..-.+.  .|-+.||-.|-..|.+...+..|+.+|.+-.+                        
T Consensus       231 kCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld------------------------  284 (478)
T KOG1129|consen  231 KCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLD------------------------  284 (478)
T ss_pred             HHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhh------------------------
Confidence            3333343333555544443322  24444555555555555555555555554433                        


Q ss_pred             CCCCHhhHH-HHHHHHhccCCHHHHHHHHHHHHhCC---C------------CCCHHHHHHHHHHHHHCCCCCChhchHH
Q 041786          117 FVPDKRTHT-ILVNAWCSSGKMREAQEFLQELSDKG---F------------NPPVRSAKQMVNKMIKQGSVPDLETFNS  180 (260)
Q Consensus       117 ~~p~~~~~~-~li~~~~~~g~~~~a~~~~~~m~~~~---~------------~~~~~~a~~l~~~m~~~g~~p~~~~~~~  180 (260)
                      ..|-.+||- -+-+.+-..++.++|.++++...+..   +            ....+-|+.+++.+.+.|+. ++..|+.
T Consensus       285 ~fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~N  363 (478)
T KOG1129|consen  285 SFPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCN  363 (478)
T ss_pred             cCCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhh
Confidence            234444442 33445555667777777777665431   1            12233677777777777765 6666666


Q ss_pred             HHHHHHhcCC-------------CCCCcc--hHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc----------c
Q 041786          181 LIETICKSGE-------------LGLCAD--VNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL----------G  235 (260)
Q Consensus       181 li~~~~~~~~-------------~~~~~~--~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~----------g  235 (260)
                      +--.|.-.++             ..-.|+  ...|-.|-...+-.|++..|.+-|+-...++-.--...          |
T Consensus       364 igLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G  443 (478)
T KOG1129|consen  364 IGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSG  443 (478)
T ss_pred             HHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcC
Confidence            6555555554             111122  23454555556677888888887766554331111111          8


Q ss_pred             cHHHHHHHHHHHHh
Q 041786          236 QFDDAFCFFSEMQI  249 (260)
Q Consensus       236 ~~~~a~~~~~~m~~  249 (260)
                      ++++|..+++....
T Consensus       444 ~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  444 DILGARSLLNAAKS  457 (478)
T ss_pred             chHHHHHHHHHhhh
Confidence            88888888876654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=97.59  E-value=0.029  Score=53.23  Aligned_cols=72  Identities=10%  Similarity=-0.062  Sum_probs=40.1

Q ss_pred             hhchHHHHHHHHhcCC-----------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-----ccH
Q 041786          175 LETFNSLIETICKSGE-----------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-----GQF  237 (260)
Q Consensus       175 ~~~~~~li~~~~~~~~-----------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-----g~~  237 (260)
                      ...++.+-..+...|+           ....| +...+..+-.++...|++++|...|++..+..  |+..-     |..
T Consensus       643 ~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~--P~~a~i~~~~g~~  720 (987)
T PRK09782        643 SNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI--DNQALITPLTPEQ  720 (987)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCCchhhhhhhHH
Confidence            3445555556666666           22334 34556666666777777777777777666432  44332     555


Q ss_pred             HHHHHHHHHHH
Q 041786          238 DDAFCFFSEMQ  248 (260)
Q Consensus       238 ~~a~~~~~~m~  248 (260)
                      ..+..-|+...
T Consensus       721 ~~~~~~~~~a~  731 (987)
T PRK09782        721 NQQRFNFRRLH  731 (987)
T ss_pred             HHHHHHHHHHH
Confidence            55555554443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=97.54  E-value=0.023  Score=52.80  Aligned_cols=177  Identities=8%  Similarity=-0.066  Sum_probs=98.8

Q ss_pred             hcchHHHHHHHHhcccCCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC-CC
Q 041786           42 LISELSMWKTIELMKPDSLS-VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF-VP  119 (260)
Q Consensus        42 ~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~-~p  119 (260)
                      .+...+|.+.|+.+.+.+-. |+- .-..+...|...|++++|+..|+++.+..  |                  .. ..
T Consensus       250 ~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~--p------------------~~~~~  308 (765)
T PRK10049        250 RDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHP--E------------------TIADL  308 (765)
T ss_pred             hhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcC--C------------------CCCCC
Confidence            34445788888887766532 221 22224567777888888888888765421  0                  00 01


Q ss_pred             CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCCh---hchHHHHHHHHhcCC------
Q 041786          120 DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDL---ETFNSLIETICKSGE------  190 (260)
Q Consensus       120 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~---~~~~~li~~~~~~~~------  190 (260)
                      .......+..++...|++++|.++++.+....  |....   ++.   ...-.|+.   ..+..+...+...|+      
T Consensus       309 ~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~--P~~~~---~~~---~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~  380 (765)
T PRK10049        309 SDEELADLFYSLLESENYPGALTVTAHTINNS--PPFLR---LYG---SPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEM  380 (765)
T ss_pred             ChHHHHHHHHHHHhcccHHHHHHHHHHHhhcC--CceEe---ecC---CCCCCCCchHHHHHHHHHHHHHHcCCHHHHHH
Confidence            12345666778899999999999999887642  10000   000   00001221   122333344444444      


Q ss_pred             -----CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc------------ccHHHHHHHHHHHHh
Q 041786          191 -----LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       191 -----~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a~~~~~~m~~  249 (260)
                           ....| +...+..+...+...|+.++|...+++....  .|+...            |++++|..+++++.+
T Consensus       381 ~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~  455 (765)
T PRK10049        381 RARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVL--EPRNINLEVEQAWTALDLQEWRQMDVLTDDVVA  455 (765)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence                 11223 3455666667777777777777777766653  355422            777777777777764

>TIGR00540 hemY_coli hemY protein

Probab=97.50  E-value=0.013  Score=50.22  Aligned_cols=208  Identities=11%  Similarity=0.030  Sum_probs=125.5

Q ss_pred             hcchHHHHHHHHhcccCCCCCCHHHH-HHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHH-----HHHHHH-------H
Q 041786           42 LISELSMWKTIELMKPDSLSVFPQTL-SLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLL-----YNSLHV-------C  108 (260)
Q Consensus        42 ~~~~~~a~~~~~~m~~~g~~~~~~~~-~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-----~~~li~-------~  108 (260)
                      -+....|.+.+....+.  .|+...+ -.....+.+.|+.+.|.+.+.+..+..  |+...     +..+..       +
T Consensus        97 ~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        97 EGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             CCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHH
Confidence            44555888888776554  3554333 344567778899999999999876543  33321     222110       0


Q ss_pred             ---HHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHH-------HH------------HHHHH
Q 041786          109 ---FVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRS-------AK------------QMVNK  165 (260)
Q Consensus       109 ---~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~-------a~------------~l~~~  165 (260)
                         .+.+.+..  | +......+...+...|++++|.+.+..+.+.+..++...       ..            +.+..
T Consensus       173 l~~l~~l~~~~--P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~  250 (409)
T TIGR00540       173 RHGVDKLLEMA--PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLN  250 (409)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence               13344433  5 456788899999999999999999999999876543321       11            12222


Q ss_pred             HHHCCC---CCChhchHHHHHHHHhcCC-----------CCCCcchHH---HHHHHHhhhhhccHHHHHHHHHHHHHCCC
Q 041786          166 MIKQGS---VPDLETFNSLIETICKSGE-----------LGLCADVNT---NKISIPAVSKEFMIDEAFRLLCNLVEDGH  228 (260)
Q Consensus       166 m~~~g~---~p~~~~~~~li~~~~~~~~-----------~~~~~~~~t---~~~li~~~~~~g~~~~a~~~~~~m~~~~~  228 (260)
                      +.+...   +.+...+..+...+...|+           ....||...   ...........++.+.+.+.++...+.  
T Consensus       251 ~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--  328 (409)
T TIGR00540       251 WWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--  328 (409)
T ss_pred             HHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--
Confidence            222211   1267777788888888887           333444432   122222334457777787777776653  


Q ss_pred             CcCCC--c------------ccHHHHHHHHHHHHhcCCCCCCC
Q 041786          229 KLFPS--L------------GQFDDAFCFFSEMQIKTHPPNRP  257 (260)
Q Consensus       229 ~p~~~--~------------g~~~~a~~~~~~m~~~g~~p~~~  257 (260)
                      .|+..  .            |++++|.+.|+........||..
T Consensus       329 ~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~  371 (409)
T TIGR00540       329 VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDAN  371 (409)
T ss_pred             CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHH
Confidence            34444  2            99999999999544444456544

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.

>PRK12370 invasion protein regulator; Provisional

Probab=97.48  E-value=0.069  Score=47.70  Aligned_cols=78  Identities=14%  Similarity=0.024  Sum_probs=39.6

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCC-HhhHH
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPD-KRTHT  125 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~-~~~~~  125 (260)
                      +|.+.++...+.. +-+...|..+-..+...|++++|...|++..+.+                        |+ ...+.
T Consensus       322 ~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~------------------------P~~~~a~~  376 (553)
T PRK12370        322 KAKEHAIKATELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS------------------------PISADIKY  376 (553)
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC------------------------CCCHHHHH
Confidence            4455554443332 1134445555555555566666666665555432                        33 33444


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHh
Q 041786          126 ILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       126 ~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      .+-..+...|++++|...+++..+
T Consensus       377 ~lg~~l~~~G~~~eAi~~~~~Al~  400 (553)
T PRK12370        377 YYGWNLFMAGQLEEALQTINECLK  400 (553)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHh
Confidence            455555566666666666665544

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=97.46  E-value=0.054  Score=51.44  Aligned_cols=162  Identities=9%  Similarity=-0.072  Sum_probs=109.8

Q ss_pred             hhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC
Q 041786           40 LTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP  119 (260)
Q Consensus        40 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p  119 (260)
                      ...+...+|...|+.+...  .|+...+..+...+.+.|+.++|...|+...+.+  |                     .
T Consensus       520 ~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~--P---------------------~  574 (987)
T PRK09782        520 YQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG--L---------------------G  574 (987)
T ss_pred             HHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--C---------------------c
Confidence            3566677999999887544  3455566777788899999999999999887632  1                     1


Q ss_pred             CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC---------
Q 041786          120 DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE---------  190 (260)
Q Consensus       120 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~---------  190 (260)
                      +...+..+.....+.|++++|.+.+++..+                     ..|+...|..+-..+.+.|+         
T Consensus       575 ~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~---------------------l~P~~~a~~~LA~~l~~lG~~deA~~~l~  633 (987)
T PRK09782        575 DNALYWWLHAQRYIPGQPELALNDLTRSLN---------------------IAPSANAYVARATIYRQRHNVPAAVSDLR  633 (987)
T ss_pred             cHHHHHHHHHHHHhCCCHHHHHHHHHHHHH---------------------hCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            112222223333445777777777776654                     24555566666666666666         


Q ss_pred             --CCCCcc-hHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc------------ccHHHHHHHHHHHHh
Q 041786          191 --LGLCAD-VNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       191 --~~~~~~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a~~~~~~m~~  249 (260)
                        ....|+ ...++.+-..+...|+.++|...|++..+.  .|+...            |++++|+..|++...
T Consensus       634 ~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~  705 (987)
T PRK09782        634 AALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKG--LPDDPALIRQLAYVNQRLDDMAATQHYARLVID  705 (987)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence              344454 556677777888899999999999888764  344433            899999998888764

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

Probab=97.43  E-value=0.052  Score=44.97  Aligned_cols=193  Identities=13%  Similarity=0.107  Sum_probs=118.6

Q ss_pred             cchhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcH-------HH
Q 041786           29 IYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCV-------LL  101 (260)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-------~~  101 (260)
                      ..++.+.-++.+.-++...|..-++++.+.+- -++.........|.+.|++.....++..|.+.|+--+.       .+
T Consensus       153 l~v~ltrarlll~~~d~~aA~~~v~~ll~~~p-r~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a  231 (400)
T COG3071         153 LAVELTRARLLLNRRDYPAARENVDQLLEMTP-RHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQA  231 (400)
T ss_pred             HHHHHHHHHHHHhCCCchhHHHHHHHHHHhCc-CChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHH
Confidence            34456666667777766788888888776652 36778899999999999999999999999999875543       45


Q ss_pred             HHHHHH-HH-----HHH------HhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHH---------HHH
Q 041786          102 YNSLHV-CF-----VRM------IRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVR---------SAK  160 (260)
Q Consensus       102 ~~~li~-~~-----~~m------~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---------~a~  160 (260)
                      |+.++. +.     +.+      .-...+-+...-.+++.-+.++|+.++|.++..+-.+....|...         ...
T Consensus       232 ~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~  311 (400)
T COG3071         232 WEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPE  311 (400)
T ss_pred             HHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCch
Confidence            665551 11     000      001223355666778889999999999999999888776555422         111


Q ss_pred             HHHHHH----HHCCCCCChhchHHHHHHHHhcCC-----------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHH
Q 041786          161 QMVNKM----IKQGSVPDLETFNSLIETICKSGE-----------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLV  224 (260)
Q Consensus       161 ~l~~~m----~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~  224 (260)
                      .+...+    ...+-.|  ..+.+|=..|.+.+.           ....|+..+|+.+-.+|.+.|+..+|.+++++-.
T Consensus       312 ~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         312 PLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             HHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            111111    1122222  333334334444443           4455555555555555555555555555555544

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

Probab=97.41  E-value=0.006  Score=53.36  Aligned_cols=204  Identities=16%  Similarity=0.144  Sum_probs=130.0

Q ss_pred             hcchHHHHHHHHhcccCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHH----HHH----------
Q 041786           42 LISELSMWKTIELMKPDSLSV-FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYN----SLH----------  106 (260)
Q Consensus        42 ~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~----~li----------  106 (260)
                      -+...+|+.+++.+.+.  +| .+..|.-+-.++...|+.+.|.+.|.+..+.+  |+.....    .|+          
T Consensus       129 rg~~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgnLlka~Grl~ea~  204 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGNLLKAEGRLEEAK  204 (966)
T ss_pred             hchHHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhHHHHhhcccchhH
Confidence            33444788888777655  33 46788888888888888888888887766543  4332221    122          


Q ss_pred             HHH-------------------------------HHHHh-CCCCCC-HhhHHHHHHHHhccCCHHHHHHHHHHHHhCC-C
Q 041786          107 VCF-------------------------------VRMIR-KGFVPD-KRTHTILVNAWCSSGKMREAQEFLQELSDKG-F  152 (260)
Q Consensus       107 ~~~-------------------------------~~m~~-~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~  152 (260)
                      .||                               ....+ -.+.|+ ...|-.|=..|...+.++.|...+.+..... -
T Consensus       205 ~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn  284 (966)
T KOG4626|consen  205 ACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPN  284 (966)
T ss_pred             HHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCc
Confidence            122                               11111 134444 3455666667777777888888777654321 0


Q ss_pred             --------------CCCHHHHHHHHHHHHHCCCCCC-hhchHHHHHHHHhcCC-----------CCCCcc-hHHHHHHHH
Q 041786          153 --------------NPPVRSAKQMVNKMIKQGSVPD-LETFNSLIETICKSGE-----------LGLCAD-VNTNKISIP  205 (260)
Q Consensus       153 --------------~~~~~~a~~l~~~m~~~g~~p~-~~~~~~li~~~~~~~~-----------~~~~~~-~~t~~~li~  205 (260)
                                    .+..+.|..-+++-.+.  .|+ +..|+.|-.++...|+           ....|+ ....+.|-+
T Consensus       285 ~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgn  362 (966)
T KOG4626|consen  285 HAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGN  362 (966)
T ss_pred             chhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHH
Confidence                          23344666666665443  566 6789999999999998           334443 456778888


Q ss_pred             hhhhhccHHHHHHHHHHHHHCCCCcCCCc------------ccHHHHHHHHHHHHhcCCCCC
Q 041786          206 AVSKEFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDDAFCFFSEMQIKTHPPN  255 (260)
Q Consensus       206 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a~~~~~~m~~~g~~p~  255 (260)
                      .|...|+++.|.++|....+  +.|.-..            |++++|+..+++..  .|.|+
T Consensus       363 i~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal--rI~P~  420 (966)
T KOG4626|consen  363 IYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL--RIKPT  420 (966)
T ss_pred             HHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH--hcCch
Confidence            99999999999999887665  3333222            88899988888766  34443

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

Probab=97.38  E-value=0.059  Score=45.69  Aligned_cols=201  Identities=12%  Similarity=0.025  Sum_probs=128.2

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCC-C-CcHHHHHHHHHHHH------HHHh---C
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNC-Q-QCVLLYNSLHVCFV------RMIR---K  115 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~-~~~~~~~~li~~~~------~m~~---~  115 (260)
                      ++.+-.+.+...|+..+...-+....+.-...+++.|+.+|+++.+..- + -|..+|+.++....      .+.+   +
T Consensus       245 e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~  324 (559)
T KOG1155|consen  245 EALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSN  324 (559)
T ss_pred             HHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHH
Confidence            5555556666777766665555555666677899999999999997631 1 25678888884330      0111   1


Q ss_pred             CCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHH---------------HHHHHHHHHHHCCCCCChhchHH
Q 041786          116 GFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVR---------------SAKQMVNKMIKQGSVPDLETFNS  180 (260)
Q Consensus       116 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---------------~a~~l~~~m~~~g~~p~~~~~~~  180 (260)
                      --+-...|..++-+-|+-.++.++|...|++..+.+-.-...               .|.+-++.-.+-. +.|-..|-.
T Consensus       325 idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYG  403 (559)
T KOG1155|consen  325 IDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYG  403 (559)
T ss_pred             hccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhh
Confidence            112233456666677777888888988888877654221111               4444444443332 234456666


Q ss_pred             HHHHHHhcCC-----------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc----------ccHH
Q 041786          181 LIETICKSGE-----------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL----------GQFD  238 (260)
Q Consensus       181 li~~~~~~~~-----------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~----------g~~~  238 (260)
                      |=.+|.-.+-           ..++| |...|.+|-.+|.+.++.++|.+-|......|-.-....          ++.+
T Consensus       404 LGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~  483 (559)
T KOG1155|consen  404 LGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLN  483 (559)
T ss_pred             hhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHH
Confidence            6666666554           55666 678999999999999999999999998887653311111          7777


Q ss_pred             HHHHHHHHHH
Q 041786          239 DAFCFFSEMQ  248 (260)
Q Consensus       239 ~a~~~~~~m~  248 (260)
                      +|...|+.-.
T Consensus       484 eAa~~yek~v  493 (559)
T KOG1155|consen  484 EAAQYYEKYV  493 (559)
T ss_pred             HHHHHHHHHH
Confidence            7777766544

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

Probab=97.38  E-value=0.01  Score=51.93  Aligned_cols=96  Identities=16%  Similarity=0.163  Sum_probs=68.5

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCC-cHHHHHHHHHHH---------HHHHhCC
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQ-CVLLYNSLHVCF---------VRMIRKG  116 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~---------~~m~~~g  116 (260)
                      .|.++.+....     .+.+|.++=.+|+-.++.+.|++.|+...+..  | ..++|+.+-+=+         ..-.+..
T Consensus       409 Laq~Li~~~~~-----sPesWca~GNcfSLQkdh~~Aik~f~RAiQld--p~faYayTLlGhE~~~~ee~d~a~~~fr~A  481 (638)
T KOG1126|consen  409 LAQDLIDTDPN-----SPESWCALGNCFSLQKDHDTAIKCFKRAIQLD--PRFAYAYTLLGHESIATEEFDKAMKSFRKA  481 (638)
T ss_pred             HHHHHHhhCCC-----CcHHHHHhcchhhhhhHHHHHHHHHHHhhccC--CccchhhhhcCChhhhhHHHHhHHHHHHhh
Confidence            45555544432     46789999999999999999999999877633  3 455666554211         1223456


Q ss_pred             CCCCHhhHHHHH---HHHhccCCHHHHHHHHHHHHh
Q 041786          117 FVPDKRTHTILV---NAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       117 ~~p~~~~~~~li---~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      +..|..+||++-   -.|.|.++++.|+-.|+...+
T Consensus       482 l~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~  517 (638)
T KOG1126|consen  482 LGVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE  517 (638)
T ss_pred             hcCCchhhHHHHhhhhheeccchhhHHHHHHHhhhc
Confidence            788999998874   468999999999998887664

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=97.38  E-value=0.026  Score=54.90  Aligned_cols=175  Identities=17%  Similarity=0.090  Sum_probs=114.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCc-HHHHHHHHHHH-------------HHHHhCCCCCC-HhhHHHHHH
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQC-VLLYNSLHVCF-------------VRMIRKGFVPD-KRTHTILVN  129 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~-------------~~m~~~g~~p~-~~~~~~li~  129 (260)
                      ..+..+...+...|++++|++.|++..+..  |+ ...+..+..++             ++..+  ..|+ ...+-.+..
T Consensus       462 ~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~--P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~--~~P~~~~~~~a~al  537 (1157)
T PRK11447        462 DRLAQQAEALENQGKWAQAAELQRQRLALD--PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQ--QKPNDPEQVYAYGL  537 (1157)
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCCHHHHHHHHH
Confidence            357778889999999999999999988753  44 33333333333             22222  2332 333333344


Q ss_pred             HHhccCCHHHHHHHHHHHHhCCCCC-------------------------CHHHHHHHHHHHHHCCCCCChhchHHHHHH
Q 041786          130 AWCSSGKMREAQEFLQELSDKGFNP-------------------------PVRSAKQMVNKMIKQGSVPDLETFNSLIET  184 (260)
Q Consensus       130 ~~~~~g~~~~a~~~~~~m~~~~~~~-------------------------~~~~a~~l~~~m~~~g~~p~~~~~~~li~~  184 (260)
                      .+...|+.++|...++.+......+                         +..+|..+++     ..+.+...+..+-..
T Consensus       538 ~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~-----~~p~~~~~~~~La~~  612 (1157)
T PRK11447        538 YLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLR-----QQPPSTRIDLTLADW  612 (1157)
T ss_pred             HHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHH-----hCCCCchHHHHHHHH
Confidence            5567788888888877654322211                         1223444443     123455566777788


Q ss_pred             HHhcCC-----------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc------------ccHHHH
Q 041786          185 ICKSGE-----------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDDA  240 (260)
Q Consensus       185 ~~~~~~-----------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a  240 (260)
                      +.+.|+           ....| +...+..+...|...|+.++|...++...+.  .|+...            |+.++|
T Consensus       613 ~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~~g~~~eA  690 (1157)
T PRK11447        613 AQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVALAWAALGDTAAA  690 (1157)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCCCHHHH
Confidence            888887           23344 5678888999999999999999999987654  333322            999999


Q ss_pred             HHHHHHHHhc
Q 041786          241 FCFFSEMQIK  250 (260)
Q Consensus       241 ~~~~~~m~~~  250 (260)
                      ..++++....
T Consensus       691 ~~~~~~al~~  700 (1157)
T PRK11447        691 QRTFNRLIPQ  700 (1157)
T ss_pred             HHHHHHHhhh
Confidence            9999998764

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

Probab=97.37  E-value=0.063  Score=45.53  Aligned_cols=217  Identities=17%  Similarity=0.137  Sum_probs=118.6

Q ss_pred             chhhhhhccccchhhhhHHHHHHHHcccchhHHH----HHhhhhhc-chH--HHHHHHHhcccCCCCCCHHHHHHHHHHH
Q 041786            2 TTVAAAKTSKEDYFAAVNHIANIVRHDIYAERTL----NRLNLTLI-SEL--SMWKTIELMKPDSLSVFPQTLSLIIEEF   74 (260)
Q Consensus         2 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~-~~~--~a~~~~~~m~~~g~~~~~~~~~~li~~~   74 (260)
                      |.++++..+..+|..+...+..+.+.|++-..-+    +.++++.. +.+  .|..++.-     -+...+|+.++-.-|
T Consensus       266 ~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~i-----dKyR~ETCCiIaNYY  340 (559)
T KOG1155|consen  266 TQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNI-----DKYRPETCCIIANYY  340 (559)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHh-----ccCCccceeeehhHH
Confidence            4456677777777777777777777765432111    11122211 111  22222211     012334555555556


Q ss_pred             HhcCChHHHHHHHHHhhhcCC---------------------------------CCcHHHHHHHHHHHHHH---------
Q 041786           75 GKHGLIDNAVEVFNKCTAFNC---------------------------------QQCVLLYNSLHVCFVRM---------  112 (260)
Q Consensus        75 ~~~~~~~~a~~~~~~m~~~~~---------------------------------~~~~~~~~~li~~~~~m---------  112 (260)
                      +-.++.++|...|+...+.+-                                 +.|-..|-.|-.+|+-|         
T Consensus       341 Slr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRAWYGLGQaYeim~Mh~YaLyY  420 (559)
T KOG1155|consen  341 SLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPRDYRAWYGLGQAYEIMKMHFYALYY  420 (559)
T ss_pred             HHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCchhHHHHhhhhHHHHHhcchHHHHHH
Confidence            666666666666666554431                                 12222333332222111         


Q ss_pred             -H-hCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcC
Q 041786          113 -I-RKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSG  189 (260)
Q Consensus       113 -~-~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~  189 (260)
                       + ...++| |...|.+|=..|.+.+++++|+..|......|-.                    +...|..|-..|-+.+
T Consensus       421 fqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt--------------------e~~~l~~LakLye~l~  480 (559)
T KOG1155|consen  421 FQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT--------------------EGSALVRLAKLYEELK  480 (559)
T ss_pred             HHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc--------------------chHHHHHHHHHHHHHH
Confidence             1 123455 6899999999999999999999999987765422                    2233333333333333


Q ss_pred             C------------------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCcccHHHHHHHHHHHHhc
Q 041786          190 E------------------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQFDDAFCFFSEMQIK  250 (260)
Q Consensus       190 ~------------------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~g~~~~a~~~~~~m~~~  250 (260)
                      +                  ....| .....-.|-..+.+.+++++|...-......+       ...++|..++++....
T Consensus       481 d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~~-------~e~eeak~LlReir~~  553 (559)
T KOG1155|consen  481 DLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKGE-------TECEEAKALLREIRKI  553 (559)
T ss_pred             hHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcCC-------chHHHHHHHHHHHHHh
Confidence            3                  11223 22233335566778888888887665554432       4578888888887754

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

Probab=97.33  E-value=0.06  Score=43.61  Aligned_cols=33  Identities=9%  Similarity=0.005  Sum_probs=20.4

Q ss_pred             HHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCc
Q 041786          198 NTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKL  230 (260)
Q Consensus       198 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  230 (260)
                      .+-..|..+|...|+.++....+.++.+....+
T Consensus       250 evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~  282 (389)
T COG2956         250 EVLEMLYECYAQLGKPAEGLNFLRRAMETNTGA  282 (389)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCc
Confidence            345566666777777777777666666554333

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.33  E-value=0.0026  Score=53.95  Aligned_cols=94  Identities=15%  Similarity=0.264  Sum_probs=71.2

Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhc--CCCCcHHHHHHHH-HHH--------HHH----HhCCCCCCHh
Q 041786           58 DSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAF--NCQQCVLLYNSLH-VCF--------VRM----IRKGFVPDKR  122 (260)
Q Consensus        58 ~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~li-~~~--------~~m----~~~g~~p~~~  122 (260)
                      .+...+......+++.+....+++++..++...+..  ....-..|..+++ .|.        -.|    ...|+-||..
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            355667788888888888888888888888888765  2223334455666 443        122    3459999999


Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 041786          123 THTILVNAWCSSGKMREAQEFLQELSDKG  151 (260)
Q Consensus       123 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~  151 (260)
                      +||.||+.+.+.|++..|.++...|...+
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe  168 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQE  168 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhh
Confidence            99999999999999999999999877544

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=97.32  E-value=0.0019  Score=54.74  Aligned_cols=103  Identities=16%  Similarity=0.103  Sum_probs=82.1

Q ss_pred             CCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC----
Q 041786          115 KGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE----  190 (260)
Q Consensus       115 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~----  190 (260)
                      .+...+......+++.+....+++.+..++.+.+...                 ....--..|.+++|..|...|.    
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~-----------------~~~~~~~~t~ha~vR~~l~~~~~~~~  122 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSP-----------------NCSYLLPSTHHALVRQCLELGAEDEL  122 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCc-----------------ccccccCccHHHHHHHHHhcCCHHHH
Confidence            4455677788888888888888999999888887642                 1222334455688888888886    


Q ss_pred             ---------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc
Q 041786          191 ---------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL  234 (260)
Q Consensus       191 ---------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  234 (260)
                               .|+-||..|+|.||..+.+.|++..|.++..+|...+...++.+
T Consensus       123 l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t  175 (429)
T PF10037_consen  123 LELLKNRLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPST  175 (429)
T ss_pred             HHHHhChhhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchH
Confidence                     89999999999999999999999999999999988776655544

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 [].

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

Probab=97.27  E-value=0.046  Score=52.22  Aligned_cols=175  Identities=14%  Similarity=0.033  Sum_probs=114.8

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      +-..++......++|+...+..  -.-.+|..|...|.+....++|.++|+.|.+.                     -| 
T Consensus      1506 lEn~yG~eesl~kVFeRAcqyc--d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK---------------------F~- 1561 (1710)
T KOG1070|consen 1506 LENAYGTEESLKKVFERACQYC--DAYTVHLKLLGIYEKSEKNDEADELLRLMLKK---------------------FG- 1561 (1710)
T ss_pred             HHHhhCcHHHHHHHHHHHHHhc--chHHHHHHHHHHHHHhhcchhHHHHHHHHHHH---------------------hc-
Confidence            3334445556666676665431  12345667777777777777777777777652                     12 


Q ss_pred             CCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-HCCCCCC-hhchHHHHHHHHhcCCCCCCc
Q 041786          118 VPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMI-KQGSVPD-LETFNSLIETICKSGELGLCA  195 (260)
Q Consensus       118 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~-~~g~~p~-~~~~~~li~~~~~~~~~~~~~  195 (260)
                       -...+|......+.+.++-+.|.+++.+..+.--.-...+..+-|.+|. +.|-.+- ...|--++.+|        .-
T Consensus      1562 -q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ay--------PK 1632 (1710)
T KOG1070|consen 1562 -QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAY--------PK 1632 (1710)
T ss_pred             -chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhC--------cc
Confidence             4567888888999999988999999887665432223445566666664 3343222 23555555553        22


Q ss_pred             chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCcccHHHHHHHHHHHHh
Q 041786          196 DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQFDDAFCFFSEMQI  249 (260)
Q Consensus       196 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~g~~~~a~~~~~~m~~  249 (260)
                      -...|+..|+.=.+.|+.+.++.+|++....++.|    ++.....+-|-+|..
T Consensus      1633 RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~----kkmKfffKkwLeyEk 1682 (1710)
T KOG1070|consen 1633 RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSI----KKMKFFFKKWLEYEK 1682 (1710)
T ss_pred             chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCCh----hHhHHHHHHHHHHHH
Confidence            45789999999999999999999999999988765    444455555555543

>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=97.20  E-value=0.0026  Score=48.39  Aligned_cols=77  Identities=18%  Similarity=0.246  Sum_probs=58.4

Q ss_pred             HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcC
Q 041786          110 VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSG  189 (260)
Q Consensus       110 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~  189 (260)
                      +.|.+-|+.-|..+|+.||+.+=+.. +- -..+|+.+=. .......-|.+++++|...|+.||..|+..|++.+++.+
T Consensus        76 ~~M~efgv~kDL~~Y~~LLDvFPKg~-fv-p~n~fQ~~F~-hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen   76 KKMDEFGVEKDLEVYKALLDVFPKGK-FV-PRNFFQAEFM-HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             HHHHHcCCcccHHHHHHHHHhCCCCC-cc-cccHHHHHhc-cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence            78999999999999999999988733 22 3333333211 123334478999999999999999999999999988777

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

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

Probab=97.18  E-value=0.065  Score=47.24  Aligned_cols=216  Identities=14%  Similarity=0.125  Sum_probs=120.0

Q ss_pred             ccchhhhhHHHHHHHHcccchhHHH---HHhhhhhcchHHHHHHHHhcccCCCCCC-HHHHHHHHHHHHhcCChHHHHHH
Q 041786           11 KEDYFAAVNHIANIVRHDIYAERTL---NRLNLTLISELSMWKTIELMKPDSLSVF-PQTLSLIIEEFGKHGLIDNAVEV   86 (260)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~~~~~~a~~~   86 (260)
                      ..+.|..++++.+.+.-+.-...++   -.++.......+|...+..-.  ...|+ ...|.-|-..|-..|.++.|+..
T Consensus       231 ~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl--~lrpn~A~a~gNla~iYyeqG~ldlAI~~  308 (966)
T KOG4626|consen  231 QGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRAL--NLRPNHAVAHGNLACIYYEQGLLDLAIDT  308 (966)
T ss_pred             cchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHH--hcCCcchhhccceEEEEeccccHHHHHHH
Confidence            3455667777777666654333332   222333333334444444322  33454 67777888888889999999999


Q ss_pred             HHHhhhcCCCCc-HHHHHHHHHHH---------HHH--HhCCCCCC-HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC
Q 041786           87 FNKCTAFNCQQC-VLLYNSLHVCF---------VRM--IRKGFVPD-KRTHTILVNAWCSSGKMREAQEFLQELSDKGFN  153 (260)
Q Consensus        87 ~~~m~~~~~~~~-~~~~~~li~~~---------~~m--~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  153 (260)
                      |++..+.  +|+ ...||.|-.+.         ..+  .....-|+ ....+.|-..|...|.++.|..+|.....    
T Consensus       309 Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~----  382 (966)
T KOG4626|consen  309 YKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNIYREQGKIEEATRLYLKALE----  382 (966)
T ss_pred             HHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhccchHHHHHHHHHHh----
Confidence            9887753  343 23444444222         000  01111222 23344555555555555655555554332    


Q ss_pred             CCHHHHHHHHHHHHHCCCCCC-hhchHHHHHHHHhcCC-----------CCCCcch-HHHHHHHHhhhhhccHHHHHHHH
Q 041786          154 PPVRSAKQMVNKMIKQGSVPD-LETFNSLIETICKSGE-----------LGLCADV-NTNKISIPAVSKEFMIDEAFRLL  220 (260)
Q Consensus       154 ~~~~~a~~l~~~m~~~g~~p~-~~~~~~li~~~~~~~~-----------~~~~~~~-~t~~~li~~~~~~g~~~~a~~~~  220 (260)
                                       +-|. ...++.|-..|-..|+           ..+.|+. ..|+.+-+.|-..|+++.|...+
T Consensus       383 -----------------v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v~~A~q~y  445 (966)
T KOG4626|consen  383 -----------------VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDVSAAIQCY  445 (966)
T ss_pred             -----------------hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhHHHHHHHH
Confidence                             1222 2345666666666666           5566763 46777777788888888888877


Q ss_pred             HHHHHCCCCcCCCc------------ccHHHHHHHHHHHHhcCCCCC
Q 041786          221 CNLVEDGHKLFPSL------------GQFDDAFCFFSEMQIKTHPPN  255 (260)
Q Consensus       221 ~~m~~~~~~p~~~~------------g~~~~a~~~~~~m~~~g~~p~  255 (260)
                      .+....+  |.-.-            |++.+|+.-+++..  .++||
T Consensus       446 ~rAI~~n--Pt~AeAhsNLasi~kDsGni~~AI~sY~~aL--klkPD  488 (966)
T KOG4626|consen  446 TRAIQIN--PTFAEAHSNLASIYKDSGNIPEAIQSYRTAL--KLKPD  488 (966)
T ss_pred             HHHHhcC--cHHHHHHhhHHHHhhccCCcHHHHHHHHHHH--ccCCC
Confidence            6655432  21111            88888888887665  34554

>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=97.09  E-value=0.014  Score=41.02  Aligned_cols=103  Identities=16%  Similarity=0.089  Sum_probs=73.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      |..++..+|.++++.|+++....+.+..=  |+.++...-..-     .-..+...|+..+..+++.+|+..|++..|.+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~~~~~-----~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~   73 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKKKEGD-----YPPSSPLYPTSRLLIAIVHSFGYNGDIFSALK   73 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCccccCc-----cCCCCCCCCCHHHHHHHHHHHHhcccHHHHHH
Confidence            46789999999999999999988886533  322211000000     01245678999999999999999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC
Q 041786          143 FLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE  190 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~  190 (260)
                      +.+...+                  .-++.-+..+|..|+.-.-..-+
T Consensus        74 ~vd~fs~------------------~Y~I~i~~~~W~~Ll~W~~v~s~  103 (126)
T PF12921_consen   74 LVDFFSR------------------KYPIPIPKEFWRRLLEWAYVLSS  103 (126)
T ss_pred             HHHHHHH------------------HcCCCCCHHHHHHHHHHHHHhcC
Confidence            9998776                  44566667777777776555443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

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

Probab=97.05  E-value=0.061  Score=47.98  Aligned_cols=159  Identities=17%  Similarity=0.117  Sum_probs=99.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHH
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQ  145 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  145 (260)
                      .|.-+|.+|+..|+..+|..+..+-.+                        -+||..-|..+-+..-....+++|.++++
T Consensus       426 mw~~vi~CY~~lg~~~kaeei~~q~le------------------------k~~d~~lyc~LGDv~~d~s~yEkawElsn  481 (777)
T KOG1128|consen  426 MWDPVILCYLLLGQHGKAEEINRQELE------------------------KDPDPRLYCLLGDVLHDPSLYEKAWELSN  481 (777)
T ss_pred             HHHHHHHHHHHhcccchHHHHHHHHhc------------------------CCCcchhHHHhhhhccChHHHHHHHHHhh
Confidence            455566666666655555555444332                        24666666666666666666777777776


Q ss_pred             HHHhC-----C----CCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCCcc-hHHHHHHH
Q 041786          146 ELSDK-----G----FNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLCAD-VNTNKISI  204 (260)
Q Consensus       146 ~m~~~-----~----~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~~-~~t~~~li  204 (260)
                      ....+     |    ..++..++...|+.-.+.. .--..+|-.+=.+..+.++           ....|| ...||.+=
T Consensus       482 ~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd~~eaWnNls  560 (777)
T KOG1128|consen  482 YISARAQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLEPDNAEAWNNLS  560 (777)
T ss_pred             hhhHHHHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcCCCchhhhhhhh
Confidence            43222     1    0244445555554433221 1123344333333333333           455675 45799999


Q ss_pred             HhhhhhccHHHHHHHHHHHHHCCCCcCCCc----------ccHHHHHHHHHHHHh
Q 041786          205 PAVSKEFMIDEAFRLLCNLVEDGHKLFPSL----------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       205 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~----------g~~~~a~~~~~~m~~  249 (260)
                      .+|.+.|+-.+|+..+.+..+.+..+|..-          |.+++|++.+++|..
T Consensus       561 ~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  561 TAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            999999999999999999998887776654          999999999988764

>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=97.02  E-value=0.21  Score=43.98  Aligned_cols=182  Identities=14%  Similarity=0.099  Sum_probs=100.7

Q ss_pred             chhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHH-HHHHhc-----CChHHHHHHHHHhhhcCCC-------
Q 041786           30 YAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLII-EEFGKH-----GLIDNAVEVFNKCTAFNCQ-------   96 (260)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li-~~~~~~-----~~~~~a~~~~~~m~~~~~~-------   96 (260)
                      ......-.++.+.+...+|..++..+.+++  |+-..|...+ .+..-.     ...+....+|+++...--+       
T Consensus        39 ~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl  116 (517)
T PF12569_consen   39 AVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKYPRSDAPRRL  116 (517)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhCccccchhHh
Confidence            334555566777788889999999998875  5655555444 444222     2456667777777553200       


Q ss_pred             -C---cHHHHHHHHHHH-HHHHhCCC----------------------------------------------CCCHhhH-
Q 041786           97 -Q---CVLLYNSLHVCF-VRMIRKGF----------------------------------------------VPDKRTH-  124 (260)
Q Consensus        97 -~---~~~~~~~li~~~-~~m~~~g~----------------------------------------------~p~~~~~-  124 (260)
                       .   +..-|...+..| ..+.+.|+                                              .|+...| 
T Consensus       117 ~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~  196 (517)
T PF12569_consen  117 PLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWT  196 (517)
T ss_pred             hcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHH
Confidence             0   011122222111 22333333                                              1222222 


Q ss_pred             -HHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCC-hhchHHHHHHHHhcCC-----------C
Q 041786          125 -TILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPD-LETFNSLIETICKSGE-----------L  191 (260)
Q Consensus       125 -~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~-~~~~~~li~~~~~~~~-----------~  191 (260)
                       .-+-..|-+.|+.++|++.+++..+                   .  .|+ +..|..--..|-+.|+           +
T Consensus       197 ~~~lAqhyd~~g~~~~Al~~Id~aI~-------------------h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar  255 (517)
T PF12569_consen  197 LYFLAQHYDYLGDYEKALEYIDKAIE-------------------H--TPTLVELYMTKARILKHAGDLKEAAEAMDEAR  255 (517)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHh-------------------c--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence             2223334445555555555554433                   2  455 4566666777778887           2


Q ss_pred             CCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc
Q 041786          192 GLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL  234 (260)
Q Consensus       192 ~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  234 (260)
                      ...+ |-..-+-....+.++|++++|..++....+.+..|....
T Consensus       256 ~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L  299 (517)
T PF12569_consen  256 ELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNL  299 (517)
T ss_pred             hCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCH
Confidence            3333 444555566777889999999999888887776444433

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 [], [].

>PRK14574 hmsH outer membrane protein; Provisional

Probab=96.97  E-value=0.13  Score=47.84  Aligned_cols=91  Identities=12%  Similarity=0.054  Sum_probs=68.1

Q ss_pred             hcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCH
Q 041786           42 LISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDK  121 (260)
Q Consensus        42 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~  121 (260)
                      .+...++.+.++.|...|.+....+--.+.++|...+++++|+.+|..+....-.                 .....++.
T Consensus       305 r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~-----------------~~~~~~~~  367 (822)
T PRK14574        305 RHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGK-----------------TFRNSDDL  367 (822)
T ss_pred             hhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcccc-----------------ccCCCcch
Confidence            3344488888899988887777788899999999999999999999988642100                 00112344


Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          122 RTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       122 ~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      .....|..+|...+++++|.++++.+.+
T Consensus       368 ~~~~~L~yA~ld~e~~~~A~~~l~~~~~  395 (822)
T PRK14574        368 LDADDLYYSLNESEQLDKAYQFAVNYSE  395 (822)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHh
Confidence            4457788888888888888888888876

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=96.97  E-value=0.12  Score=47.99  Aligned_cols=176  Identities=11%  Similarity=-0.017  Sum_probs=117.2

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHH
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSV---FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVR  111 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  111 (260)
                      +-..+...+...+|++.|+...+.....   ....+..|..++.+.|++++|..+++.+.... ++....+.        
T Consensus       278 la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~-P~~~~~~~--------  348 (765)
T PRK10049        278 VASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNS-PPFLRLYG--------  348 (765)
T ss_pred             HHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcC-CceEeecC--------
Confidence            4456666777779999999876542111   23556777788999999999999999988642 11111110        


Q ss_pred             HHhCCCCCCH---hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhc
Q 041786          112 MIRKGFVPDK---RTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKS  188 (260)
Q Consensus       112 m~~~g~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~  188 (260)
                        ...-.|+.   ..+..+...+...|++++|+++++++....                    +-+...+..+...+...
T Consensus       349 --~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~--------------------P~n~~l~~~lA~l~~~~  406 (765)
T PRK10049        349 --SPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA--------------------PGNQGLRIDYASVLQAR  406 (765)
T ss_pred             --CCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------------------CCCHHHHHHHHHHHHhc
Confidence              00113442   245567778889999999999999887631                    22345666666666666


Q ss_pred             CC-----------CCCCcc-hHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-ccHHHHHHH
Q 041786          189 GE-----------LGLCAD-VNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-GQFDDAFCF  243 (260)
Q Consensus       189 ~~-----------~~~~~~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-g~~~~a~~~  243 (260)
                      |+           ....|+ ...+-.....+.+.|++++|..+++++.+.  .|+... .+++.+.++
T Consensus       407 g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~--~Pd~~~~~~~~~~~~~  472 (765)
T PRK10049        407 GWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR--EPQDPGVQRLARARDV  472 (765)
T ss_pred             CCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHh
Confidence            76           445565 455666667889999999999999999874  354444 444444443

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=96.89  E-value=0.27  Score=43.10  Aligned_cols=174  Identities=14%  Similarity=0.035  Sum_probs=97.2

Q ss_pred             hhhhcchHHHHHHHHhcc-------cCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhc-----CC-CCcHHH-HHH
Q 041786           39 NLTLISELSMWKTIELMK-------PDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAF-----NC-QQCVLL-YNS  104 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~-------~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~-~~~~~~-~~~  104 (260)
                      +....+..+|..+|.++.       .....--..+++-|-..|.+.|++++|...++...+.     |. .|.+.. ++.
T Consensus       251 y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~  330 (508)
T KOG1840|consen  251 YRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSE  330 (508)
T ss_pred             HHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHH
Confidence            333444446666665542       2221122456777778899999999998888775532     11 122221 111


Q ss_pred             HH--HHH--------------HHHHhCCCCCC----HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 041786          105 LH--VCF--------------VRMIRKGFVPD----KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVN  164 (260)
Q Consensus       105 li--~~~--------------~~m~~~g~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~  164 (260)
                      +.  .+.              -.....-..++    ..+++.|=..|-+.|++++|.++|++.....            +
T Consensus       331 ~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~------------~  398 (508)
T KOG1840|consen  331 LAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQIL------------R  398 (508)
T ss_pred             HHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHH------------H
Confidence            11  111              11122222222    3588899999999999999999998765421            1


Q ss_pred             HHHHCCCCCChhchHHHHHHHHhcCC------------------CCCCcc-hHHHHHHHHhhhhhccHHHHHHHHHHHH
Q 041786          165 KMIKQGSVPDLETFNSLIETICKSGE------------------LGLCAD-VNTNKISIPAVSKEFMIDEAFRLLCNLV  224 (260)
Q Consensus       165 ~m~~~g~~p~~~~~~~li~~~~~~~~------------------~~~~~~-~~t~~~li~~~~~~g~~~~a~~~~~~m~  224 (260)
                      +.......-....++.|-.+|.+.+.                  ....|+ ..+|..|...|.+.|+++.|.++.+...
T Consensus       399 ~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  399 ELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             hcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            10000000112223333333333332                  112244 4689999999999999999999988776

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=96.88  E-value=0.11  Score=45.45  Aligned_cols=157  Identities=17%  Similarity=0.129  Sum_probs=103.0

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC-CCCHh-hHHHHHHHHhccCCHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF-VPDKR-THTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~-~p~~~-~~~~li~~~~~~g~~~~a~  141 (260)
                      ..+...|...|...|+++.|..+++...+.                 .-...|. .|... ..+.+-..|...+++++|.
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~-----------------l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv  261 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRI-----------------LEKTSGLKHLVVASMLNILALVYRSLGKYDEAV  261 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHH-----------------HHHccCccCHHHHHHHHHHHHHHHHhccHHHHH
Confidence            456677899999999999999999987752                 0011221 12221 2234556788899999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-------------------CCCCcchHH-HH
Q 041786          142 EFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-------------------LGLCADVNT-NK  201 (260)
Q Consensus       142 ~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-------------------~~~~~~~~t-~~  201 (260)
                      .+|+++..            ++....-...+--..+++.|-.+|.+.|+                   .-..|.+.. ++
T Consensus       262 ~ly~~AL~------------i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~  329 (508)
T KOG1840|consen  262 NLYEEALT------------IREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLS  329 (508)
T ss_pred             HHHHHHHH------------HHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHH
Confidence            99997653            33333222222234566777777888887                   233444443 55


Q ss_pred             HHHHhhhhhccHHHHHHHHHHHHHC---CCCcCCCc---------------ccHHHHHHHHHHHHh
Q 041786          202 ISIPAVSKEFMIDEAFRLLCNLVED---GHKLFPSL---------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       202 ~li~~~~~~g~~~~a~~~~~~m~~~---~~~p~~~~---------------g~~~~a~~~~~~m~~  249 (260)
                      .+...+...+++++|..++....+.   -..++...               |++++|.++++....
T Consensus       330 ~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~  395 (508)
T KOG1840|consen  330 ELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQ  395 (508)
T ss_pred             HHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            6677788999999999988765432   23334412               999999999987764

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

Probab=96.81  E-value=0.18  Score=40.91  Aligned_cols=194  Identities=12%  Similarity=0.063  Sum_probs=98.7

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH---------------HH
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF---------------VR  111 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~---------------~~  111 (260)
                      .|.++|-+|.+.. +-+..+--+|=+.|-+.|+++.|+++-+.+.++   ||...--.++..+               +.
T Consensus        53 KAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~DRAE~  128 (389)
T COG2956          53 KAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLLDRAED  128 (389)
T ss_pred             hHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhhhHHHH
Confidence            8999999987641 112334456778899999999999999988863   3322211111110               11


Q ss_pred             HHhCCCC---CCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCC-CChhc-hHHHHHHHH
Q 041786          112 MIRKGFV---PDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSV-PDLET-FNSLIETIC  186 (260)
Q Consensus       112 m~~~g~~---p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~-p~~~~-~~~li~~~~  186 (260)
                      +...-+.   .-....--|+..|-...++++|+++-+++.+.+-.+...+.-..+.++...-.. -|..- -..+-.+  
T Consensus       129 ~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kA--  206 (389)
T COG2956         129 IFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKA--  206 (389)
T ss_pred             HHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHH--
Confidence            1111111   011122234445555555555555555554444333333333333333221110 01110 1111111  


Q ss_pred             hcCCCCCCcc-hHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-----------ccHHHHHHHHHHHHhc
Q 041786          187 KSGELGLCAD-VNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       187 ~~~~~~~~~~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-----------g~~~~a~~~~~~m~~~  250 (260)
                          ....|+ +..-..+-..+...|++..|.+.++...+.+..--+.+           |+.++...++..+.+.
T Consensus       207 ----lqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~  278 (389)
T COG2956         207 ----LQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET  278 (389)
T ss_pred             ----HhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence                111222 22223344667889999999999998887653222222           8888888888877655

>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=96.78  E-value=0.22  Score=40.54  Aligned_cols=193  Identities=13%  Similarity=0.029  Sum_probs=92.8

Q ss_pred             HHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHH-HH------HHHHh-CCCCCCH
Q 041786           50 KTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHV-CF------VRMIR-KGFVPDK  121 (260)
Q Consensus        50 ~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~-~~------~~m~~-~g~~p~~  121 (260)
                      .++.++.+.. .|.......+...+....+-+.++.-+++.......++..++..+.. .+      +.-.+ ..-.-+.
T Consensus        53 ~vl~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~~~l  131 (290)
T PF04733_consen   53 SVLSEIKKSS-SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKGGSL  131 (290)
T ss_dssp             HHHHHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTTTCH
T ss_pred             HHHHHhccCC-ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHccCcc
Confidence            4555664444 56666655554444333444555555544433332222223322221 11      21111 1111455


Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHH-------------------HHHHHHHHHHHCCCCCChhchHHHH
Q 041786          122 RTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVR-------------------SAKQMVNKMIKQGSVPDLETFNSLI  182 (260)
Q Consensus       122 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------------~a~~l~~~m~~~g~~p~~~~~~~li  182 (260)
                      ......+..|.+.+++|.|...++.|.+.+  .|..                   .|..+|+++.+. ..+++.+.+.+.
T Consensus       132 E~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A  208 (290)
T PF04733_consen  132 ELLALAVQILLKMNRPDLAEKELKNMQQID--EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLA  208 (290)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHH
Confidence            666778899999999999999999998653  2211                   666666665433 345555555555


Q ss_pred             HHHHhcCC------------CCCCcchHHHHHHHHhhhhhccH-HHHHHHHHHHHHCCCCcC-CCcccHHHHHHHHHHHH
Q 041786          183 ETICKSGE------------LGLCADVNTNKISIPAVSKEFMI-DEAFRLLCNLVEDGHKLF-PSLGQFDDAFCFFSEMQ  248 (260)
Q Consensus       183 ~~~~~~~~------------~~~~~~~~t~~~li~~~~~~g~~-~~a~~~~~~m~~~~~~p~-~~~g~~~~a~~~~~~m~  248 (260)
                      .++...|+            ..-.-+..+...+|......|+. +.+.+.+.+++..  .|+ +.+.+..+....|++..
T Consensus       209 ~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~--~p~h~~~~~~~~~~~~FD~~~  286 (290)
T PF04733_consen  209 VCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS--NPNHPLVKDLAEKEAEFDRAV  286 (290)
T ss_dssp             HHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH--TTTSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHHH
Confidence            55555555            11122344444455555555555 4455555555542  121 11244444455554443

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.

>PRK12370 invasion protein regulator; Provisional

Probab=96.73  E-value=0.15  Score=45.50  Aligned_cols=79  Identities=13%  Similarity=0.056  Sum_probs=54.0

Q ss_pred             hhhhHHHHHHHHcccchh---HHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 041786           15 FAAVNHIANIVRHDIYAE---RTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCT   91 (260)
Q Consensus        15 ~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   91 (260)
                      ..+...+.+.+..+....   ..+-.++...+...+|...|+...+.+ +.+...|..+-..+...|++++|...++...
T Consensus       321 ~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al  399 (553)
T PRK12370        321 IKAKEHAIKATELDHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECL  399 (553)
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            344455555555544332   223334445566668999999887664 2246678888899999999999999999988


Q ss_pred             hcC
Q 041786           92 AFN   94 (260)
Q Consensus        92 ~~~   94 (260)
                      +.+
T Consensus       400 ~l~  402 (553)
T PRK12370        400 KLD  402 (553)
T ss_pred             hcC
Confidence            753

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

Probab=96.69  E-value=0.29  Score=40.79  Aligned_cols=198  Identities=11%  Similarity=0.036  Sum_probs=115.0

Q ss_pred             HHHHHHHhcccCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCc-HHHHHHHHHHH---------HHHHhC
Q 041786           47 SMWKTIELMKPDSLSVF-PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQC-VLLYNSLHVCF---------VRMIRK  115 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~---------~~m~~~  115 (260)
                      .+.+.++.  ..+..|+ ...+..+-..+...|++++|...+++..+..  |+ ...+..+-.++         ....+.
T Consensus        98 ~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~--p~~~~~~~~la~i~~~~g~~~eA~~~l~~  173 (355)
T cd05804          98 HVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN--PDDAWAVHAVAHVLEMQGRFKEGIAFMES  173 (355)
T ss_pred             hHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCcHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence            45555544  2222343 3344455677888999999999999988754  33 33333333333         112222


Q ss_pred             CC-----CCCH--hhHHHHHHHHhccCCHHHHHHHHHHHHhCCC-CCCHH---HHHHHHHHHHHCCCCCChhchHHHHHH
Q 041786          116 GF-----VPDK--RTHTILVNAWCSSGKMREAQEFLQELSDKGF-NPPVR---SAKQMVNKMIKQGSVPDLETFNSLIET  184 (260)
Q Consensus       116 g~-----~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~---~a~~l~~~m~~~g~~p~~~~~~~li~~  184 (260)
                      .+     .|+.  ..|..+-..+...|+.++|.+++++...... .+...   .+..++..+...|...-..-|..+...
T Consensus       174 ~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~  253 (355)
T cd05804         174 WRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADY  253 (355)
T ss_pred             hhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHH
Confidence            11     1232  3455677889999999999999998754322 22222   122455555666655555566555544


Q ss_pred             HHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCc----C--CCc-------------ccHHHHHHHHH
Q 041786          185 ICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKL----F--PSL-------------GQFDDAFCFFS  245 (260)
Q Consensus       185 ~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p----~--~~~-------------g~~~~a~~~~~  245 (260)
                      .......  ............++...|+.+.|..+++.+......+    .  ..+             |+.++|...+.
T Consensus       254 ~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~  331 (355)
T cd05804         254 AAWHFPD--HGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLG  331 (355)
T ss_pred             HHhhcCc--ccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            3222111  1112222356677889999999999999987643321    0  011             99999999988


Q ss_pred             HHHhc
Q 041786          246 EMQIK  250 (260)
Q Consensus       246 ~m~~~  250 (260)
                      +-...
T Consensus       332 ~al~~  336 (355)
T cd05804         332 PVRDD  336 (355)
T ss_pred             HHHHH
Confidence            76643

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.

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=96.62  E-value=0.1  Score=37.56  Aligned_cols=96  Identities=13%  Similarity=-0.067  Sum_probs=68.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHH
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQ  145 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  145 (260)
                      .+..+-..+.+.|++++|...|+......                       ..+...|..+-..+.+.|++++|...|+
T Consensus        26 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-----------------------P~~~~a~~~lg~~~~~~g~~~~A~~~y~   82 (144)
T PRK15359         26 TVYASGYASWQEGDYSRAVIDFSWLVMAQ-----------------------PWSWRAHIALAGTWMMLKEYTTAINFYG   82 (144)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-----------------------CCcHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            35556677788899999998888876522                       1356677777888888899999998888


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          146 ELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       146 ~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                      .....+                     |                     .+...+..+-.++...|+.++|...|+...+
T Consensus        83 ~Al~l~---------------------p---------------------~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~  120 (144)
T PRK15359         83 HALMLD---------------------A---------------------SHPEPVYQTGVCLKMMGEPGLAREAFQTAIK  120 (144)
T ss_pred             HHHhcC---------------------C---------------------CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            777531                     1                     1344555555667777888888888888766


Q ss_pred             C
Q 041786          226 D  226 (260)
Q Consensus       226 ~  226 (260)
                      .
T Consensus       121 ~  121 (144)
T PRK15359        121 M  121 (144)
T ss_pred             h
Confidence            4

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

Probab=96.51  E-value=0.12  Score=36.48  Aligned_cols=92  Identities=11%  Similarity=-0.021  Sum_probs=65.1

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHh
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIR  114 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~  114 (260)
                      +...+...+...+|.+.|+.....+ +.+...|..+-..+.+.|++++|...|+...+.+                    
T Consensus        23 ~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--------------------   81 (135)
T TIGR02552        23 LAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD--------------------   81 (135)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--------------------
Confidence            3344445556667888887775543 2356777778888888888888888888765421                    


Q ss_pred             CCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          115 KGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       115 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                         +.+...+..+-..|...|+.++|...|+...+.
T Consensus        82 ---p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        82 ---PDDPRPYFHAAECLLALGEPESALKALDLAIEI  114 (135)
T ss_pred             ---CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence               234566666777888999999999999887764

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

>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=96.50  E-value=0.061  Score=45.53  Aligned_cols=107  Identities=13%  Similarity=0.032  Sum_probs=61.2

Q ss_pred             HhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH-------
Q 041786           37 RLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF-------  109 (260)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-------  109 (260)
                      ++.........|.++|+++.+..  |+  ....|+..+...++-.+|.+++++..+.. +.+......-...+       
T Consensus       177 ~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~~  251 (395)
T PF09295_consen  177 KYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKYE  251 (395)
T ss_pred             HHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHH
Confidence            33333334446677777766553  33  33345666666666667777766666432 11211111111111       


Q ss_pred             ---HHHHh-CCCCCCH-hhHHHHHHHHhccCCHHHHHHHHHHHH
Q 041786          110 ---VRMIR-KGFVPDK-RTHTILVNAWCSSGKMREAQEFLQELS  148 (260)
Q Consensus       110 ---~~m~~-~g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~  148 (260)
                         .-.++ -.+.|+. .+|..|..+|.+.|+++.|+-.++.+-
T Consensus       252 lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  252 LALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence               00111 1356765 599999999999999999999988765

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PRK11189 lipoprotein NlpI; Provisional

Probab=96.46  E-value=0.38  Score=39.29  Aligned_cols=54  Identities=11%  Similarity=0.017  Sum_probs=38.5

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhc
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAF   93 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   93 (260)
                      +...+....|...|+...+.. +.+...|+.+-..|.+.|++++|...|+...+.
T Consensus        74 ~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l  127 (296)
T PRK11189         74 YDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLEL  127 (296)
T ss_pred             HHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            344455557777777765543 124678888888888888888888888887753

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

Probab=96.43  E-value=0.36  Score=41.33  Aligned_cols=129  Identities=16%  Similarity=0.136  Sum_probs=82.6

Q ss_pred             HHHHHHHhcccCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCC-HhhH
Q 041786           47 SMWKTIELMKPDSLSV-FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPD-KRTH  124 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~-~~~~  124 (260)
                      .|++.++.+.+.  .| |..-+....+.+.+.++..+|.+.++.+..                        ..|+ ...+
T Consensus       324 ~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~------------------------l~P~~~~l~  377 (484)
T COG4783         324 EALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALA------------------------LDPNSPLLQ  377 (484)
T ss_pred             hHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh------------------------cCCCccHHH
Confidence            556666665443  23 334444445666666666666666666554                        3455 3445


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHH
Q 041786          125 TILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISI  204 (260)
Q Consensus       125 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li  204 (260)
                      -.+-.+|.+.|++.+|+.++++....                    .+-|+..|..|-.+|...|+.     ...--.--
T Consensus       378 ~~~a~all~~g~~~eai~~L~~~~~~--------------------~p~dp~~w~~LAqay~~~g~~-----~~a~~A~A  432 (484)
T COG4783         378 LNLAQALLKGGKPQEAIRILNRYLFN--------------------DPEDPNGWDLLAQAYAELGNR-----AEALLARA  432 (484)
T ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhc--------------------CCCCchHHHHHHHHHHHhCch-----HHHHHHHH
Confidence            55667788888888888877766543                    244778888888888888842     22233445


Q ss_pred             HhhhhhccHHHHHHHHHHHHHC
Q 041786          205 PAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       205 ~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      ++|...|+++.|...+...++.
T Consensus       433 E~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         433 EGYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHh
Confidence            6777888888888887776654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=96.41  E-value=0.21  Score=35.92  Aligned_cols=91  Identities=5%  Similarity=-0.125  Sum_probs=72.5

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHh
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIR  114 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~  114 (260)
                      .-......+...+|.+.|+...... +.+...|..+-..+.+.|++++|...|+.....+                    
T Consensus        30 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~--------------------   88 (144)
T PRK15359         30 SGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD--------------------   88 (144)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--------------------
Confidence            3344555666668999999886654 2367888999999999999999999999888632                    


Q ss_pred             CCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          115 KGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       115 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                         +.+...+..+-.++.+.|+.++|+..|+...+
T Consensus        89 ---p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~  120 (144)
T PRK15359         89 ---ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIK  120 (144)
T ss_pred             ---CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               23567778888889999999999999998776

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.34  E-value=0.032  Score=44.36  Aligned_cols=100  Identities=17%  Similarity=0.236  Sum_probs=75.8

Q ss_pred             HHHHHHhcccCCCCCCHHHHHHHHHHHHhc-----CChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH-------------
Q 041786           48 MWKTIELMKPDSLSVFPQTLSLIIEEFGKH-----GLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF-------------  109 (260)
Q Consensus        48 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-------------  109 (260)
                      .++.|....  |-+-|..+|-+.+..|...     +.++-..-.+..|.+.|+..|..+|+.||..+             
T Consensus        53 ~e~~F~aa~--~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~  130 (406)
T KOG3941|consen   53 VEKQFEAAE--PEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQK  130 (406)
T ss_pred             hhhhhhccC--cccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHH
Confidence            344444433  3355788888888877654     55666667788899999999999999999554             


Q ss_pred             ----------------HHHHhCCCCCCHhhHHHHHHHHhccCC-HHHHHHHHHHHHh
Q 041786          110 ----------------VRMIRKGFVPDKRTHTILVNAWCSSGK-MREAQEFLQELSD  149 (260)
Q Consensus       110 ----------------~~m~~~g~~p~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~  149 (260)
                                      ++|...|+.||..+--.||++|.+-+- ..+..+..-.|-+
T Consensus       131 ~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmPk  187 (406)
T KOG3941|consen  131 VFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMPK  187 (406)
T ss_pred             HHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhhh
Confidence                            889999999999999999999999885 4456666666644

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

Probab=96.26  E-value=0.55  Score=39.14  Aligned_cols=205  Identities=13%  Similarity=0.023  Sum_probs=128.2

Q ss_pred             HHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH----------------
Q 041786           46 LSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF----------------  109 (260)
Q Consensus        46 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~----------------  109 (260)
                      ..|+++...-.+.+-.| ...|..-..+--+.|+.+.+-..+.+..+.   ++..+....+...                
T Consensus       101 ~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~---~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071         101 QQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAEL---AGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             HHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhcc---CCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            37888887766665433 335555567777889999999999998874   2233333333111                


Q ss_pred             HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHH-------HHHHHHHHHHHC-------------
Q 041786          110 VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVR-------SAKQMVNKMIKQ-------------  169 (260)
Q Consensus       110 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------~a~~l~~~m~~~-------------  169 (260)
                      .+..+.+ .-+.........+|.+.|++..+..++..|.+.|.-.+..       ....++++....             
T Consensus       177 ~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         177 DQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            2222222 2346677889999999999999999999999999876665       111111111110             


Q ss_pred             --CCCCChhchHHHHHHHHhcCC-------------------------------------------CCCCcchHHHHHHH
Q 041786          170 --GSVPDLETFNSLIETICKSGE-------------------------------------------LGLCADVNTNKISI  204 (260)
Q Consensus       170 --g~~p~~~~~~~li~~~~~~~~-------------------------------------------~~~~~~~~t~~~li  204 (260)
                        ..+-++..-.+++.-+.+.|+                                           ....-+...+.+|=
T Consensus       256 pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tLG  335 (400)
T COG3071         256 PRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTLG  335 (400)
T ss_pred             cHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHHHH
Confidence              011122222333333333333                                           11222336778888


Q ss_pred             HhhhhhccHHHHHHHHHHHHHCCCCcCCCc-----------ccHHHHHHHHHHHHhcCCCCCCC
Q 041786          205 PAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIKTHPPNRP  257 (260)
Q Consensus       205 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-----------g~~~~a~~~~~~m~~~g~~p~~~  257 (260)
                      .-|.+.+.+.+|...|+...+.  .|+..+           |+..+|..++++-...-.+|+..
T Consensus       336 ~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~~~  397 (400)
T COG3071         336 RLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPNLP  397 (400)
T ss_pred             HHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCCCc
Confidence            8899999999999999965554  455555           99999999998877665666543

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

Probab=96.26  E-value=0.072  Score=45.11  Aligned_cols=138  Identities=9%  Similarity=0.108  Sum_probs=92.0

Q ss_pred             cccchhhhhHHHHHHHHcccchhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 041786           10 SKEDYFAAVNHIANIVRHDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNK   89 (260)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~   89 (260)
                      ..++....+-++..+++....+.-.+-..+--.-...+|.+++-+... =++-|....+-|-..|-+.|+-..|.+.+-+
T Consensus       539 ~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~s-lip~dp~ilskl~dlydqegdksqafq~~yd  617 (840)
T KOG2003|consen  539 NLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANS-LIPNDPAILSKLADLYDQEGDKSQAFQCHYD  617 (840)
T ss_pred             CHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc-cCCCCHHHHHHHHHHhhcccchhhhhhhhhh
Confidence            344444555556666666666666666666555566677777765433 2344688899999999999999999886544


Q ss_pred             hhhcCCCCcHHHHHHHHHHH----------HHHH-hCCCCCCHhhHHHHHHHHhc-cCCHHHHHHHHHHHHh
Q 041786           90 CTAFNCQQCVLLYNSLHVCF----------VRMI-RKGFVPDKRTHTILVNAWCS-SGKMREAQEFLQELSD  149 (260)
Q Consensus        90 m~~~~~~~~~~~~~~li~~~----------~~m~-~~g~~p~~~~~~~li~~~~~-~g~~~~a~~~~~~m~~  149 (260)
                      --. =++-+..|.-.|-..|          ..+. ..-++|+..-|-.+|..|.+ .|++.+|+++|.+..+
T Consensus       618 syr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hr  688 (840)
T KOG2003|consen  618 SYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHR  688 (840)
T ss_pred             ccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            221 1233455555444333          1222 23689999999999988755 8999999999998765

>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=96.22  E-value=0.14  Score=43.34  Aligned_cols=112  Identities=15%  Similarity=0.115  Sum_probs=62.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHH
Q 041786           67 LSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQE  146 (260)
Q Consensus        67 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  146 (260)
                      -.+|+..+...++++.|+++|+++.+..  |                      +.  ...+.+.+...++-.+|.+++++
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~~--p----------------------ev--~~~LA~v~l~~~~E~~AI~ll~~  225 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRERD--P----------------------EV--AVLLARVYLLMNEEVEAIRLLNE  225 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcC--C----------------------cH--HHHHHHHHHhcCcHHHHHHHHHH
Confidence            3455666667789999999999998753  2                      21  22234444444444444444444


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCCcc-hHHHHHHHHhhhhhccHH
Q 041786          147 LSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLCAD-VNTNKISIPAVSKEFMID  214 (260)
Q Consensus       147 m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~~-~~t~~~li~~~~~~g~~~  214 (260)
                      ..+..                    +-|......-..-|.+.++           ....|+ ..+|..|..+|.+.|+++
T Consensus       226 aL~~~--------------------p~d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e  285 (395)
T PF09295_consen  226 ALKEN--------------------PQDSELLNLQAEFLLSKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFE  285 (395)
T ss_pred             HHHhC--------------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHH
Confidence            33210                    0011111111222222222           234454 447888888888888999


Q ss_pred             HHHHHHHHHH
Q 041786          215 EAFRLLCNLV  224 (260)
Q Consensus       215 ~a~~~~~~m~  224 (260)
                      +|...++.+.
T Consensus       286 ~ALlaLNs~P  295 (395)
T PF09295_consen  286 NALLALNSCP  295 (395)
T ss_pred             HHHHHHhcCc
Confidence            9988887764

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

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

Probab=96.21  E-value=0.091  Score=48.39  Aligned_cols=78  Identities=10%  Similarity=0.072  Sum_probs=42.9

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHH
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTI  126 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~  126 (260)
                      .|+++|.+..+.. +.|.+.=|.+-..++..|++.+|+.+|.+.++..                       .-+..+|-.
T Consensus       630 KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~-----------------------~~~~dv~lN  685 (1018)
T KOG2002|consen  630 KALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREAT-----------------------SDFEDVWLN  685 (1018)
T ss_pred             HHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHH-----------------------hhCCceeee
Confidence            5555555544332 2244555555556666666666666666665421                       123345555


Q ss_pred             HHHHHhccCCHHHHHHHHHHHH
Q 041786          127 LVNAWCSSGKMREAQEFLQELS  148 (260)
Q Consensus       127 li~~~~~~g~~~~a~~~~~~m~  148 (260)
                      +-+.|..+|++..|.++|+...
T Consensus       686 lah~~~e~~qy~~AIqmYe~~l  707 (1018)
T KOG2002|consen  686 LAHCYVEQGQYRLAIQMYENCL  707 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666666666443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=96.07  E-value=0.16  Score=41.05  Aligned_cols=29  Identities=14%  Similarity=0.091  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhc
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAF   93 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~   93 (260)
                      .+|..++...-+.+.++.|+.+|.+.++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~   30 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKD   30 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC
Confidence            57888999999999999999999998853

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.

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

Probab=96.02  E-value=0.48  Score=36.19  Aligned_cols=101  Identities=11%  Similarity=0.128  Sum_probs=71.9

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHH-HhccCC--H
Q 041786           62 VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNA-WCSSGK--M  137 (260)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~-~~~~g~--~  137 (260)
                      .|...|..|-..|...|++++|...|++..+.                        .| +...+..+-.+ +...|+  .
T Consensus        71 ~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l------------------------~P~~~~~~~~lA~aL~~~~g~~~~  126 (198)
T PRK10370         71 QNSEQWALLGEYYLWRNDYDNALLAYRQALQL------------------------RGENAELYAALATVLYYQAGQHMT  126 (198)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh------------------------CCCCHHHHHHHHHHHHHhcCCCCc
Confidence            46778888888888888888888888876652                        23 45555555554 356666  4


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHH
Q 041786          138 REAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAF  217 (260)
Q Consensus       138 ~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~  217 (260)
                      ++|.+++++..+.+                     |+                     +...+..+-..+...|++++|.
T Consensus       127 ~~A~~~l~~al~~d---------------------P~---------------------~~~al~~LA~~~~~~g~~~~Ai  164 (198)
T PRK10370        127 PQTREMIDKALALD---------------------AN---------------------EVTALMLLASDAFMQADYAQAI  164 (198)
T ss_pred             HHHHHHHHHHHHhC---------------------CC---------------------ChhHHHHHHHHHHHcCCHHHHH
Confidence            78888888776532                     21                     3455666677788899999999


Q ss_pred             HHHHHHHHCCC
Q 041786          218 RLLCNLVEDGH  228 (260)
Q Consensus       218 ~~~~~m~~~~~  228 (260)
                      ..|+++.+..-
T Consensus       165 ~~~~~aL~l~~  175 (198)
T PRK10370        165 ELWQKVLDLNS  175 (198)
T ss_pred             HHHHHHHhhCC
Confidence            99999987643

>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=96.01  E-value=0.2  Score=31.74  Aligned_cols=95  Identities=22%  Similarity=0.158  Sum_probs=64.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHH
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQ  145 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  145 (260)
                      .|..+...+.+.|++++|...|++..+..                       ..+...+..+...+...|++++|.+.|+
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~   58 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELD-----------------------PDNADAYYNLAAAYYKLGKYEEALEDYE   58 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcC-----------------------CccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35566777888999999999999876521                       1223556667777777888899988888


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          146 ELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       146 ~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                      ...+..                     |.                     +...+..+...+...|+.+.|...+.+..+
T Consensus        59 ~~~~~~---------------------~~---------------------~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~   96 (100)
T cd00189          59 KALELD---------------------PD---------------------NAKAYYNLGLAYYKLGKYEEALEAYEKALE   96 (100)
T ss_pred             HHHhCC---------------------Cc---------------------chhHHHHHHHHHHHHHhHHHHHHHHHHHHc
Confidence            765421                     11                     113455555667777788888888877654

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

Probab=96.01  E-value=0.43  Score=37.49  Aligned_cols=65  Identities=18%  Similarity=0.152  Sum_probs=51.5

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHH
Q 041786           62 VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  141 (260)
                      -|....+.......+.|++..|...|.+....                       -++|...||.+=-+|.+.|+++.|.
T Consensus        98 ~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-----------------------~p~d~~~~~~lgaaldq~Gr~~~Ar  154 (257)
T COG5010          98 KDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-----------------------APTDWEAWNLLGAALDQLGRFDEAR  154 (257)
T ss_pred             ccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-----------------------CCCChhhhhHHHHHHHHccChhHHH
Confidence            35556667888888889999999998887652                       3467888888888899999999998


Q ss_pred             HHHHHHHh
Q 041786          142 EFLQELSD  149 (260)
Q Consensus       142 ~~~~~m~~  149 (260)
                      .-|.+..+
T Consensus       155 ~ay~qAl~  162 (257)
T COG5010         155 RAYRQALE  162 (257)
T ss_pred             HHHHHHHH
Confidence            88877665

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

Probab=95.98  E-value=0.31  Score=34.31  Aligned_cols=100  Identities=14%  Similarity=0.055  Sum_probs=74.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      +......+...+.+.|+.++|.+.|+.....+                       +.+...|..+-..+.+.|++++|..
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-----------------------p~~~~~~~~la~~~~~~~~~~~A~~   72 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-----------------------PYNSRYWLGLAACCQMLKEYEEAID   72 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-----------------------CCcHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556677788889999999999999877532                       2356777788888889999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHH
Q 041786          143 FLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCN  222 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~  222 (260)
                      .++...+.+                     |                     .+...+..+-..|...|+.++|...|+.
T Consensus        73 ~~~~~~~~~---------------------p---------------------~~~~~~~~la~~~~~~g~~~~A~~~~~~  110 (135)
T TIGR02552        73 AYALAAALD---------------------P---------------------DDPRPYFHAAECLLALGEPESALKALDL  110 (135)
T ss_pred             HHHHHHhcC---------------------C---------------------CChHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            998766421                     1                     1334444555677788899999999988


Q ss_pred             HHHCC
Q 041786          223 LVEDG  227 (260)
Q Consensus       223 m~~~~  227 (260)
                      ..+..
T Consensus       111 al~~~  115 (135)
T TIGR02552       111 AIEIC  115 (135)
T ss_pred             HHHhc
Confidence            87753

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

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

Probab=95.95  E-value=0.64  Score=45.01  Aligned_cols=187  Identities=14%  Similarity=0.035  Sum_probs=118.1

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhc-CCCCcH---HHHHHHHH---HH-------HHH
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAF-NCQQCV---LLYNSLHV---CF-------VRM  112 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~---~~~~~li~---~~-------~~m  112 (260)
                      .|.+.-+.....  +-+...|-..|....+.+++++|++++++.... +++-..   ..|-+++.   .|       +-+
T Consensus      1443 saeDferlvrss--PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVF 1520 (1710)
T KOG1070|consen 1443 SAEDFERLVRSS--PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVF 1520 (1710)
T ss_pred             CHHHHHHHHhcC--CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHH
Confidence            344444444333  224678888889999999999999999987642 433332   34555552   22       111


Q ss_pred             HhCCCCCC-HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-
Q 041786          113 IRKGFVPD-KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-  190 (260)
Q Consensus       113 ~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-  190 (260)
                      .+.---.| -..|..|...|.+.+.+++|.++++.|.+                  +.|  -....|...+..+.++++ 
T Consensus      1521 eRAcqycd~~~V~~~L~~iy~k~ek~~~A~ell~~m~K------------------KF~--q~~~vW~~y~~fLl~~ne~ 1580 (1710)
T KOG1070|consen 1521 ERACQYCDAYTVHLKLLGIYEKSEKNDEADELLRLMLK------------------KFG--QTRKVWIMYADFLLRQNEA 1580 (1710)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHhhcchhHHHHHHHHHH------------------Hhc--chhhHHHHHHHHHhcccHH
Confidence            11111123 35677889999999999999999998876                  333  355667777777776665 


Q ss_pred             ----------CCCCcc---hHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCc---CCCc-------ccHHHHHHHHHHH
Q 041786          191 ----------LGLCAD---VNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKL---FPSL-------GQFDDAFCFFSEM  247 (260)
Q Consensus       191 ----------~~~~~~---~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~~-------g~~~~a~~~~~~m  247 (260)
                                ...-|-   +..-.-....-.+.|+.+.++.+|+......-+-   |...       |..+.++.+|++.
T Consensus      1581 ~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRv 1660 (1710)
T KOG1070|consen 1581 EAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERV 1660 (1710)
T ss_pred             HHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHH
Confidence                      222333   2222233334457788888888998887653111   1111       8889999999999


Q ss_pred             HhcCCCCC
Q 041786          248 QIKTHPPN  255 (260)
Q Consensus       248 ~~~g~~p~  255 (260)
                      ...++.|-
T Consensus      1661 i~l~l~~k 1668 (1710)
T KOG1070|consen 1661 IELKLSIK 1668 (1710)
T ss_pred             HhcCCChh
Confidence            99888774

>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=95.92  E-value=0.031  Score=34.25  Aligned_cols=52  Identities=29%  Similarity=0.485  Sum_probs=42.9

Q ss_pred             HhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786           75 GKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus        75 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      .+.|++++|+++|+.+....                        | +...+-.+..+|.+.|++++|.++++.+...
T Consensus         2 l~~~~~~~A~~~~~~~l~~~------------------------p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRN------------------------PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHT------------------------TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hhccCHHHHHHHHHHHHHHC------------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            46789999999999987632                        4 6677778999999999999999999987764

...

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

Probab=95.90  E-value=1.2  Score=39.79  Aligned_cols=100  Identities=17%  Similarity=0.167  Sum_probs=66.7

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcC------CCCcHHHHHHHHHHH-----------
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFN------CQQCVLLYNSLHVCF-----------  109 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~~~~~~~~~li~~~-----------  109 (260)
                      .+.++++...+.    ++..-+--|..+++.+++++|-+.+.......      .+.+--.|.-+....           
T Consensus       156 ts~rvyrRYLk~----~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~sln  231 (835)
T KOG2047|consen  156 TSIRVYRRYLKV----APEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLN  231 (835)
T ss_pred             HHHHHHHHHHhc----CHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccC
Confidence            444555444332    44446667788888899999988888776432      233344455444111           


Q ss_pred             -HHHHhCCC--CCC--HhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          110 -VRMIRKGF--VPD--KRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       110 -~~m~~~g~--~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                       +.+.+.|+  -+|  ...|++|-+-|.+.|.+++|.++|++-.+.
T Consensus       232 vdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~  277 (835)
T KOG2047|consen  232 VDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT  277 (835)
T ss_pred             HHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence             66666665  345  358899999999999999999999975543

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

Probab=95.78  E-value=0.73  Score=39.51  Aligned_cols=105  Identities=18%  Similarity=0.116  Sum_probs=80.2

Q ss_pred             CCCH-hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCC-hhchHHHHHHHHhcCC-----
Q 041786          118 VPDK-RTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPD-LETFNSLIETICKSGE-----  190 (260)
Q Consensus       118 ~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~-~~~~~~li~~~~~~~~-----  190 (260)
                      .|+. .-+......+.+.|+..+|.+-++.+...                     .|+ ....-.+-.+|.+.|+     
T Consensus       336 ~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l---------------------~P~~~~l~~~~a~all~~g~~~eai  394 (484)
T COG4783         336 QPDNPYYLELAGDILLEANKAKEAIERLKKALAL---------------------DPNSPLLQLNLAQALLKGGKPQEAI  394 (484)
T ss_pred             CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc---------------------CCCccHHHHHHHHHHHhcCChHHHH
Confidence            3554 44456678899999999999999988863                     455 3444455666666666     


Q ss_pred             -------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCcccHHHHHHHHHHHHhc
Q 041786          191 -------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQFDDAFCFFSEMQIK  250 (260)
Q Consensus       191 -------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~g~~~~a~~~~~~m~~~  250 (260)
                             ....-|...|..|-.+|...|+..++..-.-+.....       |++++|..++....+.
T Consensus       395 ~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~~-------G~~~~A~~~l~~A~~~  454 (484)
T COG4783         395 RILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYALA-------GRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHHhC-------CCHHHHHHHHHHHHHh
Confidence                   4445678999999999999999999998888776554       8899998888776654

>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=95.77  E-value=0.099  Score=36.74  Aligned_cols=81  Identities=11%  Similarity=0.053  Sum_probs=58.2

Q ss_pred             CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHH
Q 041786          120 DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNT  199 (260)
Q Consensus       120 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t  199 (260)
                      |..++.++|.++++.|+++....+.+..=  |+..+.             ...++.           ........|+..+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~-------------~~~~~~-----------~~~~spl~Pt~~l   54 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNG-------------KKKEGD-----------YPPSSPLYPTSRL   54 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCC-------------ccccCc-----------cCCCCCCCCCHHH
Confidence            45678899999999999999998886443  222110             000000           1222567789999


Q ss_pred             HHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          200 NKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       200 ~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      ..+++.+|+.+|++..|.++.+...+.
T Consensus        55 L~AIv~sf~~n~~i~~al~~vd~fs~~   81 (126)
T PF12921_consen   55 LIAIVHSFGYNGDIFSALKLVDFFSRK   81 (126)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            999999999999999999999888765

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

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

Probab=95.76  E-value=0.51  Score=40.59  Aligned_cols=195  Identities=14%  Similarity=0.134  Sum_probs=101.4

Q ss_pred             hcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCC-CCcHHHHHHHHHHH--------HHH
Q 041786           42 LISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNC-QQCVLLYNSLHVCF--------VRM  112 (260)
Q Consensus        42 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~--------~~m  112 (260)
                      +++...+.+-|+...+....++. .|--+-..|.+..+.++..+.|+...+.+- -||++-...-+...        .+.
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF  417 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADF  417 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHH
Confidence            44555777777776655433222 266677778888888888888887776542 23333322222111        122


Q ss_pred             Hh-CCCCCC-HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC
Q 041786          113 IR-KGFVPD-KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE  190 (260)
Q Consensus       113 ~~-~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~  190 (260)
                      .+ ..+.|. ...|--+--+..|.+.++++...|++.+++  -|+..++..+|.+..-     |-.-|..-+.-|-+.-+
T Consensus       418 ~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLt-----DqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  418 QKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILT-----DQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHh-----hHHhHHHHHHHHHHHHh
Confidence            21 134443 455655666666778888888888887754  3444444444443321     11112222222211111


Q ss_pred             ---------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc----------ccHHHHHHHHHHH
Q 041786          191 ---------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL----------GQFDDAFCFFSEM  247 (260)
Q Consensus       191 ---------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~----------g~~~~a~~~~~~m  247 (260)
                               .+..|-+.--..++.   ..+++..|..++....+.+-+.+...          |+.++|+++|++-
T Consensus       491 LE~~~~~~~v~~~plV~Ka~l~~q---wk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEks  563 (606)
T KOG0547|consen  491 LEPREHLIIVNAAPLVHKALLVLQ---WKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKS  563 (606)
T ss_pred             hccccccccccchhhhhhhHhhhc---hhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence                     111121111111222   44888888888877665433332222          8888999888764

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

Probab=95.72  E-value=0.71  Score=35.80  Aligned_cols=144  Identities=15%  Similarity=0.137  Sum_probs=81.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHhccCCHHHHHHH
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPD-KRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      .....|--+|.+.|+...|..-+++..+..                        |+ ..+|..+-..|-+.|..+.|.+-
T Consensus        36 ~arlqLal~YL~~gd~~~A~~nlekAL~~D------------------------Ps~~~a~~~~A~~Yq~~Ge~~~A~e~   91 (250)
T COG3063          36 KARLQLALGYLQQGDYAQAKKNLEKALEHD------------------------PSYYLAHLVRAHYYQKLGENDLADES   91 (250)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC------------------------cccHHHHHHHHHHHHHcCChhhHHHH
Confidence            456667788999999999999999988743                        33 23444555555555555555555


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC--------------CCCCcchHHHHHHHHhhhh
Q 041786          144 LQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE--------------LGLCADVNTNKISIPAVSK  209 (260)
Q Consensus       144 ~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~--------------~~~~~~~~t~~~li~~~~~  209 (260)
                      |+...+..                    +-+....|..=.-+|..|.              ....--..||..+--+..+
T Consensus        92 YrkAlsl~--------------------p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~  151 (250)
T COG3063          92 YRKALSLA--------------------PNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALK  151 (250)
T ss_pred             HHHHHhcC--------------------CCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhh
Confidence            55443321                    0011222222222222222              1111223456666666677


Q ss_pred             hccHHHHHHHHHHHHHCCCCcCCCc----------ccHHHHHHHHHHHHhcCC
Q 041786          210 EFMIDEAFRLLCNLVEDGHKLFPSL----------GQFDDAFCFFSEMQIKTH  252 (260)
Q Consensus       210 ~g~~~~a~~~~~~m~~~~~~p~~~~----------g~~~~a~~~~~~m~~~g~  252 (260)
                      .|+++.|...|++-.+..-.-.+..          |++-.|..+++.....|.
T Consensus       152 ~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~  204 (250)
T COG3063         152 AGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLYLERYQQRGG  204 (250)
T ss_pred             cCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHHHHHHHHhccc
Confidence            7888888888877766532211111          777777777777666543

>PRK11189 lipoprotein NlpI; Provisional

Probab=95.67  E-value=0.95  Score=36.95  Aligned_cols=100  Identities=16%  Similarity=0.079  Sum_probs=57.6

Q ss_pred             HHHHHHHhcccC-CCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH-------------H
Q 041786           47 SMWKTIELMKPD-SLSVF--PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF-------------V  110 (260)
Q Consensus        47 ~a~~~~~~m~~~-g~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-------------~  110 (260)
                      .+..-+.++... .+.|+  ...|..+-..|.+.|+.++|...|++..+.. +.+...|+.+-..+             +
T Consensus        44 ~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~  122 (296)
T PRK11189         44 VILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFD  122 (296)
T ss_pred             HHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            444555555432 23333  4567777778999999999999999888643 11234444443222             1


Q ss_pred             HHHhCCCCCC-HhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          111 RMIRKGFVPD-KRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       111 ~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      ...  .+.|+ ...|..+-.++...|++++|.+.|+...+
T Consensus       123 ~Al--~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~  160 (296)
T PRK11189        123 SVL--ELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQ  160 (296)
T ss_pred             HHH--HhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            111  23343 34555555566666777777766665554

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=95.64  E-value=0.41  Score=32.53  Aligned_cols=104  Identities=13%  Similarity=0.008  Sum_probs=71.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHH
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFL  144 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  144 (260)
                      .++-.+...+.+.|++++|...|+.+.+..                    .+-......+..+-..+.+.|+++.|.+.|
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--------------------~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~   62 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKY--------------------PKSTYAPNAHYWLGEAYYAQGKYADAAKAF   62 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--------------------CCccccHHHHHHHHHHHHhhccHHHHHHHH
Confidence            456677788889999999999999887532                    011112345566888899999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHH
Q 041786          145 QELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLV  224 (260)
Q Consensus       145 ~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~  224 (260)
                      +......                     |+..                  .....+..+-..+.+.|+.++|...++++.
T Consensus        63 ~~~~~~~---------------------p~~~------------------~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  103 (119)
T TIGR02795        63 LAVVKKY---------------------PKSP------------------KAPDALLKLGMSLQELGDKEKAKATLQQVI  103 (119)
T ss_pred             HHHHHHC---------------------CCCC------------------cccHHHHHHHHHHHHhCChHHHHHHHHHHH
Confidence            9877521                     2210                  012223344455667888899999998888


Q ss_pred             HCC
Q 041786          225 EDG  227 (260)
Q Consensus       225 ~~~  227 (260)
                      +..
T Consensus       104 ~~~  106 (119)
T TIGR02795       104 KRY  106 (119)
T ss_pred             HHC
Confidence            764

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.

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

Probab=95.62  E-value=0.86  Score=41.97  Aligned_cols=188  Identities=18%  Similarity=0.243  Sum_probs=109.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHH---------h--CCCCCCH-hhHHHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMI---------R--KGFVPDK-RTHTILVNA  130 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~---------~--~g~~p~~-~~~~~li~~  130 (260)
                      +...|.-+..+|.+.|++.+|+.+|..+.....-.+...|-.+-.|+.+..         +  -...|+. ..-..|-.-
T Consensus       413 ~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl  492 (895)
T KOG2076|consen  413 DVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDNLDARITLASL  492 (895)
T ss_pred             hHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHH
Confidence            456677777788888888888888887776644445666666666661110         0  1234543 233445566


Q ss_pred             HhccCCHHHHHHHHHHHHhCC--------CCCCHH--------------------HHHHHHHHHH----------HC---
Q 041786          131 WCSSGKMREAQEFLQELSDKG--------FNPPVR--------------------SAKQMVNKMI----------KQ---  169 (260)
Q Consensus       131 ~~~~g~~~~a~~~~~~m~~~~--------~~~~~~--------------------~a~~l~~~m~----------~~---  169 (260)
                      +-+.|+.|+|.++++.+..-+        ..|+..                    .+..++....          +.   
T Consensus       493 ~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~  572 (895)
T KOG2076|consen  493 YQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTASTLVDDFLKKRYIFPRNKKKRRR  572 (895)
T ss_pred             HHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHH
Confidence            788999999999999865322        122211                    1111111110          00   


Q ss_pred             -----CCCCChhchHHHHHHHHhcCC-------------------CCCCcc--hHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          170 -----GSVPDLETFNSLIETICKSGE-------------------LGLCAD--VNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       170 -----g~~p~~~~~~~li~~~~~~~~-------------------~~~~~~--~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                           +..-...+...++.+-.+.++                   .+...+  -..+.-+|..+++.+++++|..+...+
T Consensus       573 ~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a  652 (895)
T KOG2076|consen  573 AIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDWFELFRELILSLAKLQRVQEALSVVFTA  652 (895)
T ss_pred             hhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence                 011223333344444444443                   222221  245567788999999999999999888


Q ss_pred             HHCCCCcCCCc----------------ccHHHHHHHHHHHHhc
Q 041786          224 VEDGHKLFPSL----------------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       224 ~~~~~~p~~~~----------------g~~~~a~~~~~~m~~~  250 (260)
                      ....+.-...-                +++..|...++.|...
T Consensus       653 ~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~  695 (895)
T KOG2076|consen  653 LEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQ  695 (895)
T ss_pred             HhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            87653322211                8889999988888754

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=95.53  E-value=0.51  Score=33.93  Aligned_cols=66  Identities=12%  Similarity=-0.006  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHH
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFL  144 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  144 (260)
                      ..|..++..+. .++...+...++.+.+..-                    +........-.+-..+...|++++|...|
T Consensus        13 ~~y~~~~~~~~-~~~~~~~~~~~~~l~~~~~--------------------~s~ya~~A~l~lA~~~~~~g~~~~A~~~l   71 (145)
T PF09976_consen   13 ALYEQALQALQ-AGDPAKAEAAAEQLAKDYP--------------------SSPYAALAALQLAKAAYEQGDYDEAKAAL   71 (145)
T ss_pred             HHHHHHHHHHH-CCCHHHHHHHHHHHHHHCC--------------------CChHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            45666666664 7778888888888776320                    00011122223456788899999999999


Q ss_pred             HHHHhCC
Q 041786          145 QELSDKG  151 (260)
Q Consensus       145 ~~m~~~~  151 (260)
                      +......
T Consensus        72 ~~~~~~~   78 (145)
T PF09976_consen   72 EKALANA   78 (145)
T ss_pred             HHHHhhC
Confidence            9888643

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

Probab=95.53  E-value=0.78  Score=39.55  Aligned_cols=172  Identities=15%  Similarity=0.079  Sum_probs=99.1

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH--------
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF--------  109 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--------  109 (260)
                      .+.........++.|.+-.+..- -|..+|..=-+.+.-.+++++|..=|++.....  |.. .|.-+=.|+        
T Consensus       369 ~y~d~~~~~~~~~~F~~A~~ldp-~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~--pe~-~~~~iQl~~a~Yr~~k~  444 (606)
T KOG0547|consen  369 AYADENQSEKMWKDFNKAEDLDP-ENPDVYYHRGQMRFLLQQYEEAIADFQKAISLD--PEN-AYAYIQLCCALYRQHKI  444 (606)
T ss_pred             HHhhhhccHHHHHHHHHHHhcCC-CCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC--hhh-hHHHHHHHHHHHHHHHH
Confidence            33333344466666666544432 234556655555566667777777777766532  221 111111222        


Q ss_pred             -HHH-----HhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC---------CCCCCHHHHHHHHHHHHHCCCCCC
Q 041786          110 -VRM-----IRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDK---------GFNPPVRSAKQMVNKMIKQGSVPD  174 (260)
Q Consensus       110 -~~m-----~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---------~~~~~~~~a~~l~~~m~~~g~~p~  174 (260)
                       +.|     ....++-....||..-..+...+++++|.+-|+.....         |..|-+.+|.-+++.=        
T Consensus       445 ~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~qwk--------  516 (606)
T KOG0547|consen  445 AESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQWK--------  516 (606)
T ss_pred             HHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhchh--------
Confidence             111     11234445678888999999999999999999865432         4445555666665521        


Q ss_pred             hhchHHHHHHHHhcCCCCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHH
Q 041786          175 LETFNSLIETICKSGELGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLV  224 (260)
Q Consensus       175 ~~~~~~li~~~~~~~~~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~  224 (260)
                       .-++.-+..+.+.-  .+.| ....|..|-..-.+.|++++|.++|+.-.
T Consensus       517 -~d~~~a~~Ll~KA~--e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  517 -EDINQAENLLRKAI--ELDPKCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             -hhHHHHHHHHHHHH--ccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence             11222222222222  1223 34568888888899999999999998754

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=95.46  E-value=0.92  Score=35.37  Aligned_cols=55  Identities=15%  Similarity=0.067  Sum_probs=37.7

Q ss_pred             hhhhcchHHHHHHHHhcccCCC-CCC-HHHHHHHHHHHHhcCChHHHHHHHHHhhhc
Q 041786           39 NLTLISELSMWKTIELMKPDSL-SVF-PQTLSLIIEEFGKHGLIDNAVEVFNKCTAF   93 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~-~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   93 (260)
                      +...+....|...|++..+... .|. ...+..+-..+.+.|++++|...|+++.+.
T Consensus        43 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~   99 (235)
T TIGR03302        43 ALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL   99 (235)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            3344555578888887754421 121 246677788888999999999999988764

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).

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

Probab=95.44  E-value=0.77  Score=39.21  Aligned_cols=89  Identities=12%  Similarity=0.090  Sum_probs=50.8

Q ss_pred             CCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC------
Q 041786          117 FVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE------  190 (260)
Q Consensus       117 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~------  190 (260)
                      ++-|..+.+-|-.-|-+.|+-..|++.+-+--+  .                  ++.|..|.--|-..|....-      
T Consensus       588 ip~dp~ilskl~dlydqegdksqafq~~ydsyr--y------------------fp~nie~iewl~ayyidtqf~ekai~  647 (840)
T KOG2003|consen  588 IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--Y------------------FPCNIETIEWLAAYYIDTQFSEKAIN  647 (840)
T ss_pred             CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--c------------------cCcchHHHHHHHHHHHhhHHHHHHHH
Confidence            334567778888888888888888877653221  1                  11222222222222221111      


Q ss_pred             -----CCCCcchHHHHHHHHhh-hhhccHHHHHHHHHHHHH
Q 041786          191 -----LGLCADVNTNKISIPAV-SKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       191 -----~~~~~~~~t~~~li~~~-~~~g~~~~a~~~~~~m~~  225 (260)
                           .-++|+..-|..+|..| .+.|.+.+|+.+|+..-+
T Consensus       648 y~ekaaliqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hr  688 (840)
T KOG2003|consen  648 YFEKAALIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHR  688 (840)
T ss_pred             HHHHHHhcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence                 34567777777776544 456778888877777654

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=95.42  E-value=2.1  Score=39.44  Aligned_cols=30  Identities=10%  Similarity=0.055  Sum_probs=20.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTA   92 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (260)
                      ++..+--|-....+.|..++|+.+++...+
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~  114 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQ  114 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHh
Confidence            456666666666777777777777776664

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=95.27  E-value=1.9  Score=37.79  Aligned_cols=42  Identities=14%  Similarity=0.083  Sum_probs=31.4

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCc-HHHHHHHH
Q 041786           62 VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQC-VLLYNSLH  106 (260)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li  106 (260)
                      -|+.+|+.||.-+... .+++++++++++..  ..|+ ...|..-|
T Consensus        18 ~di~sw~~lire~qt~-~~~~~R~~YEq~~~--~FP~s~r~W~~yi   60 (656)
T KOG1914|consen   18 YDIDSWSQLIREAQTQ-PIDKVRETYEQLVN--VFPSSPRAWKLYI   60 (656)
T ss_pred             ccHHHHHHHHHHHccC-CHHHHHHHHHHHhc--cCCCCcHHHHHHH
Confidence            4789999999988766 89999999999884  3343 34454444

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

Probab=95.27  E-value=0.33  Score=38.09  Aligned_cols=106  Identities=17%  Similarity=0.082  Sum_probs=80.0

Q ss_pred             CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC---------
Q 041786          120 DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE---------  190 (260)
Q Consensus       120 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~---------  190 (260)
                      |....+...+...+.|++..|...|.+...-                    -++|...|+.+=-+|-+.|+         
T Consensus        99 d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l--------------------~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~  158 (257)
T COG5010          99 DRELLAAQGKNQIRNGNFGEAVSVLRKAARL--------------------APTDWEAWNLLGAALDQLGRFDEARRAYR  158 (257)
T ss_pred             cHHHHHHHHHHHHHhcchHHHHHHHHHHhcc--------------------CCCChhhhhHHHHHHHHccChhHHHHHHH
Confidence            4445666899999999999999999987753                    35688899999999999998         


Q ss_pred             --CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc----------ccHHHHHHHHH
Q 041786          191 --LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL----------GQFDDAFCFFS  245 (260)
Q Consensus       191 --~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~----------g~~~~a~~~~~  245 (260)
                        ..+.| +....|.|--.|.-.|+.+.|+.++......+......-          |++++|..+..
T Consensus       159 qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         159 QALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             HHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence              34444 456678888888889999999999988776653222211          78887776653

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=95.25  E-value=2.4  Score=38.99  Aligned_cols=146  Identities=8%  Similarity=0.010  Sum_probs=99.5

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVF-PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      ....+...+|+.+++...+.  .|+ ......+...+.+.+++++|+..+++....                        
T Consensus        96 ~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~------------------------  149 (694)
T PRK15179         96 LEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG------------------------  149 (694)
T ss_pred             HHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc------------------------
Confidence            34455555888888887655  465 566677888999999999999999987763                        


Q ss_pred             CCCHh-hHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcc
Q 041786          118 VPDKR-THTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCAD  196 (260)
Q Consensus       118 ~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~  196 (260)
                      .|+.. ..+.+-.++.+.|..++|..+|++....+                     |+                     +
T Consensus       150 ~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~---------------------p~---------------------~  187 (694)
T PRK15179        150 GSSSAREILLEAKSWDEIGQSEQADACFERLSRQH---------------------PE---------------------F  187 (694)
T ss_pred             CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhcC---------------------CC---------------------c
Confidence            36654 45556667788999999999999887521                     11                     2


Q ss_pred             hHHHHHHHHhhhhhccHHHHHHHHHHHHHCC---CCc-CCCcccHHHHHHHHHHHHhcCC
Q 041786          197 VNTNKISIPAVSKEFMIDEAFRLLCNLVEDG---HKL-FPSLGQFDDAFCFFSEMQIKTH  252 (260)
Q Consensus       197 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~p-~~~~g~~~~a~~~~~~m~~~g~  252 (260)
                      ...+..+-..+-..|+.++|...|+...+..   .+- ....+++..-..+++++.-.+.
T Consensus       188 ~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  247 (694)
T PRK15179        188 ENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRLVDLNADLAALRRLGVEGD  247 (694)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHHHHHHHHHHHHHHcCcccc
Confidence            3445555566777889999999999887542   221 1111555555666666654443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=95.23  E-value=1.1  Score=34.93  Aligned_cols=158  Identities=16%  Similarity=0.039  Sum_probs=94.8

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCC----HhhHHHHHHHHhccCCH
Q 041786           62 VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPD----KRTHTILVNAWCSSGKM  137 (260)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~----~~~~~~li~~~~~~g~~  137 (260)
                      .....+-.+...+.+.|++++|...|+++....                        |+    ...+..+-.++.+.|++
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~------------------------p~~~~~~~a~~~la~~~~~~~~~   86 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRY------------------------PFSPYAEQAQLDLAYAYYKSGDY   86 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------------------------CCchhHHHHHHHHHHHHHhcCCH
Confidence            346677788888999999999999999887532                        32    23556677788889999


Q ss_pred             HHHHHHHHHHHhCCC-CCCH-------------------------HHHHHHHHHHHHCCCCCChh-chHHHHHHHHhcCC
Q 041786          138 REAQEFLQELSDKGF-NPPV-------------------------RSAKQMVNKMIKQGSVPDLE-TFNSLIETICKSGE  190 (260)
Q Consensus       138 ~~a~~~~~~m~~~~~-~~~~-------------------------~~a~~l~~~m~~~g~~p~~~-~~~~li~~~~~~~~  190 (260)
                      ++|...++++.+..- .+..                         ..|...|+...+..  |+.. .+..+. .+.... 
T Consensus        87 ~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~-~~~~~~-  162 (235)
T TIGR03302        87 AEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKK-RMDYLR-  162 (235)
T ss_pred             HHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHH-HHHHHH-
Confidence            999999998865321 2221                         12333333333221  2211 111110 000000 


Q ss_pred             CCCCcch-HHHHHHHHhhhhhccHHHHHHHHHHHHHCCC-CcCCCc------------ccHHHHHHHHHHHHhcC
Q 041786          191 LGLCADV-NTNKISIPAVSKEFMIDEAFRLLCNLVEDGH-KLFPSL------------GQFDDAFCFFSEMQIKT  251 (260)
Q Consensus       191 ~~~~~~~-~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~------------g~~~~a~~~~~~m~~~g  251 (260)
                          ... ...-.+-..|.+.|+.++|...|++..+..- .|+..-            |+.++|..+++.+..+.
T Consensus       163 ----~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       163 ----NRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             ----HHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence                000 0011344567888999999999999886532 121111            99999999998887653

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).

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

Probab=95.16  E-value=1.3  Score=36.40  Aligned_cols=65  Identities=12%  Similarity=0.027  Sum_probs=52.1

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHH
Q 041786           61 SVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREA  140 (260)
Q Consensus        61 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a  140 (260)
                      ..|-.--+.|-.+|.+.|.+.+|.+.|+.-.+                        -.|-..||-.|-++|.+..+++.|
T Consensus       220 ~~dwwWk~Q~gkCylrLgm~r~AekqlqssL~------------------------q~~~~dTfllLskvY~ridQP~~A  275 (478)
T KOG1129|consen  220 TLDWWWKQQMGKCYLRLGMPRRAEKQLQSSLT------------------------QFPHPDTFLLLSKVYQRIDQPERA  275 (478)
T ss_pred             hHhHHHHHHHHHHHHHhcChhhhHHHHHHHhh------------------------cCCchhHHHHHHHHHHHhccHHHH
Confidence            33444447888999999999999998886554                        246777888899999999999999


Q ss_pred             HHHHHHHHh
Q 041786          141 QEFLQELSD  149 (260)
Q Consensus       141 ~~~~~~m~~  149 (260)
                      +.+|.+-.+
T Consensus       276 L~~~~~gld  284 (478)
T KOG1129|consen  276 LLVIGEGLD  284 (478)
T ss_pred             HHHHhhhhh
Confidence            999987654

>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=95.10  E-value=0.22  Score=35.79  Aligned_cols=61  Identities=18%  Similarity=0.300  Sum_probs=48.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHH
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQ  145 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  145 (260)
                      ....++..+...|++++|..+...+....                       +.|...|-.+|.+|.+.|+...|.++|+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-----------------------P~~E~~~~~lm~~~~~~g~~~~A~~~Y~  120 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-----------------------PYDEEAYRLLMRALAAQGRRAEALRVYE  120 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-----------------------TT-HHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-----------------------CCCHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            45666777888999999999999887632                       2467899999999999999999999999


Q ss_pred             HHHh
Q 041786          146 ELSD  149 (260)
Q Consensus       146 ~m~~  149 (260)
                      .+.+
T Consensus       121 ~~~~  124 (146)
T PF03704_consen  121 RYRR  124 (146)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8764

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>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=95.01  E-value=0.17  Score=31.90  Aligned_cols=67  Identities=21%  Similarity=0.287  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC-CCC-HhhHHHHHHHHhccCCHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF-VPD-KRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~-~p~-~~~~~~li~~~~~~g~~~~a~  141 (260)
                      ..+|+.+-..|...|++++|+..|++..+.                  ....|- .|+ ..+++.+-..|.+.|++++|+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~------------------~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~   66 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDI------------------EEQLGDDHPDTANTLNNLGECYYRLGDYEEAL   66 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH------------------HHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH------------------HHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            467888999999999999999999998852                  111221 233 567888889999999999999


Q ss_pred             HHHHHHH
Q 041786          142 EFLQELS  148 (260)
Q Consensus       142 ~~~~~m~  148 (260)
                      +.+++..
T Consensus        67 ~~~~~al   73 (78)
T PF13424_consen   67 EYYQKAL   73 (78)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9998644

...

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

Probab=94.97  E-value=2  Score=37.11  Aligned_cols=101  Identities=9%  Similarity=0.012  Sum_probs=63.6

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHH---------HHHHHHhC--
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHV---------CFVRMIRK--  115 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~---------~~~~m~~~--  115 (260)
                      .|..+|+...... .-+...|--.+..=.++..+..|..+++.....--+.| ..|-.-+.         +.+++.+.  
T Consensus        91 RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~ymEE~LgNi~gaRqiferW~  168 (677)
T KOG1915|consen   91 RARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIYMEEMLGNIAGARQIFERWM  168 (677)
T ss_pred             HHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            8888888876554 34677788888888899999999999998765321111 11211111         11222222  


Q ss_pred             CCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          116 GFVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       116 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      ...|+...|++.|+.=.+-..++.|.+++++..-
T Consensus       169 ~w~P~eqaW~sfI~fElRykeieraR~IYerfV~  202 (677)
T KOG1915|consen  169 EWEPDEQAWLSFIKFELRYKEIERARSIYERFVL  202 (677)
T ss_pred             cCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe
Confidence            4567777777777777777777777777766553

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.82  E-value=1.6  Score=34.68  Aligned_cols=35  Identities=11%  Similarity=-0.163  Sum_probs=22.8

Q ss_pred             CCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCC
Q 041786          193 LCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDG  227 (260)
Q Consensus       193 ~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~  227 (260)
                      ..|+..+-|-...++...|++++|..++++..++.
T Consensus       203 ~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd  237 (299)
T KOG3081|consen  203 TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD  237 (299)
T ss_pred             cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc
Confidence            34556666666666667777777777777766553

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

Probab=94.77  E-value=2.7  Score=37.70  Aligned_cols=157  Identities=13%  Similarity=0.099  Sum_probs=84.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhh-cCCCCcHHHHHHHHHHH---------HHHHhCCCCCCHhhHHHHHHHHhccC
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCTA-FNCQQCVLLYNSLHVCF---------VRMIRKGFVPDKRTHTILVNAWCSSG  135 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~~~~~li~~~---------~~m~~~g~~p~~~~~~~li~~~~~~g  135 (260)
                      .|-.-+....+.|++...+..|+.... ..+..-...|...+...         -...+.=++.+...-+--|..+++.+
T Consensus       104 Iwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d  183 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSD  183 (835)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcc
Confidence            355555566666666666666655432 12222222333333111         00011111223334677788899999


Q ss_pred             CHHHHHHHHHHHHhCCCC-----CCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcc--hHHHHHHHHhhh
Q 041786          136 KMREAQEFLQELSDKGFN-----PPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCAD--VNTNKISIPAVS  208 (260)
Q Consensus       136 ~~~~a~~~~~~m~~~~~~-----~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~--~~t~~~li~~~~  208 (260)
                      ++++|-+.+.........     ++...-+..+.++....  |+. +.+.=+++..|.|. +.-+|  ...|+.|-.-|.
T Consensus       184 ~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~--p~~-~~slnvdaiiR~gi-~rftDq~g~Lw~SLAdYYI  259 (835)
T KOG2047|consen  184 RLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQN--PDK-VQSLNVDAIIRGGI-RRFTDQLGFLWCSLADYYI  259 (835)
T ss_pred             chHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhC--cch-hcccCHHHHHHhhc-ccCcHHHHHHHHHHHHHHH
Confidence            999998888877654321     12222222222222221  221 22223445555553 23344  467999999999


Q ss_pred             hhccHHHHHHHHHHHHHC
Q 041786          209 KEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       209 ~~g~~~~a~~~~~~m~~~  226 (260)
                      +.|++++|..+|++-...
T Consensus       260 r~g~~ekarDvyeeai~~  277 (835)
T KOG2047|consen  260 RSGLFEKARDVYEEAIQT  277 (835)
T ss_pred             HhhhhHHHHHHHHHHHHh
Confidence            999999999999886654

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.73  E-value=1  Score=36.80  Aligned_cols=60  Identities=10%  Similarity=0.072  Sum_probs=33.6

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHh--c----CChHHHHHHHHHhhhcCC---CCcHHHHHHHH
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGK--H----GLIDNAVEVFNKCTAFNC---QQCVLLYNSLH  106 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~--~----~~~~~a~~~~~~m~~~~~---~~~~~~~~~li  106 (260)
                      +..++++.|.+.|++-+..+|-+-.-....  .    ....+|..+|+.|++...   .++..++..++
T Consensus        80 ~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lL  148 (297)
T PF13170_consen   80 EVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALL  148 (297)
T ss_pred             HHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHH
Confidence            666677777777777777666542222222  1    134667777777776532   23344444444

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=94.73  E-value=0.075  Score=34.21  Aligned_cols=76  Identities=20%  Similarity=0.197  Sum_probs=52.5

Q ss_pred             HHHHHHHHhcccCCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCC-Hhh
Q 041786           46 LSMWKTIELMKPDSL-SVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPD-KRT  123 (260)
Q Consensus        46 ~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~-~~~  123 (260)
                      ..|+.+++.+.+... .++...+-.+..+|.+.|++++|..+++. .+.                        .|+ ...
T Consensus         6 ~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~------------------------~~~~~~~   60 (84)
T PF12895_consen    6 ENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKL------------------------DPSNPDI   60 (84)
T ss_dssp             HHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTH------------------------HHCHHHH
T ss_pred             HHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCC------------------------CCCCHHH
Confidence            367777877765532 23455566688999999999999999987 321                        122 233


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHH
Q 041786          124 HTILVNAWCSSGKMREAQEFLQE  146 (260)
Q Consensus       124 ~~~li~~~~~~g~~~~a~~~~~~  146 (260)
                      .-.+-.+|.+.|++++|+++|++
T Consensus        61 ~~l~a~~~~~l~~y~eAi~~l~~   83 (84)
T PF12895_consen   61 HYLLARCLLKLGKYEEAIKALEK   83 (84)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHhc
Confidence            33456778899999999999875

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

Probab=94.55  E-value=1.2  Score=34.04  Aligned_cols=112  Identities=12%  Similarity=0.036  Sum_probs=80.3

Q ss_pred             hhhhHHHHHHHHcccch---hHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHH-HHhcCC--hHHHHHHHH
Q 041786           15 FAAVNHIANIVRHDIYA---ERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEE-FGKHGL--IDNAVEVFN   88 (260)
Q Consensus        15 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~~~--~~~a~~~~~   88 (260)
                      -..+..+...++.+...   -..+-..+...+...+|.+.++...+... -+...+..+-.+ |.+.|+  .++|.++++
T Consensus        56 ~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P-~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~  134 (198)
T PRK10370         56 EAQLQALQDKIRANPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRG-ENAELYAALATVLYYQAGQHMTPQTREMID  134 (198)
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCCCcHHHHHHHH
Confidence            34445555555554433   23344456677777799999998776642 257777777776 467777  599999999


Q ss_pred             HhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 041786           89 KCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKG  151 (260)
Q Consensus        89 ~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  151 (260)
                      +..+.+                        | +...+..+-..+.+.|++++|...|+++.+..
T Consensus       135 ~al~~d------------------------P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~  174 (198)
T PRK10370        135 KALALD------------------------ANEVTALMLLASDAFMQADYAQAIELWQKVLDLN  174 (198)
T ss_pred             HHHHhC------------------------CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            988643                        4 56777888888999999999999999988753

>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=94.53  E-value=0.23  Score=30.23  Aligned_cols=59  Identities=15%  Similarity=0.068  Sum_probs=43.5

Q ss_pred             cchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHH
Q 041786           43 ISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNS  104 (260)
Q Consensus        43 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~  104 (260)
                      +...+|.++|+...+..- -+...+-.+..+|.+.|++++|..+++.+....  |+...|..
T Consensus         5 ~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~--~~~~~~~~   63 (68)
T PF14559_consen    5 GDYDEAIELLEKALQRNP-DNPEARLLLAQCYLKQGQYDEAEELLERLLKQD--PDNPEYQQ   63 (68)
T ss_dssp             THHHHHHHHHHHHHHHTT-TSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG--TTHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCHHHHHH
Confidence            344588999988865532 267888899999999999999999999998753  44334433

...

>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=94.52  E-value=1.1  Score=36.51  Aligned_cols=105  Identities=19%  Similarity=0.135  Sum_probs=70.6

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHH---HHH-------------HHHHhCCCCCCHhhHH
Q 041786           62 VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLH---VCF-------------VRMIRKGFVPDKRTHT  125 (260)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li---~~~-------------~~m~~~g~~p~~~~~~  125 (260)
                      .+.+.....+..|.+.++++.|.+.++.|++.+  .|....+..-   ..+             +++.+ ...++..+.|
T Consensus       129 ~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~-~~~~t~~~ln  205 (290)
T PF04733_consen  129 GSLELLALAVQILLKMNRPDLAEKELKNMQQID--EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSD-KFGSTPKLLN  205 (290)
T ss_dssp             TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC-CS--SHHHHH
T ss_pred             CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh-ccCCCHHHHH
Confidence            467777888999999999999999999998743  3433322221   111             44433 4567888889


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcC
Q 041786          126 ILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSG  189 (260)
Q Consensus       126 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~  189 (260)
                      .+..++...|++++|++++.+....+                    +-|..+...++......|
T Consensus       206 g~A~~~l~~~~~~eAe~~L~~al~~~--------------------~~~~d~LaNliv~~~~~g  249 (290)
T PF04733_consen  206 GLAVCHLQLGHYEEAEELLEEALEKD--------------------PNDPDTLANLIVCSLHLG  249 (290)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHCCC---------------------CCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhc--------------------cCCHHHHHHHHHHHHHhC
Confidence            99999999999999999988765432                    224556667777777777

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=94.44  E-value=0.99  Score=30.58  Aligned_cols=91  Identities=12%  Similarity=0.034  Sum_probs=64.8

Q ss_pred             hhhcchHHHHHHHHhcccCCC--CCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           40 LTLISELSMWKTIELMKPDSL--SVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        40 ~~~~~~~~a~~~~~~m~~~g~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      ...+....|.+.|..+.+..-  ......+..+...+.+.|+++.|...|+.+....                    .+-
T Consensus        13 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--------------------p~~   72 (119)
T TIGR02795        13 LKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKY--------------------PKS   72 (119)
T ss_pred             HHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHC--------------------CCC
Confidence            344555588888888865421  1124567778899999999999999999887521                    111


Q ss_pred             CCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          118 VPDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       118 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      ......+..+-.++.+.|+.++|.+.+++..+.
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        73 PKAPDALLKLGMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             CcccHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            112345666777888999999999999988764

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=94.37  E-value=1.4  Score=35.71  Aligned_cols=93  Identities=10%  Similarity=0.051  Sum_probs=53.4

Q ss_pred             HHHHhhhhhcchHHHHHHHHhcccCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHH
Q 041786           34 TLNRLNLTLISELSMWKTIELMKPDS-LSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRM  112 (260)
Q Consensus        34 ~~~~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m  112 (260)
                      .++++..+......|.++|....+.+ +..++....++|..+ ..++.+.|..+|+...+.                   
T Consensus         6 ~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~-~~~d~~~A~~Ife~glk~-------------------   65 (280)
T PF05843_consen    6 QYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYY-CNKDPKRARKIFERGLKK-------------------   65 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHH-TCS-HHHHHHHHHHHHHH-------------------
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH-------------------
Confidence            34445555555668888888876443 334444444444333 245566688888877652                   


Q ss_pred             HhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          113 IRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       113 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                          +..+...|..-|+.+.+.|+.+.|..+|++....
T Consensus        66 ----f~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~   99 (280)
T PF05843_consen   66 ----FPSDPDFWLEYLDFLIKLNDINNARALFERAISS   99 (280)
T ss_dssp             ----HTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCT
T ss_pred             ----CCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHh
Confidence                2234555666666667777777777777766543

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.

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=94.27  E-value=0.28  Score=29.57  Aligned_cols=56  Identities=16%  Similarity=0.320  Sum_probs=45.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 041786           70 IIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELS  148 (260)
Q Consensus        70 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  148 (260)
                      +-..+.+.|++++|...|++..+..                        | +...+..+-..+...|++++|...|++..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~------------------------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQD------------------------PDNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCS------------------------TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC------------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3457889999999999999988632                        4 56677778888999999999999999886


Q ss_pred             h
Q 041786          149 D  149 (260)
Q Consensus       149 ~  149 (260)
                      +
T Consensus        59 ~   59 (65)
T PF13432_consen   59 E   59 (65)
T ss_dssp             H
T ss_pred             H
Confidence            5

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=94.19  E-value=1.3  Score=37.21  Aligned_cols=83  Identities=12%  Similarity=-0.118  Sum_probs=65.5

Q ss_pred             cchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CH
Q 041786           43 ISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DK  121 (260)
Q Consensus        43 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~  121 (260)
                      +....|.+.|++..+..- -+...|..+-.+|.+.|++++|+..++...+.                        .| +.
T Consensus        16 ~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l------------------------~P~~~   70 (356)
T PLN03088         16 DDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIEL------------------------DPSLA   70 (356)
T ss_pred             CCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------------------------CcCCH
Confidence            344488888888765532 25677888889999999999999999988763                        24 45


Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          122 RTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       122 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      ..|..+-.+|.+.|++++|+..|++..+.
T Consensus        71 ~a~~~lg~~~~~lg~~~eA~~~~~~al~l   99 (356)
T PLN03088         71 KAYLRKGTACMKLEEYQTAKAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            67777888899999999999999988764

>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=94.00  E-value=0.91  Score=28.49  Aligned_cols=84  Identities=17%  Similarity=0.087  Sum_probs=62.4

Q ss_pred             hcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCH
Q 041786           42 LISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDK  121 (260)
Q Consensus        42 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~  121 (260)
                      .+...+|.+.++...+.. ..+...+..+...+...+++++|.+.|+......                       ..+.
T Consensus        13 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-----------------------~~~~   68 (100)
T cd00189          13 LGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-----------------------PDNA   68 (100)
T ss_pred             HhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-----------------------Ccch
Confidence            344457888888876543 2234677888889999999999999999876532                       1233


Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          122 RTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       122 ~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      ..+..+...+...|+.+.|...+....+
T Consensus        69 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~   96 (100)
T cd00189          69 KAYYNLGLAYYKLGKYEEALEAYEKALE   96 (100)
T ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHHHHc
Confidence            5777788889999999999998887654

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

Probab=93.87  E-value=4  Score=35.38  Aligned_cols=106  Identities=13%  Similarity=0.040  Sum_probs=71.6

Q ss_pred             CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHH--------------------------HHHHHHHHHHHCCCCC
Q 041786          120 DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVR--------------------------SAKQMVNKMIKQGSVP  173 (260)
Q Consensus       120 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--------------------------~a~~l~~~m~~~g~~p  173 (260)
                      |-.+|--.++---..|+.+...++|++... +++|-..                          .+.+++....+ -++-
T Consensus       321 nYDsWfdylrL~e~~g~~~~Ire~yErAIa-nvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~-lIPH  398 (677)
T KOG1915|consen  321 NYDSWFDYLRLEESVGDKDRIRETYERAIA-NVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD-LIPH  398 (677)
T ss_pred             CchHHHHHHHHHHhcCCHHHHHHHHHHHHc-cCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh-hcCc
Confidence            455666667777778999999999998765 3444222                          55666666555 2333


Q ss_pred             ChhchHHHHHHHHhc----CC-----------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCC
Q 041786          174 DLETFNSLIETICKS----GE-----------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDG  227 (260)
Q Consensus       174 ~~~~~~~li~~~~~~----~~-----------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~  227 (260)
                      ...||.-+=-.|+..    .+           .|..|-..+|..-|..=.+.+.+|.+..+|+...+-+
T Consensus       399 kkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~  467 (677)
T KOG1915|consen  399 KKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS  467 (677)
T ss_pred             ccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            455666554444432    22           6777888888888888888888888888888887654

>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=93.69  E-value=0.56  Score=28.57  Aligned_cols=63  Identities=19%  Similarity=0.213  Sum_probs=51.9

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccC-CHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSG-KMREA  140 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g-~~~~a  140 (260)
                      ++..|..+-..+.+.|++++|+..|++..+..                        | +...|..+-.+|.+.| ++++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~------------------------p~~~~~~~~~g~~~~~~~~~~~~A   57 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD------------------------PNNAEAYYNLGLAYMKLGKDYEEA   57 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS------------------------TTHHHHHHHHHHHHHHTTTHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC------------------------CCCHHHHHHHHHHHHHhCccHHHH
Confidence            46788889999999999999999999988632                        4 4567777888888899 79999


Q ss_pred             HHHHHHHHh
Q 041786          141 QEFLQELSD  149 (260)
Q Consensus       141 ~~~~~~m~~  149 (260)
                      ++.|+...+
T Consensus        58 ~~~~~~al~   66 (69)
T PF13414_consen   58 IEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999987654

...

>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=93.59  E-value=0.66  Score=33.27  Aligned_cols=59  Identities=10%  Similarity=0.099  Sum_probs=43.3

Q ss_pred             HHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 041786           33 RTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTA   92 (260)
Q Consensus        33 ~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (260)
                      ..+.......+....|.++...+.... +.+...|-.+|.+|.+.|+...|.++|+.+.+
T Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   66 ERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            334444555666668888888876543 34778999999999999999999999999875

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=93.39  E-value=0.35  Score=31.00  Aligned_cols=49  Identities=27%  Similarity=0.397  Sum_probs=36.0

Q ss_pred             cCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHH
Q 041786           77 HGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQE  146 (260)
Q Consensus        77 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  146 (260)
                      .|+++.|+.+|+++.+..                     ...++...+-.+-.+|.+.|++++|.++++.
T Consensus         2 ~~~y~~Ai~~~~k~~~~~---------------------~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELD---------------------PTNPNSAYLYNLAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHH---------------------CGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred             CccHHHHHHHHHHHHHHC---------------------CCChhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            578899999999888631                     0112344555588999999999999999986

>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=93.33  E-value=5.5  Score=35.34  Aligned_cols=82  Identities=12%  Similarity=0.148  Sum_probs=44.8

Q ss_pred             cchhhhhHH-HHHHHHccc-chhHHHHHhhhhhcchHHHHHHHHhc----ccCC----------CCCCH--HHHHHHHHH
Q 041786           12 EDYFAAVNH-IANIVRHDI-YAERTLNRLNLTLISELSMWKTIELM----KPDS----------LSVFP--QTLSLIIEE   73 (260)
Q Consensus        12 ~~~~~~~~~-~~~~~~~~~-~~~~~~~~~~~~~~~~~~a~~~~~~m----~~~g----------~~~~~--~~~~~li~~   73 (260)
                      +.|...++. +...++++. .....+..++..-.+..-..+++...    ...|          -.|+.  .+|..+.+.
T Consensus       124 ~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqh  203 (517)
T PF12569_consen  124 DEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQH  203 (517)
T ss_pred             HHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHH
Confidence            445555555 455555654 44566666655433333333333332    2211          12444  344556677


Q ss_pred             HHhcCChHHHHHHHHHhhhc
Q 041786           74 FGKHGLIDNAVEVFNKCTAF   93 (260)
Q Consensus        74 ~~~~~~~~~a~~~~~~m~~~   93 (260)
                      |-..|+.++|++..++..+.
T Consensus       204 yd~~g~~~~Al~~Id~aI~h  223 (517)
T PF12569_consen  204 YDYLGDYEKALEYIDKAIEH  223 (517)
T ss_pred             HHHhCCHHHHHHHHHHHHhc
Confidence            77888888888888877764

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 [], [].

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=93.22  E-value=0.73  Score=36.96  Aligned_cols=75  Identities=17%  Similarity=0.176  Sum_probs=57.2

Q ss_pred             HHHHhCCCCCCHhhHHHHHHHHhccCCHHH-H-HHHHHH-HHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHH
Q 041786          110 VRMIRKGFVPDKRTHTILVNAWCSSGKMRE-A-QEFLQE-LSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETIC  186 (260)
Q Consensus       110 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~-a-~~~~~~-m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~  186 (260)
                      +.|.+.|+.-|..+|+.||+.+=|..-.-. . +.+|-. -++.      .-+..++++|...|+.||-.+-..|++++.
T Consensus        96 k~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ------~C~I~vLeqME~hGVmPdkE~e~~lvn~FG  169 (406)
T KOG3941|consen   96 KYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQ------NCAIKVLEQMEWHGVMPDKEIEDILVNAFG  169 (406)
T ss_pred             HHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhh------hHHHHHHHHHHHcCCCCchHHHHHHHHHhc
Confidence            889999999999999999999877653221 1 122211 1111      157889999999999999999999999999


Q ss_pred             hcCC
Q 041786          187 KSGE  190 (260)
Q Consensus       187 ~~~~  190 (260)
                      +.+.
T Consensus       170 r~~~  173 (406)
T KOG3941|consen  170 RWNF  173 (406)
T ss_pred             cccc
Confidence            9885

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

Probab=93.19  E-value=7.2  Score=36.30  Aligned_cols=64  Identities=11%  Similarity=-0.098  Sum_probs=29.0

Q ss_pred             cchhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhc
Q 041786           29 IYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAF   93 (260)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   93 (260)
                      ..++.++-.++-..+....+...+-..- .--+-|...|-.+-....+.|+++.|.-.|.+..+.
T Consensus       173 ~~ay~tL~~IyEqrGd~eK~l~~~llAA-HL~p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~  236 (895)
T KOG2076|consen  173 PIAYYTLGEIYEQRGDIEKALNFWLLAA-HLNPKDYELWKRLADLSEQLGNINQARYCYSRAIQA  236 (895)
T ss_pred             hhhHHHHHHHHHHcccHHHHHHHHHHHH-hcCCCChHHHHHHHHHHHhcccHHHHHHHHHHHHhc
Confidence            3444445544444444443333221111 111123455555555555555555555555555543

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

Probab=93.15  E-value=7.7  Score=36.52  Aligned_cols=41  Identities=15%  Similarity=0.076  Sum_probs=31.2

Q ss_pred             HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          110 VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       110 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      +.+...+-.+-....|.+-.-....|+++.|...|......
T Consensus       441 d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~  481 (1018)
T KOG2002|consen  441 DILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGK  481 (1018)
T ss_pred             HHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhh
Confidence            44555666677778888888888899999999988876554

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

Probab=92.71  E-value=7.5  Score=35.20  Aligned_cols=69  Identities=12%  Similarity=0.033  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC------------------------------------------CCCCc
Q 041786          158 SAKQMVNKMIKQGSVPDLETFNSLIETICKSGE------------------------------------------LGLCA  195 (260)
Q Consensus       158 ~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~------------------------------------------~~~~~  195 (260)
                      .|..+|+.-.-.+ +-|...|-..|..=.|.|+                                          ...+-
T Consensus       737 rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~  815 (913)
T KOG0495|consen  737 RARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEH  815 (913)
T ss_pred             hHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccC
Confidence            6777777665554 3467778888888888887                                          34555


Q ss_pred             chHHHHHHHHhhhhhccHHHHHHHHHHHHHCC
Q 041786          196 DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDG  227 (260)
Q Consensus       196 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~  227 (260)
                      |.+..-.+-..+-...++++|...|.+.++.+
T Consensus       816 dphVllaia~lfw~e~k~~kar~Wf~Ravk~d  847 (913)
T KOG0495|consen  816 DPHVLLAIAKLFWSEKKIEKAREWFERAVKKD  847 (913)
T ss_pred             CchhHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence            66666666667777788888888888777643

>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=92.70  E-value=0.74  Score=28.86  Aligned_cols=68  Identities=18%  Similarity=0.176  Sum_probs=48.9

Q ss_pred             HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcc-hHH
Q 041786          121 KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCAD-VNT  199 (260)
Q Consensus       121 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~-~~t  199 (260)
                      ..+|+.+-..|.+.|++++|+..|++..+            +...+   |   +                  ..|+ ..+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~------------~~~~~---~---~------------------~~~~~a~~   48 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALD------------IEEQL---G---D------------------DHPDTANT   48 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHH------------HHHHT---T---T------------------HHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH------------HHHHH---C---C------------------CCHHHHHH
Confidence            35788888999999999999999997653            21111   1   1                  1122 456


Q ss_pred             HHHHHHhhhhhccHHHHHHHHHHHH
Q 041786          200 NKISIPAVSKEFMIDEAFRLLCNLV  224 (260)
Q Consensus       200 ~~~li~~~~~~g~~~~a~~~~~~m~  224 (260)
                      ++.+-..|...|+.++|.+.+++..
T Consensus        49 ~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen   49 LNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            7788889999999999999998754

...

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=92.61  E-value=6.1  Score=34.80  Aligned_cols=101  Identities=11%  Similarity=0.180  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCC-cHHHHHHHHHHH--------HHHHhCCC--CCCHhhH-HHHHHHHh
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQ-CVLLYNSLHVCF--------VRMIRKGF--VPDKRTH-TILVNAWC  132 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~--------~~m~~~g~--~p~~~~~-~~li~~~~  132 (260)
                      -+|..+|..-.|..-+..|+.+|.+.++.+..+ .+.+.++++..+        -.+.+.|+  -+|...| ..-++.+.
T Consensus       367 Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cskD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~  446 (656)
T KOG1914|consen  367 LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCSKDKETAFRIFELGLKKFGDSPEYVLKYLDFLS  446 (656)
T ss_pred             eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhcCChhHHHHHHHHHHHhcCCChHHHHHHHHHHH
Confidence            367777777777777888888888888777666 667777777322        22333332  2344444 35566677


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 041786          133 SSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMI  167 (260)
Q Consensus       133 ~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~  167 (260)
                      +.|+=..|.-+|++...+++.+  +++.++++.|.
T Consensus       447 ~lNdd~N~R~LFEr~l~s~l~~--~ks~~Iw~r~l  479 (656)
T KOG1914|consen  447 HLNDDNNARALFERVLTSVLSA--DKSKEIWDRML  479 (656)
T ss_pred             HhCcchhHHHHHHHHHhccCCh--hhhHHHHHHHH
Confidence            7777777777777777663333  34444444443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=92.56  E-value=3  Score=35.10  Aligned_cols=91  Identities=13%  Similarity=-0.053  Sum_probs=67.0

Q ss_pred             HHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 041786           72 EEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKG  151 (260)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  151 (260)
                      ..+.+.|++++|+..|++..+..                       .-+...|..+-.+|.+.|++++|+..+++.... 
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~-----------------------P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l-   65 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLD-----------------------PNNAELYADRAQANIKLGNFTEAVADANKAIEL-   65 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-----------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-
Confidence            45667899999999999887632                       124566777788899999999999999887752 


Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCC
Q 041786          152 FNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDG  227 (260)
Q Consensus       152 ~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~  227 (260)
                                          .|+                     +...|..+-.+|...|++++|...|++..+.+
T Consensus        66 --------------------~P~---------------------~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l~  100 (356)
T PLN03088         66 --------------------DPS---------------------LAKAYLRKGTACMKLEEYQTAKAALEKGASLA  100 (356)
T ss_pred             --------------------CcC---------------------CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence                                221                     23345555567778889999999998877643

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=92.54  E-value=3.1  Score=31.66  Aligned_cols=78  Identities=3%  Similarity=-0.034  Sum_probs=61.5

Q ss_pred             chHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhh
Q 041786           44 SELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRT  123 (260)
Q Consensus        44 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~  123 (260)
                      ....|.+.|-.+...+.--++...-.|...|. ..+.++++.++....+                   +...+-.+|...
T Consensus       121 ~d~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~-------------------l~~~~~~~n~ei  180 (203)
T PF11207_consen  121 GDQEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALE-------------------LSNPDDNFNPEI  180 (203)
T ss_pred             CcHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHH-------------------hcCCCCCCCHHH
Confidence            34489999999988887767777777777776 5678999999888775                   234455788999


Q ss_pred             HHHHHHHHhccCCHHHHH
Q 041786          124 HTILVNAWCSSGKMREAQ  141 (260)
Q Consensus       124 ~~~li~~~~~~g~~~~a~  141 (260)
                      +.+|...|-+.|+.+.|-
T Consensus       181 l~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  181 LKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             HHHHHHHHHHhcchhhhh
Confidence            999999999999998874

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.49  E-value=5  Score=32.65  Aligned_cols=88  Identities=8%  Similarity=0.100  Sum_probs=50.1

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH-------------HHHHhCCCCCCHhhHH
Q 041786           59 SLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF-------------VRMIRKGFVPDKRTHT  125 (260)
Q Consensus        59 g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-------------~~m~~~g~~p~~~~~~  125 (260)
                      |+.....-+++.+..+.+..++.+|++++..-.+++ +.+....+.+-.||             +++-  -..|...-|.
T Consensus         5 g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~--ql~P~~~qYr   81 (459)
T KOG4340|consen    5 GAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLG--QLHPELEQYR   81 (459)
T ss_pred             cccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHH--hhChHHHHHH
Confidence            333333346667777777778888887777655543 11344444444555             1111  1335444443


Q ss_pred             HH-HHHHhccCCHHHHHHHHHHHHh
Q 041786          126 IL-VNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       126 ~l-i~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      .- -..+.+.+.+.+|.++...|..
T Consensus        82 lY~AQSLY~A~i~ADALrV~~~~~D  106 (459)
T KOG4340|consen   82 LYQAQSLYKACIYADALRVAFLLLD  106 (459)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHhcC
Confidence            22 3445667778888888887765

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.39  E-value=3.7  Score=32.71  Aligned_cols=76  Identities=17%  Similarity=0.110  Sum_probs=48.7

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH-----------------HHHHhCCCCCCHhhHHHHHHHHhc
Q 041786           71 IEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF-----------------VRMIRKGFVPDKRTHTILVNAWCS  133 (260)
Q Consensus        71 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-----------------~~m~~~g~~p~~~~~~~li~~~~~  133 (260)
                      +..+.|..+++.|.+.+++|.+.   -+..|.+-|-.++                 ++|- ....|+..+.|-...++..
T Consensus       144 VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s-~k~~~T~~llnG~Av~~l~  219 (299)
T KOG3081|consen  144 VQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELS-EKTPPTPLLLNGQAVCHLQ  219 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHh-cccCCChHHHccHHHHHHH
Confidence            44555556666666666666652   2223333222111                 2221 2367888899999999999


Q ss_pred             cCCHHHHHHHHHHHHhC
Q 041786          134 SGKMREAQEFLQELSDK  150 (260)
Q Consensus       134 ~g~~~~a~~~~~~m~~~  150 (260)
                      .|++++|+.++++...+
T Consensus       220 ~~~~eeAe~lL~eaL~k  236 (299)
T KOG3081|consen  220 LGRYEEAESLLEEALDK  236 (299)
T ss_pred             hcCHHHHHHHHHHHHhc
Confidence            99999999999987764

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=92.31  E-value=3.1  Score=33.57  Aligned_cols=99  Identities=10%  Similarity=0.026  Sum_probs=70.4

Q ss_pred             hhhhhHHHHHHHHcc-cchhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 041786           14 YFAAVNHIANIVRHD-IYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTA   92 (260)
Q Consensus        14 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (260)
                      |..++...++.+... +.+...+...+..++....+...++.+.... +-+...|..+|.+|.+.|+...|+..|+.+.+
T Consensus       137 f~~WV~~~R~~l~e~~~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         137 FDEWVLEQRRALEELFIKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            555666666655554 3445666666777766667777777775543 34788999999999999999999999999986


Q ss_pred             cCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 041786           93 FNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNA  130 (260)
Q Consensus        93 ~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~  130 (260)
                      .                 .+.+.|+.|...+.......
T Consensus       216 ~-----------------~~edlgi~P~~~~~~~y~~~  236 (280)
T COG3629         216 T-----------------LAEELGIDPAPELRALYEEI  236 (280)
T ss_pred             H-----------------hhhhcCCCccHHHHHHHHHH
Confidence            2                 23455777776666655555

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.10  E-value=0.69  Score=37.61  Aligned_cols=94  Identities=18%  Similarity=0.262  Sum_probs=70.8

Q ss_pred             cCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcC---CCC--cHHHHHHHHHHH---------HHHHhCCCCCCHh
Q 041786           57 PDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFN---CQQ--CVLLYNSLHVCF---------VRMIRKGFVPDKR  122 (260)
Q Consensus        57 ~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~~--~~~~~~~li~~~---------~~m~~~g~~p~~~  122 (260)
                      ..|...+..+...++..-....+++++...+-+++.+-   ..|  +.++|-.++.-|         ..=.+.|+-||..
T Consensus        57 ~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlllky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   57 ERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLLKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             hcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHHccChHHHHHHHhCcchhccccchh
Confidence            34666777888888988888899999999888877541   233  345555555333         2224679999999


Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          123 THTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       123 ~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      +++.+|+.+.+.++..+|-++.-+|...
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            9999999999999999998887766544

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=91.84  E-value=2.1  Score=30.68  Aligned_cols=100  Identities=14%  Similarity=0.069  Sum_probs=53.0

Q ss_pred             HHHHHHHhcccCCCC--CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHH--HHH---------HHHH
Q 041786           47 SMWKTIELMKPDSLS--VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLH--VCF---------VRMI  113 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li--~~~---------~~m~  113 (260)
                      .+.+.++.+.+..-.  ......-.+-..+...|++++|...|+........|+......+-  .++         ....
T Consensus        29 ~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L  108 (145)
T PF09976_consen   29 KAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATL  108 (145)
T ss_pred             HHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            445555665444211  112333344567777777777777777777655222211111111  111         1111


Q ss_pred             hC--CCCCCHhhHHHHHHHHhccCCHHHHHHHHHH
Q 041786          114 RK--GFVPDKRTHTILVNAWCSSGKMREAQEFLQE  146 (260)
Q Consensus       114 ~~--g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  146 (260)
                      +.  +-......+...=+.|.+.|+.++|...|+.
T Consensus       109 ~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  109 QQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            11  1122334555667789999999999999875

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=91.65  E-value=1.5  Score=37.69  Aligned_cols=64  Identities=9%  Similarity=0.062  Sum_probs=53.4

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCH----hhHHHHHHHHhccCCHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDK----RTHTILVNAWCSSGKMR  138 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~  138 (260)
                      +...|+.+-.+|.+.|++++|+..|++..+                        +.|+.    ..|..+-.+|.+.|+.+
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALe------------------------L~Pd~aeA~~A~yNLAcaya~LGr~d  129 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALE------------------------LNPNPDEAQAAYYNKACCHAYREEGK  129 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh------------------------hCCCchHHHHHHHHHHHHHHHcCCHH
Confidence            478899999999999999999999998775                        34663    35888888999999999


Q ss_pred             HHHHHHHHHHhC
Q 041786          139 EAQEFLQELSDK  150 (260)
Q Consensus       139 ~a~~~~~~m~~~  150 (260)
                      +|++.+++..+.
T Consensus       130 EAla~LrrALel  141 (453)
T PLN03098        130 KAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHh
Confidence            999988877664

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=91.62  E-value=1.2  Score=36.81  Aligned_cols=76  Identities=18%  Similarity=0.165  Sum_probs=56.4

Q ss_pred             CCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC----CCC
Q 041786          118 VPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE----LGL  193 (260)
Q Consensus       118 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~----~~~  193 (260)
                      .|+..-|..-|.+++..+++++-.++...                         +-+++-|-.++.+|.+.|+    ...
T Consensus       205 v~dkrfw~lki~aLa~~~~w~eL~~fa~s-------------------------kKsPIGyepFv~~~~~~~~~~eA~~y  259 (319)
T PF04840_consen  205 VPDKRFWWLKIKALAENKDWDELEKFAKS-------------------------KKSPIGYEPFVEACLKYGNKKEASKY  259 (319)
T ss_pred             CcHHHHHHHHHHHHHhcCCHHHHHHHHhC-------------------------CCCCCChHHHHHHHHHCCCHHHHHHH
Confidence            48999999999999999999988765331                         1256888888888888887    111


Q ss_pred             CcchHHHHHHHHhhhhhccHHHHHHH
Q 041786          194 CADVNTNKISIPAVSKEFMIDEAFRL  219 (260)
Q Consensus       194 ~~~~~t~~~li~~~~~~g~~~~a~~~  219 (260)
                      -|. .++.--+..|.++|++.+|-+.
T Consensus       260 I~k-~~~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  260 IPK-IPDEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             HHh-CChHHHHHHHHHCCCHHHHHHH
Confidence            222 3346778888999999988665

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

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=91.57  E-value=1.1  Score=27.51  Aligned_cols=57  Identities=16%  Similarity=0.160  Sum_probs=46.0

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786           71 IEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus        71 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      -..|.+.+++++|+++++.+...+                       +.+...|...-..+.+.|++++|.+.|+...+.
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~-----------------------p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELD-----------------------PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhC-----------------------cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            357889999999999999988632                       124566667778889999999999999988764

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=91.48  E-value=0.35  Score=26.94  Aligned_cols=39  Identities=23%  Similarity=0.465  Sum_probs=30.1

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 041786          127 LVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNK  165 (260)
Q Consensus       127 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~  165 (260)
                      |-.+|...|+.+.|.+++++....|-.+--.+|..++..
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~~~~~q~~eA~~LL~~   43 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEEGDEAQRQEARALLAQ   43 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            568999999999999999999876654444566666543

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.

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

Probab=91.20  E-value=7.8  Score=32.21  Aligned_cols=133  Identities=10%  Similarity=-0.019  Sum_probs=73.8

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHH---HH-HHH--------HHHHhC--CCCCCH-hhHHHHHHHHhccC
Q 041786           71 IEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNS---LH-VCF--------VRMIRK--GFVPDK-RTHTILVNAWCSSG  135 (260)
Q Consensus        71 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~---li-~~~--------~~m~~~--g~~p~~-~~~~~li~~~~~~g  135 (260)
                      ...+...|++++|...+++..+.. +.+...+..   .. ...        .+..+.  ...|+. .....+-..+...|
T Consensus        50 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G  128 (355)
T cd05804          50 ALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAG  128 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcC
Confidence            345566788888888888877653 222333331   11 000        122221  222332 23334455677889


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCC---Ccch--HH
Q 041786          136 KMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGL---CADV--NT  199 (260)
Q Consensus       136 ~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~---~~~~--~t  199 (260)
                      ++++|.+.+++..+..                    +.+...+..+-..|...|+           ...   .++.  ..
T Consensus       129 ~~~~A~~~~~~al~~~--------------------p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~  188 (355)
T cd05804         129 QYDRAEEAARRALELN--------------------PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHN  188 (355)
T ss_pred             CHHHHHHHHHHHHhhC--------------------CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHH
Confidence            9999999988877632                    1223445555555555555           111   1222  23


Q ss_pred             HHHHHHhhhhhccHHHHHHHHHHHH
Q 041786          200 NKISIPAVSKEFMIDEAFRLLCNLV  224 (260)
Q Consensus       200 ~~~li~~~~~~g~~~~a~~~~~~m~  224 (260)
                      |-.+...+...|+.++|..+|++..
T Consensus       189 ~~~la~~~~~~G~~~~A~~~~~~~~  213 (355)
T cd05804         189 WWHLALFYLERGDYEAALAIYDTHI  213 (355)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            4456677778888888888888764

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.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=91.18  E-value=3.3  Score=33.43  Aligned_cols=82  Identities=18%  Similarity=0.184  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHH
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQ  145 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  145 (260)
                      ++..++..+...|+.+.+...++++....                       .-+...|-.+|.+|.+.|+...|++.|+
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-----------------------p~~E~~~~~lm~~y~~~g~~~~ai~~y~  211 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-----------------------PYDEPAYLRLMEAYLVNGRQSAAIRAYR  211 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-----------------------ccchHHHHHHHHHHHHcCCchHHHHHHH
Confidence            44556666666777777777777666421                       2478899999999999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHH
Q 041786          146 ELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIET  184 (260)
Q Consensus       146 ~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~  184 (260)
                      .+.+.              .+.+.|+.|-..+.......
T Consensus       212 ~l~~~--------------~~edlgi~P~~~~~~~y~~~  236 (280)
T COG3629         212 QLKKT--------------LAEELGIDPAPELRALYEEI  236 (280)
T ss_pred             HHHHH--------------hhhhcCCCccHHHHHHHHHH
Confidence            98863              34466788877777776666

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=91.02  E-value=1.2  Score=26.75  Aligned_cols=54  Identities=11%  Similarity=0.054  Sum_probs=42.9

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhc
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAF   93 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   93 (260)
                      +...+...+|.+.|+...+.. +-+...+..+-..+.+.|++++|...|++..+.
T Consensus         7 ~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    7 LYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            445556669999999998775 225788888899999999999999999998764

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=90.44  E-value=8  Score=31.04  Aligned_cols=103  Identities=11%  Similarity=0.092  Sum_probs=68.2

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      ...|..-+..+.+.|++++|...|+.+.+.-  |                ++...|+  .+-.+-..|...|++++|...
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P----------------~s~~a~~--A~y~LG~~y~~~g~~~~A~~~  202 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKY--P----------------DSTYQPN--ANYWLGQLNYNKGKKDDAAYY  202 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--c----------------CCcchHH--HHHHHHHHHHHcCCHHHHHHH
Confidence            4567777777777899999999999988632  1                1112223  334577788899999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCCCCCC-hhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHH
Q 041786          144 LQELSDKGFNPPVRSAKQMVNKMIKQGSVPD-LETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCN  222 (260)
Q Consensus       144 ~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~-~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~  222 (260)
                      |+.+.+.                     -|+ .....                   .+-.+...+...|+.++|..+|++
T Consensus       203 f~~vv~~---------------------yP~s~~~~d-------------------Al~klg~~~~~~g~~~~A~~~~~~  242 (263)
T PRK10803        203 FASVVKN---------------------YPKSPKAAD-------------------AMFKVGVIMQDKGDTAKAKAVYQQ  242 (263)
T ss_pred             HHHHHHH---------------------CCCCcchhH-------------------HHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9988753                     122 11111                   122233445577888999999988


Q ss_pred             HHHC
Q 041786          223 LVED  226 (260)
Q Consensus       223 m~~~  226 (260)
                      +.+.
T Consensus       243 vi~~  246 (263)
T PRK10803        243 VIKK  246 (263)
T ss_pred             HHHH
Confidence            8764

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=90.42  E-value=5.6  Score=29.22  Aligned_cols=68  Identities=10%  Similarity=-0.050  Sum_probs=51.8

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHH
Q 041786           62 VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  141 (260)
                      -....|..+...+...|++++|+..|+.......                    +......+|..+-..|.+.|++++|+
T Consensus        33 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~--------------------~~~~~~~~~~~lg~~~~~~g~~~eA~   92 (168)
T CHL00033         33 KEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEI--------------------DPYDRSYILYNIGLIHTSNGEHTKAL   92 (168)
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccc--------------------cchhhHHHHHHHHHHHHHcCCHHHHH
Confidence            3466778888888899999999999998775210                    10012347788888899999999999


Q ss_pred             HHHHHHHh
Q 041786          142 EFLQELSD  149 (260)
Q Consensus       142 ~~~~~m~~  149 (260)
                      ..++....
T Consensus        93 ~~~~~Al~  100 (168)
T CHL00033         93 EYYFQALE  100 (168)
T ss_pred             HHHHHHHH
Confidence            99987764

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

Probab=90.35  E-value=16  Score=34.28  Aligned_cols=205  Identities=14%  Similarity=0.138  Sum_probs=109.0

Q ss_pred             ccchhhhhHHHHHHHHcccchhHH-HHHh--hhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 041786           11 KEDYFAAVNHIANIVRHDIYAERT-LNRL--NLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVF   87 (260)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~--~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~   87 (260)
                      ...|..++.....++++.+...-+ ..+.  ..+.++..+|..+++.....+.. |..|...+-..|.+.+..++|..+|
T Consensus        22 ~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Y  100 (932)
T KOG2053|consen   22 SSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLY  100 (932)
T ss_pred             hHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHH
Confidence            445566677777777776544322 2222  23455555888888887666554 8889999999999999999999999


Q ss_pred             HHhhhcCCCCcHHHHHHHHHHH------HHHHhC------CCCCCHhhHHHHHHHHhccC-CHHHHHHHHHHHHhCCCCC
Q 041786           88 NKCTAFNCQQCVLLYNSLHVCF------VRMIRK------GFVPDKRTHTILVNAWCSSG-KMREAQEFLQELSDKGFNP  154 (260)
Q Consensus        88 ~~m~~~~~~~~~~~~~~li~~~------~~m~~~------g~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~  154 (260)
                      +......  |+......+..|+      .++++.      ...-+.+.|.++++-+...- ..+.+..   .|       
T Consensus       101 e~~~~~~--P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~Slilqs~~~~~~~~~---~i-------  168 (932)
T KOG2053|consen  101 ERANQKY--PSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVISLILQSIFSENELLD---PI-------  168 (932)
T ss_pred             HHHHhhC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHhccCCccccc---ch-------
Confidence            9877543  5544444444443      222222      22334555666666554432 2222222   00       


Q ss_pred             CHHHHHHHHHHHHHCC-CCCChhchHHHHHHHHhcCC--------------CCCCcchHHHHHHHHhhhhhccHHHHHHH
Q 041786          155 PVRSAKQMVNKMIKQG-SVPDLETFNSLIETICKSGE--------------LGLCADVNTNKISIPAVSKEFMIDEAFRL  219 (260)
Q Consensus       155 ~~~~a~~l~~~m~~~g-~~p~~~~~~~li~~~~~~~~--------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~  219 (260)
                      -..-|...++.+.+.+ ..-+..-...-+..+...|.              .-...+...-+.-+..+...+++.+..++
T Consensus       169 ~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l  248 (932)
T KOG2053|consen  169 LLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFEL  248 (932)
T ss_pred             hHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHH
Confidence            0113444555554433 11111111111111222222              11222334444556667777777777777


Q ss_pred             HHHHHHCCC
Q 041786          220 LCNLVEDGH  228 (260)
Q Consensus       220 ~~~m~~~~~  228 (260)
                      -.++...|.
T Consensus       249 ~~~Ll~k~~  257 (932)
T KOG2053|consen  249 SSRLLEKGN  257 (932)
T ss_pred             HHHHHHhCC
Confidence            777777664

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.11  E-value=10  Score=36.25  Aligned_cols=110  Identities=14%  Similarity=0.214  Sum_probs=65.3

Q ss_pred             HHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH---
Q 041786           33 RTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF---  109 (260)
Q Consensus        33 ~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~---  109 (260)
                      ..+-.+.+...-..+|..+|+...     .+....+.||.-.   +.++.|.+.-+...+      +..|+.+-.+.   
T Consensus      1052 ~~ia~iai~~~LyEEAF~ifkkf~-----~n~~A~~VLie~i---~~ldRA~efAe~~n~------p~vWsqlakAQL~~ 1117 (1666)
T KOG0985|consen 1052 PDIAEIAIENQLYEEAFAIFKKFD-----MNVSAIQVLIENI---GSLDRAYEFAERCNE------PAVWSQLAKAQLQG 1117 (1666)
T ss_pred             hhHHHHHhhhhHHHHHHHHHHHhc-----ccHHHHHHHHHHh---hhHHHHHHHHHhhCC------hHHHHHHHHHHHhc
Confidence            344444444444557777776643     3455555565533   456666665554432      45666665433   


Q ss_pred             ---HHHHhCCC-CCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCH
Q 041786          110 ---VRMIRKGF-VPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPV  156 (260)
Q Consensus       110 ---~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~  156 (260)
                         .+..++-+ .-|...|..+|+...+.|.+++-...+...++....|.+
T Consensus      1118 ~~v~dAieSyikadDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i 1168 (1666)
T KOG0985|consen 1118 GLVKDAIESYIKADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI 1168 (1666)
T ss_pred             CchHHHHHHHHhcCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc
Confidence               12222222 236778999999999999999998888766665444443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=89.80  E-value=1.1  Score=40.69  Aligned_cols=13  Identities=31%  Similarity=0.332  Sum_probs=8.9

Q ss_pred             ccHHHHHHHHHHH
Q 041786          235 GQFDDAFCFFSEM  247 (260)
Q Consensus       235 g~~~~a~~~~~~m  247 (260)
                      |+...|...|-+.
T Consensus       896 g~lkaae~~flea  908 (1636)
T KOG3616|consen  896 GDLKAAEEHFLEA  908 (1636)
T ss_pred             cChhHHHHHHHhh
Confidence            7777777766543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=89.77  E-value=0.88  Score=23.85  Aligned_cols=26  Identities=15%  Similarity=0.216  Sum_probs=21.8

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHH
Q 041786          123 THTILVNAWCSSGKMREAQEFLQELS  148 (260)
Q Consensus       123 ~~~~li~~~~~~g~~~~a~~~~~~m~  148 (260)
                      +|+.|-..|.+.|++++|+++|++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46788899999999999999999844

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.72  E-value=8.8  Score=30.47  Aligned_cols=151  Identities=12%  Similarity=0.042  Sum_probs=92.7

Q ss_pred             cCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHh-hHHHHHHHHhccCCHHHHHHHHHHHHhCCC---
Q 041786           77 HGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKR-THTILVNAWCSSGKMREAQEFLQELSDKGF---  152 (260)
Q Consensus        77 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~---  152 (260)
                      ..+.++..++++++...                  +......++.. .|--+.-+...+|+.+.|..+++.+..+=-   
T Consensus        25 ~rnseevv~l~~~~~~~------------------~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~   86 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNY------------------SKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSK   86 (289)
T ss_pred             ccCHHHHHHHHHHHHHH------------------hhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCCh
Confidence            35677777777777642                  11111444443 233444555566666666666666554320   


Q ss_pred             ------------CCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC------------CCCCcchHHHHHHHHhhh
Q 041786          153 ------------NPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE------------LGLCADVNTNKISIPAVS  208 (260)
Q Consensus       153 ------------~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~------------~~~~~~~~t~~~li~~~~  208 (260)
                                  .....+|.++++.+.+.. +-|..+|--=+...-..|.            ..+-.|...|--+-+.|.
T Consensus        87 RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~  165 (289)
T KOG3060|consen   87 RVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYL  165 (289)
T ss_pred             hHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence                        111116666666665554 3345555544444444554            456678899999999999


Q ss_pred             hhccHHHHHHHHHHHHHCCCCcCCCc---------------ccHHHHHHHHHHHH
Q 041786          209 KEFMIDEAFRLLCNLVEDGHKLFPSL---------------GQFDDAFCFFSEMQ  248 (260)
Q Consensus       209 ~~g~~~~a~~~~~~m~~~~~~p~~~~---------------g~~~~a~~~~~~m~  248 (260)
                      ..|++++|--.++++.-.  .|....               .+.+.|.+++..-.
T Consensus       166 ~~~~f~kA~fClEE~ll~--~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~al  218 (289)
T KOG3060|consen  166 SEGDFEKAAFCLEELLLI--QPFNPLYFQRLAEVLYTQGGAENLELARKYYERAL  218 (289)
T ss_pred             hHhHHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            999999999999999874  465555               55566666665544

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

Probab=89.66  E-value=16  Score=33.28  Aligned_cols=53  Identities=9%  Similarity=-0.028  Sum_probs=33.1

Q ss_pred             hHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc---------ccHHHHHHHHHHHHh
Q 041786          197 VNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL---------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       197 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~---------g~~~~a~~~~~~m~~  249 (260)
                      ...|-.-+..-..+..++.|..+|.+....+-.+...+         ++.++|.+++++-..
T Consensus       618 eeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk  679 (913)
T KOG0495|consen  618 EEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRLLEEALK  679 (913)
T ss_pred             HHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHH
Confidence            34566666666777788888888877655332222222         777888877766553

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.56  E-value=5  Score=32.64  Aligned_cols=40  Identities=23%  Similarity=0.122  Sum_probs=21.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHH
Q 041786           67 LSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLH  106 (260)
Q Consensus        67 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  106 (260)
                      .+-.-....+.|+.+.|.+-|+...+-+--.....||.-+
T Consensus       147 ~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniAL  186 (459)
T KOG4340|consen  147 QINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL  186 (459)
T ss_pred             hccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHH
Confidence            3333344456677777777777665543223344555555

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=89.47  E-value=0.84  Score=23.93  Aligned_cols=26  Identities=15%  Similarity=0.327  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhh
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCT   91 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~   91 (260)
                      +|+.|-..|.+.|++++|+++|++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            47888999999999999999999854

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=89.41  E-value=15  Score=32.70  Aligned_cols=131  Identities=15%  Similarity=0.125  Sum_probs=82.0

Q ss_pred             CCCCCCHhhHHHHHHHHhcc--C---CHHHHHHHHHHHHhCCCCCCHHHHHHH--HHHHHHCCCCCCh-hchHHHHHHHH
Q 041786          115 KGFVPDKRTHTILVNAWCSS--G---KMREAQEFLQELSDKGFNPPVRSAKQM--VNKMIKQGSVPDL-ETFNSLIETIC  186 (260)
Q Consensus       115 ~g~~p~~~~~~~li~~~~~~--g---~~~~a~~~~~~m~~~~~~~~~~~a~~l--~~~m~~~g~~p~~-~~~~~li~~~~  186 (260)
                      .+...|...|...+.+....  +   +.+.|.++|++..+.  .|+...|...  +......+..|.. ..+..+.....
T Consensus       331 ~~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        331 QGLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             ccCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            45567888999999886443  2   377899999988764  4665433332  2233344444432 22333344333


Q ss_pred             hcCCC-CCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-----------ccHHHHHHHHHHHHh
Q 041786          187 KSGEL-GLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       187 ~~~~~-~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-----------g~~~~a~~~~~~m~~  249 (260)
                      +.-.. ....+...|..+--.+...|++++|...+++..+.+  |+...           |+.++|...+++...
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~  481 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFN  481 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            32211 233345677777666667899999999999998876  33221           999999999987653

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

Probab=88.63  E-value=11  Score=33.27  Aligned_cols=79  Identities=15%  Similarity=0.104  Sum_probs=51.0

Q ss_pred             HHHHHHHhc-ccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhH
Q 041786           47 SMWKTIELM-KPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTH  124 (260)
Q Consensus        47 ~a~~~~~~m-~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~  124 (260)
                      ...++|-++ ...+.++|..+++.|=-.|--.|++++|.+.|+....                        +.| |...|
T Consensus       412 ~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~------------------------v~Pnd~~lW  467 (579)
T KOG1125|consen  412 HIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQ------------------------VKPNDYLLW  467 (579)
T ss_pred             HHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHh------------------------cCCchHHHH
Confidence            455566555 4446556777777777777778889999999988765                        223 34556


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          125 TILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       125 ~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      |-|=..+++..+-++|++-|.+..+
T Consensus       468 NRLGAtLAN~~~s~EAIsAY~rALq  492 (579)
T KOG1125|consen  468 NRLGATLANGNRSEEAISAYNRALQ  492 (579)
T ss_pred             HHhhHHhcCCcccHHHHHHHHHHHh
Confidence            6666666666666666666665544

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=88.58  E-value=5.8  Score=28.55  Aligned_cols=93  Identities=10%  Similarity=0.051  Sum_probs=53.3

Q ss_pred             CCCcHHHHHHHHHHH-HHHHhCCCCCCH--hhHHHHHHHHhccCCHHHHHHHHHHHHhCC---CC---------------
Q 041786           95 CQQCVLLYNSLHVCF-VRMIRKGFVPDK--RTHTILVNAWCSSGKMREAQEFLQELSDKG---FN---------------  153 (260)
Q Consensus        95 ~~~~~~~~~~li~~~-~~m~~~g~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~---------------  153 (260)
                      +.++..+|...+.-. ..|.+.+..++.  ...|+++.-.+--+++....++++.+..-.   +.               
T Consensus        10 ~~~nL~~w~~fi~~~~~y~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~Sl   89 (145)
T PF13762_consen   10 VLANLEVWKTFINSHLPYMQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSL   89 (145)
T ss_pred             hhhhHHHHHHHHHHHHHHhhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHH
Confidence            445566666666433 455666666665  345777777777778888877777663211   00               


Q ss_pred             ---CC-HHHHHHHHHHHHHCCCCCChhchHHHHHHHHh
Q 041786          154 ---PP-VRSAKQMVNKMIKQGSVPDLETFNSLIETICK  187 (260)
Q Consensus       154 ---~~-~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~  187 (260)
                         +. -..+..+|..|++.+.+++..-|..+|+++.+
T Consensus        90 snSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li~~~l~  127 (145)
T PF13762_consen   90 SNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLIKAALR  127 (145)
T ss_pred             ccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Confidence               00 00445555555555555566666666655544

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

Probab=88.56  E-value=5.2  Score=35.28  Aligned_cols=124  Identities=10%  Similarity=0.039  Sum_probs=67.8

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhhhc--CCCCcHHHHHHHH----HHHHH
Q 041786           39 NLTLISELSMWKTIELMKPDSLSV-FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAF--NCQQCVLLYNSLH----VCFVR  111 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~li----~~~~~  111 (260)
                      +....+...|.+.|.+-.  ++.| |+.+++-+=-..-+.+.+.+|...|+.....  .+-+...+|..+.    +.+++
T Consensus       390 y~~t~n~kLAe~Ff~~A~--ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rk  467 (611)
T KOG1173|consen  390 YMRTNNLKLAEKFFKQAL--AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRK  467 (611)
T ss_pred             HHHhccHHHHHHHHHHHH--hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHH
Confidence            334445556666665543  2233 4556666555555566677777666655421  1112222333333    22211


Q ss_pred             H----------Hh--CCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 041786          112 M----------IR--KGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKM  166 (260)
Q Consensus       112 m----------~~--~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m  166 (260)
                      .          ++  .-.+.|..++.++--.|...|+++.|.+.|++-..  +.|+...+.+++..+
T Consensus       468 l~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  468 LNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLA  532 (611)
T ss_pred             HhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHH
Confidence            0          00  12345778888888889999999999999996553  344444444444444

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=88.51  E-value=3.3  Score=33.47  Aligned_cols=91  Identities=14%  Similarity=-0.018  Sum_probs=64.8

Q ss_pred             HhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCC-ChhchHHHHHHHHhcCC-----------CCCCcc-h
Q 041786          131 WCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVP-DLETFNSLIETICKSGE-----------LGLCAD-V  197 (260)
Q Consensus       131 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p-~~~~~~~li~~~~~~~~-----------~~~~~~-~  197 (260)
                      ..+.+++.+|.+.|.+..+                     +.| |.+-|..--.+|++.|.           ..+.|. .
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~---------------------l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~ys  149 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIE---------------------LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYS  149 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHh---------------------cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHH
Confidence            4567788888888887765                     344 55666677899999996           334443 5


Q ss_pred             HHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc--ccHHHHHHHH
Q 041786          198 NTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL--GQFDDAFCFF  244 (260)
Q Consensus       198 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~--g~~~~a~~~~  244 (260)
                      .+|..|=.+|...|++++|.+-|+...+  +.|+..+  .+++.|..-+
T Consensus       150 kay~RLG~A~~~~gk~~~A~~aykKaLe--ldP~Ne~~K~nL~~Ae~~l  196 (304)
T KOG0553|consen  150 KAYGRLGLAYLALGKYEEAIEAYKKALE--LDPDNESYKSNLKIAEQKL  196 (304)
T ss_pred             HHHHHHHHHHHccCcHHHHHHHHHhhhc--cCCCcHHHHHHHHHHHHHh
Confidence            6899999999999999999999887654  5566654  3344443333

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=87.84  E-value=9.1  Score=28.24  Aligned_cols=66  Identities=11%  Similarity=0.019  Sum_probs=51.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~  141 (260)
                      ....|..+-..+.+.|++++|...|++..+.+..                     .+ ....+..+-..+.+.|++++|.
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~---------------------~~~~~~~~~~la~~~~~~g~~~~A~   92 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEED---------------------PNDRSYILYNMGIIYASNGEHDKAL   92 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhc---------------------cchHHHHHHHHHHHHHHcCCHHHHH
Confidence            4566788888899999999999999987753210                     11 1356778888899999999999


Q ss_pred             HHHHHHHh
Q 041786          142 EFLQELSD  149 (260)
Q Consensus       142 ~~~~~m~~  149 (260)
                      ..+.+..+
T Consensus        93 ~~~~~al~  100 (172)
T PRK02603         93 EYYHQALE  100 (172)
T ss_pred             HHHHHHHH
Confidence            99987765

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=87.61  E-value=3.8  Score=27.45  Aligned_cols=38  Identities=16%  Similarity=0.245  Sum_probs=30.4

Q ss_pred             HHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          112 MIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       112 m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      +....+.|+..+..+.++||.|.+++..|.++|+-.+.
T Consensus        36 l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   36 LFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            44567889999999999999999999999999998875

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 ....

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=87.24  E-value=3.3  Score=22.70  Aligned_cols=30  Identities=13%  Similarity=0.282  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcC
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFN   94 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   94 (260)
                      .+|..+-..|.+.|++++|.++|+...+..
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~   31 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALD   31 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            357788999999999999999999998753

>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=86.42  E-value=5.3  Score=24.07  Aligned_cols=64  Identities=16%  Similarity=0.116  Sum_probs=47.4

Q ss_pred             CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHH
Q 041786          120 DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNT  199 (260)
Q Consensus       120 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t  199 (260)
                      +...|..+=..+.+.|++++|+..|.+..+.+                     |+                     +...
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~---------------------p~---------------------~~~~   39 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD---------------------PN---------------------NAEA   39 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS---------------------TT---------------------HHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC---------------------CC---------------------CHHH
Confidence            45677788888999999999999999877521                     21                     3445


Q ss_pred             HHHHHHhhhhhc-cHHHHHHHHHHHHH
Q 041786          200 NKISIPAVSKEF-MIDEAFRLLCNLVE  225 (260)
Q Consensus       200 ~~~li~~~~~~g-~~~~a~~~~~~m~~  225 (260)
                      |..+-.+|.+.| +.++|...|+...+
T Consensus        40 ~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen   40 YYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            666667777778 78888888877654

...

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=86.27  E-value=8.2  Score=33.33  Aligned_cols=94  Identities=11%  Similarity=-0.007  Sum_probs=59.9

Q ss_pred             CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHH
Q 041786          120 DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNT  199 (260)
Q Consensus       120 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t  199 (260)
                      +...|+.+-.+|.+.|++++|...|++..+                     +.|+...                  -...
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALe---------------------L~Pd~ae------------------A~~A  114 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALE---------------------LNPNPDE------------------AQAA  114 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---------------------hCCCchH------------------HHHH
Confidence            467888899999999999999999998665                     2343210                  0134


Q ss_pred             HHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc---------ccHHHHHHHHHHHHhcCC
Q 041786          200 NKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL---------GQFDDAFCFFSEMQIKTH  252 (260)
Q Consensus       200 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~---------g~~~~a~~~~~~m~~~g~  252 (260)
                      |..+-.+|.+.|++++|...+++..+.+-......         .+.++..++++++..-|.
T Consensus       115 ~yNLAcaya~LGr~dEAla~LrrALelsn~~f~~i~~DpdL~plR~~pef~eLlee~rk~G~  176 (453)
T PLN03098        115 YYNKACCHAYREEGKKAADCLRTALRDYNLKFSTILNDPDLAPFRASPEFKELQEEARKGGE  176 (453)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhcchhHHHHHhCcchhhhcccHHHHHHHHHHHHhCC
Confidence            56666777777788888888877776421111000         333455566666665554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=86.11  E-value=9.4  Score=32.99  Aligned_cols=83  Identities=11%  Similarity=0.153  Sum_probs=55.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcC-CCCcHHHHHHHHHHH--------HHHHhCCC--CCCHhhH-HHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFN-CQQCVLLYNSLHVCF--------VRMIRKGF--VPDKRTH-TILVNAW  131 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~--------~~m~~~g~--~p~~~~~-~~li~~~  131 (260)
                      ..+|...|....+..-++.|+.+|-+.++.+ +.++++.+++++..+        -.+.+.|+  -||...| +-.+..+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fL  476 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYATGDRATAYNIFELGLLKFPDSTLYKEKYLLFL  476 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhcCCcchHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            4566777777777777888888888888877 567777888887333        23333332  3555554 4556667


Q ss_pred             hccCCHHHHHHHHHH
Q 041786          132 CSSGKMREAQEFLQE  146 (260)
Q Consensus       132 ~~~g~~~~a~~~~~~  146 (260)
                      .+-++-+.|..+|+.
T Consensus       477 i~inde~naraLFet  491 (660)
T COG5107         477 IRINDEENARALFET  491 (660)
T ss_pred             HHhCcHHHHHHHHHH
Confidence            777777777777773

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.79  E-value=2  Score=22.82  Aligned_cols=29  Identities=21%  Similarity=0.103  Sum_probs=24.1

Q ss_pred             hHHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          197 VNTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       197 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                      ..+++.|-..|...|++++|..++++...
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            45788899999999999999999988764

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.67  E-value=2.4  Score=22.47  Aligned_cols=29  Identities=14%  Similarity=0.358  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTA   92 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (260)
                      ..+++.|-..|...|++++|..++++...
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            45789999999999999999999998775

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.58  E-value=20  Score=30.04  Aligned_cols=46  Identities=13%  Similarity=0.161  Sum_probs=26.1

Q ss_pred             HHHHhccCCHHHHHHHHHHHHhCCCCCCHH-----HHHHHHHHHHHCCCCC
Q 041786          128 VNAWCSSGKMREAQEFLQELSDKGFNPPVR-----SAKQMVNKMIKQGSVP  173 (260)
Q Consensus       128 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----~a~~l~~~m~~~g~~p  173 (260)
                      -+-|.+++.+=-|-..|+.+...+-.|..-     .+-.+|..+......|
T Consensus       468 An~CYk~~eFyyaaKAFd~lE~lDP~pEnWeGKRGACaG~f~~l~~~~~~~  518 (557)
T KOG3785|consen  468 ANDCYKANEFYYAAKAFDELEILDPTPENWEGKRGACAGLFRQLANHKTDP  518 (557)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHccCCCccccCCccchHHHHHHHHHcCCCCC
Confidence            455777777777777777766654333322     4455555555444333

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=85.21  E-value=2.2  Score=23.42  Aligned_cols=28  Identities=21%  Similarity=0.237  Sum_probs=24.7

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          123 THTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       123 ~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      +|..+-.+|.+.|++++|+++|++..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            5667889999999999999999998874

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=85.19  E-value=24  Score=32.75  Aligned_cols=100  Identities=13%  Similarity=0.075  Sum_probs=53.0

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCC-------CChhchHHHHHHHHhcCC-----
Q 041786          123 THTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSV-------PDLETFNSLIETICKSGE-----  190 (260)
Q Consensus       123 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~-------p~~~~~~~li~~~~~~~~-----  190 (260)
                      .++-.|.+|.++|++++|..+-.+....  ......-..--++|.+.|--       .+...=..-|..|-+.|.     
T Consensus       793 ~~~dai~my~k~~kw~da~kla~e~~~~--e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~aiqmydk~~~~ddmi  870 (1636)
T KOG3616|consen  793 LFKDAIDMYGKAGKWEDAFKLAEECHGP--EATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDKAIQMYDKHGLDDDMI  870 (1636)
T ss_pred             hhHHHHHHHhccccHHHHHHHHHHhcCc--hhHHHHHHHhHHhHHhhcchhhhhheeEEccCchHHHHHHHhhCcchHHH
Confidence            4666788899999999998876654321  11111111112233333311       011111234667777775     


Q ss_pred             ---CCCCcch--HHHHHHHHhhhhhccHHHHHHHHHHHH
Q 041786          191 ---LGLCADV--NTNKISIPAVSKEFMIDEAFRLLCNLV  224 (260)
Q Consensus       191 ---~~~~~~~--~t~~~li~~~~~~g~~~~a~~~~~~m~  224 (260)
                         ....|+.  .|-.-+-.-|-..|++..|+..|-+..
T Consensus       871 rlv~k~h~d~l~dt~~~f~~e~e~~g~lkaae~~flea~  909 (1636)
T KOG3616|consen  871 RLVEKHHGDHLHDTHKHFAKELEAEGDLKAAEEHFLEAG  909 (1636)
T ss_pred             HHHHHhChhhhhHHHHHHHHHHHhccChhHHHHHHHhhh
Confidence               1222332  344455566777888888888775543

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

Probab=85.16  E-value=27  Score=31.08  Aligned_cols=28  Identities=18%  Similarity=0.056  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCT   91 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~   91 (260)
                      ..+|-++-.-|--.|+..+|++.|.+..
T Consensus       312 a~sW~aVg~YYl~i~k~seARry~SKat  339 (611)
T KOG1173|consen  312 ALSWFAVGCYYLMIGKYSEARRYFSKAT  339 (611)
T ss_pred             CcchhhHHHHHHHhcCcHHHHHHHHHHh
Confidence            4455555555555566666666666544

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.13  E-value=20  Score=34.52  Aligned_cols=20  Identities=25%  Similarity=0.577  Sum_probs=11.8

Q ss_pred             HHHHHHHhccCCHHHHHHHH
Q 041786          125 TILVNAWCSSGKMREAQEFL  144 (260)
Q Consensus       125 ~~li~~~~~~g~~~~a~~~~  144 (260)
                      +.||-+|++.+++.+-++++
T Consensus      1170 ~eLi~AyAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1170 SELIFAYAKTNRLTELEEFI 1189 (1666)
T ss_pred             HHHHHHHHHhchHHHHHHHh
Confidence            45666666666666555543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=84.92  E-value=13  Score=27.34  Aligned_cols=54  Identities=11%  Similarity=-0.058  Sum_probs=41.3

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVF--PQTLSLIIEEFGKHGLIDNAVEVFNKCTA   92 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (260)
                      +...+...+|.+.|++..+....+.  ...|..+...+.+.|++++|...+++..+
T Consensus        45 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  100 (172)
T PRK02603         45 AQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE  100 (172)
T ss_pred             HHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4445566699999988765533332  46788888999999999999999998775

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

Probab=84.75  E-value=28  Score=30.95  Aligned_cols=157  Identities=14%  Similarity=0.075  Sum_probs=100.4

Q ss_pred             HHHHHHHhcccCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHhhhcC-------------------CCCcHHHHHHHH
Q 041786           47 SMWKTIELMKPDSLSVF-PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFN-------------------CQQCVLLYNSLH  106 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-------------------~~~~~~~~~~li  106 (260)
                      .|..-+.+-.  .+.|+ ....-.|--.|...|.-..|+..++.=....                   -.++...+..+-
T Consensus       337 ~ai~AL~rcl--~LdP~NleaLmaLAVSytNeg~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~  414 (579)
T KOG1125|consen  337 NAISALRRCL--ELDPTNLEALMALAVSYTNEGLQNQALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQ  414 (579)
T ss_pred             HHHHHHHHHH--hcCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHH
Confidence            4444443333  33454 6777888888999998889988887653321                   113344444444


Q ss_pred             HHH-HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCC-hhchHHHHHH
Q 041786          107 VCF-VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPD-LETFNSLIET  184 (260)
Q Consensus       107 ~~~-~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~-~~~~~~li~~  184 (260)
                      ..+ +.-.+.+.++|..++..|=--|--.|.+++|...|+....                     ++|+ ...||-|=..
T Consensus       415 ~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~---------------------v~Pnd~~lWNRLGAt  473 (579)
T KOG1125|consen  415 ELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQ---------------------VKPNDYLLWNRLGAT  473 (579)
T ss_pred             HHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHh---------------------cCCchHHHHHHhhHH
Confidence            333 3334556556666777676667778999999999998776                     3454 4566666655


Q ss_pred             HHhcCC-----------CCCCcc-hHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          185 ICKSGE-----------LGLCAD-VNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       185 ~~~~~~-----------~~~~~~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      ++...+           ..++|+ ++..-.|--+|...|.+++|...|-+....
T Consensus       474 LAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  474 LANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             hcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            555554           456666 344444555788999999998888665543

>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=84.71  E-value=4.8  Score=28.55  Aligned_cols=113  Identities=14%  Similarity=0.210  Sum_probs=64.6

Q ss_pred             cCCHHHHHHHHHHHHhCC-CC-C--------CHHHHHHHHHHHHHCCCCCChhch---HHHHHHHHhcCCCCCCcchHHH
Q 041786          134 SGKMREAQEFLQELSDKG-FN-P--------PVRSAKQMVNKMIKQGSVPDLETF---NSLIETICKSGELGLCADVNTN  200 (260)
Q Consensus       134 ~g~~~~a~~~~~~m~~~~-~~-~--------~~~~a~~l~~~m~~~g~~p~~~~~---~~li~~~~~~~~~~~~~~~~t~  200 (260)
                      .|.+++..++..+...+. +. .        |...+..+|..+..-|-..|....   -.++..|++.|     .+....
T Consensus        15 dG~V~qGveii~k~v~Ssni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~NlKrVi~C~~~~n-----~~se~v   89 (161)
T PF09205_consen   15 DGDVKQGVEIIEKTVNSSNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCGNLKRVIECYAKRN-----KLSEYV   89 (161)
T ss_dssp             TT-HHHHHHHHHHHHHHS-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S-THHHHHHHHHTT--------HHH
T ss_pred             hchHHHHHHHHHHHcCcCCccccceeeeecchhhchhHHHHHHHHHhhhcCchhhcchHHHHHHHHHhc-----chHHHH
Confidence            456666666666554321 10 0        111555666666666666666544   45688888887     455666


Q ss_pred             HHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-----------ccHHHHHHHHHHHHhcCC
Q 041786          201 KISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIKTH  252 (260)
Q Consensus       201 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-----------g~~~~a~~~~~~m~~~g~  252 (260)
                      ...+..+...|+-|...+++.++.+.+ .+++..           |+..++-.++.+.=++|+
T Consensus        90 D~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   90 DLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            777888888888888888888877533 233322           888888888888777775

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=84.58  E-value=34  Score=31.68  Aligned_cols=195  Identities=11%  Similarity=0.120  Sum_probs=114.2

Q ss_pred             HhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH---------HHHHhC--CCC--C
Q 041786           53 ELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF---------VRMIRK--GFV--P  119 (260)
Q Consensus        53 ~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~---------~~m~~~--g~~--p  119 (260)
                      .++....+.-+...|..|.-+..+.|+++.+.+.|++....- .-....|+.+-.|+         -.+.+.  +..  |
T Consensus       312 ~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~p  390 (799)
T KOG4162|consen  312 RKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQP  390 (799)
T ss_pred             HHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCC
Confidence            444444555688999999999999999999999999876422 22345566665444         111121  333  3


Q ss_pred             CH-hhHHHHHHHHhc-cCCHHHHHHHHHHHHh--CCCC----CCHH-------------------------HHHHHHHHH
Q 041786          120 DK-RTHTILVNAWCS-SGKMREAQEFLQELSD--KGFN----PPVR-------------------------SAKQMVNKM  166 (260)
Q Consensus       120 ~~-~~~~~li~~~~~-~g~~~~a~~~~~~m~~--~~~~----~~~~-------------------------~a~~l~~~m  166 (260)
                      +. ..+-..-+-|.+ .+.++++++.-.+...  .+..    |-..                         ++.+.+++-
T Consensus       391 s~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~a  470 (799)
T KOG4162|consen  391 SDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEA  470 (799)
T ss_pred             CcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHH
Confidence            32 222222233333 4566666666555544  1111    1111                         666666666


Q ss_pred             HHC-CCCCChhchHHHHHHHHhcCC-----------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHC-CC-----
Q 041786          167 IKQ-GSVPDLETFNSLIETICKSGE-----------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVED-GH-----  228 (260)
Q Consensus       167 ~~~-g~~p~~~~~~~li~~~~~~~~-----------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~-~~-----  228 (260)
                      .+. +-.|+..-|-++-.+..|.=.           .+-.-+...|..|.-.+...+++.+|..+.+...+. |.     
T Consensus       471 v~~d~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~  550 (799)
T KOG4162|consen  471 VQFDPTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLM  550 (799)
T ss_pred             HhcCCCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhc
Confidence            554 455666666665544433322           334557788888888888899999999988766533 11     


Q ss_pred             ----CcCCCcccHHHHHHHHHHHH
Q 041786          229 ----KLFPSLGQFDDAFCFFSEMQ  248 (260)
Q Consensus       229 ----~p~~~~g~~~~a~~~~~~m~  248 (260)
                          ......++.++|+.....|.
T Consensus       551 ~~~~~i~~~~~~~e~~l~t~~~~L  574 (799)
T KOG4162|consen  551 DGKIHIELTFNDREEALDTCIHKL  574 (799)
T ss_pred             hhhhhhhhhcccHHHHHHHHHHHH
Confidence                11111188888877766665

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=84.57  E-value=19  Score=28.88  Aligned_cols=86  Identities=10%  Similarity=-0.028  Sum_probs=58.3

Q ss_pred             cchHHHHHHHHhcccCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCC
Q 041786           43 ISELSMWKTIELMKPDSLSVF----PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFV  118 (260)
Q Consensus        43 ~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~  118 (260)
                      +...+|...|+.+.+.-  |+    ...+-.+-..|...|++++|...|..+.+.-  |                .+.. 
T Consensus       157 ~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~y--P----------------~s~~-  215 (263)
T PRK10803        157 SRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNY--P----------------KSPK-  215 (263)
T ss_pred             CCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--C----------------CCcc-
Confidence            44457888888876542  32    2456778889999999999999999988531  1                0111 


Q ss_pred             CCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          119 PDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       119 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                       ....+-.+...+...|+.++|..+|+...+.
T Consensus       216 -~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        216 -AADAMFKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             -hhHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             1222223445566889999999999988764

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=84.20  E-value=12  Score=26.37  Aligned_cols=43  Identities=14%  Similarity=-0.051  Sum_probs=24.0

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcC
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHG   78 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~   78 (260)
                      ++...............++.+.+.+. .+...+|.+|..|++.+
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~   55 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD   55 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC
Confidence            33344334444466666666655542 45566677777776653

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=83.84  E-value=5.4  Score=26.47  Aligned_cols=38  Identities=16%  Similarity=0.257  Sum_probs=33.6

Q ss_pred             HHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          112 MIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       112 m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      +....+.|+..+..+.++||-|.+++..|.++|+-.+.
T Consensus        33 l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~   70 (103)
T cd00923          33 LFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKD   70 (103)
T ss_pred             HhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            34557889999999999999999999999999998774

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.47  E-value=3.8  Score=33.53  Aligned_cols=63  Identities=17%  Similarity=0.064  Sum_probs=50.1

Q ss_pred             hhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcC
Q 041786           31 AERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFN   94 (260)
Q Consensus        31 ~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   94 (260)
                      +.-+..+++.++... .+.-++..=...|+-||.++++.+|+.+.+.+++.+|.++.-.|...+
T Consensus       103 ~~~~~irlllky~pq-~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  103 TIHTWIRLLLKYDPQ-KAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             cHHHHHHHHHccChH-HHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            345566666666555 677777777788999999999999999999999999999887776543

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

Probab=83.28  E-value=20  Score=28.10  Aligned_cols=149  Identities=16%  Similarity=0.006  Sum_probs=89.6

Q ss_pred             HHhhhhhcchHHHHHHHHhcccCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHh
Q 041786           36 NRLNLTLISELSMWKTIELMKPDSLSVF-PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIR  114 (260)
Q Consensus        36 ~~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~  114 (260)
                      -.-+...++...|.+-+++-.+.  .|+ ..+|..+...|-+.|+.+.|.+-|+...+..                    
T Consensus        42 al~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~--------------------   99 (250)
T COG3063          42 ALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA--------------------   99 (250)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC--------------------
Confidence            33455566667888888887665  344 6789999999999999999999999877632                    


Q ss_pred             CCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC---
Q 041786          115 KGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE---  190 (260)
Q Consensus       115 ~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~---  190 (260)
                          | +..+.|.-=..+|..|.+++|.+-|++.....-                  ..--..+|..+--+..+.|+   
T Consensus       100 ----p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~------------------Y~~~s~t~eN~G~Cal~~gq~~~  157 (250)
T COG3063         100 ----PNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPA------------------YGEPSDTLENLGLCALKAGQFDQ  157 (250)
T ss_pred             ----CCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCC------------------CCCcchhhhhhHHHHhhcCCchh
Confidence                3 234445555556667777777777766554211                  00012233333333333333   


Q ss_pred             --------CCCCcc-hHHHHHHHHhhhhhccHHHHHHHHHHHHHCCC
Q 041786          191 --------LGLCAD-VNTNKISIPAVSKEFMIDEAFRLLCNLVEDGH  228 (260)
Q Consensus       191 --------~~~~~~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~  228 (260)
                              ....|+ ..+.-.+.....+.|+.-.|...++.....+.
T Consensus       158 A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~  204 (250)
T COG3063         158 AEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHHHHHHHHhccc
Confidence                    111221 23344455566667777777777776665544

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=83.17  E-value=33  Score=30.58  Aligned_cols=125  Identities=11%  Similarity=-0.046  Sum_probs=73.7

Q ss_pred             CCCCCCHHHHHHHHHHHHhcC-----ChHHHHHHHHHhhhcCCCCcH-HHHHHHHHHHHH------------------HH
Q 041786           58 DSLSVFPQTLSLIIEEFGKHG-----LIDNAVEVFNKCTAFNCQQCV-LLYNSLHVCFVR------------------MI  113 (260)
Q Consensus        58 ~g~~~~~~~~~~li~~~~~~~-----~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~------------------m~  113 (260)
                      .+.+.|...|...+.+.....     ....|..+|++..+..  |+. ..|..+..++..                  ..
T Consensus       331 ~~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld--P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        331 QGLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE--PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             ccCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            344567888998888755432     3678999999888753  553 344443333311                  01


Q ss_pred             h---C-CCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcC
Q 041786          114 R---K-GFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSG  189 (260)
Q Consensus       114 ~---~-g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~  189 (260)
                      +   . ....+...|.++--.....|++++|...+++...                                        
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~----------------------------------------  448 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAID----------------------------------------  448 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHH----------------------------------------
Confidence            1   0 1112233444443333334566666665555443                                        


Q ss_pred             CCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCC
Q 041786          190 ELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDG  227 (260)
Q Consensus       190 ~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~  227 (260)
                         ..|+...|..+-..+...|+.++|...|++....+
T Consensus       449 ---L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        449 ---LEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             ---cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence               23556667777788888899999999998876543

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

Probab=83.11  E-value=38  Score=31.18  Aligned_cols=166  Identities=13%  Similarity=-0.042  Sum_probs=105.5

Q ss_pred             HHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhc-----CC-CCcHHHHHHHHHHH
Q 041786           36 NRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAF-----NC-QQCVLLYNSLHVCF  109 (260)
Q Consensus        36 ~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~-~~~~~~~~~li~~~  109 (260)
                      ..+|...+....|..+.....+  -+|+...|..+-+.......+++|.++++....+     |. .-+..-|.....+.
T Consensus       431 i~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hl  508 (777)
T KOG1128|consen  431 ILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHL  508 (777)
T ss_pred             HHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHH
Confidence            3344445544467777666555  3689999999999999999999999999986643     11 01112233333222


Q ss_pred             -HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCC-hhchHHHHHHHHh
Q 041786          110 -VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPD-LETFNSLIETICK  187 (260)
Q Consensus       110 -~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~-~~~~~~li~~~~~  187 (260)
                       ..|..+.+  -..+|-.+=.+..+++++..|.+.|..-..                     ..|| ...||.+-.+|.+
T Consensus       509 e~sl~~npl--q~~~wf~~G~~ALqlek~q~av~aF~rcvt---------------------L~Pd~~eaWnNls~ayi~  565 (777)
T KOG1128|consen  509 ERSLEINPL--QLGTWFGLGCAALQLEKEQAAVKAFHRCVT---------------------LEPDNAEAWNNLSTAYIR  565 (777)
T ss_pred             HHHhhcCcc--chhHHHhccHHHHHHhhhHHHHHHHHHHhh---------------------cCCCchhhhhhhhHHHHH
Confidence             22222222  223444444455667777777777776554                     3455 5689999888888


Q ss_pred             cCC------------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          188 SGE------------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       188 ~~~------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      .+.            .--.-+...|-.-+....+.|.+++|.+.+.++.+.
T Consensus       566 ~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  566 LKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             HhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            887            111334455666677788999999999999888654

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=83.06  E-value=13  Score=25.81  Aligned_cols=87  Identities=20%  Similarity=0.119  Sum_probs=55.7

Q ss_pred             hcchHHHHHHHHhcccCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC
Q 041786           42 LISELSMWKTIELMKPDSLSVF--PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP  119 (260)
Q Consensus        42 ~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p  119 (260)
                      .+...+|..+++.-...|+...  ...+-.+-..+...|++++|..+|++.....  |+                .....
T Consensus        14 ~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~----------------~~~~~   75 (120)
T PF12688_consen   14 LGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PD----------------DELNA   75 (120)
T ss_pred             cCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CC----------------ccccH
Confidence            4556688999988888777654  3455666778888899999999998776421  10                01111


Q ss_pred             CHhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 041786          120 DKRTHTILVNAWCSSGKMREAQEFLQELS  148 (260)
Q Consensus       120 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~  148 (260)
                      ....+  +--++...|+.++|.+.+-...
T Consensus        76 ~l~~f--~Al~L~~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   76 ALRVF--LALALYNLGRPKEALEWLLEAL  102 (120)
T ss_pred             HHHHH--HHHHHHHCCCHHHHHHHHHHHH
Confidence            11222  2336677788888887765443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=82.37  E-value=26  Score=28.72  Aligned_cols=41  Identities=15%  Similarity=0.203  Sum_probs=21.3

Q ss_pred             HHHHhCCCCCCHhhHHHHHHHHhc--cCC----HHHHHHHHHHHHhC
Q 041786          110 VRMIRKGFVPDKRTHTILVNAWCS--SGK----MREAQEFLQELSDK  150 (260)
Q Consensus       110 ~~m~~~g~~p~~~~~~~li~~~~~--~g~----~~~a~~~~~~m~~~  150 (260)
                      +.|.+.|+.-+..+|-+..-....  ..+    ..+|.++|+.|++.
T Consensus        86 ~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~  132 (297)
T PF13170_consen   86 EKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKK  132 (297)
T ss_pred             HHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHh
Confidence            455666666666666543222222  222    34566667766653

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=82.34  E-value=5.3  Score=28.28  Aligned_cols=81  Identities=14%  Similarity=0.028  Sum_probs=47.9

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCC------Ccc
Q 041786          123 THTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGL------CAD  196 (260)
Q Consensus       123 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~------~~~  196 (260)
                      ....+|..+...+.......+++.+...+                    ..+...++.++..|++.+....      ..+
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~--------------------~~~~~~~~~li~ly~~~~~~~ll~~l~~~~~   68 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKLN--------------------SENPALQTKLIELYAKYDPQKEIERLDNKSN   68 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHccC--------------------ccchhHHHHHHHHHHHHCHHHHHHHHHhccc
Confidence            34567777777777888887777766532                    2455677777777777654100      122


Q ss_pred             hHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          197 VNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       197 ~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                      ......++..|.+.+.++++..++..+
T Consensus        69 ~yd~~~~~~~c~~~~l~~~~~~l~~k~   95 (140)
T smart00299       69 HYDIEKVGKLCEKAKLYEEAVELYKKD   95 (140)
T ss_pred             cCCHHHHHHHHHHcCcHHHHHHHHHhh
Confidence            222334556666666666666666554

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=82.30  E-value=7.5  Score=32.18  Aligned_cols=105  Identities=12%  Similarity=0.082  Sum_probs=73.6

Q ss_pred             CCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----
Q 041786          116 GFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----  190 (260)
Q Consensus       116 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----  190 (260)
                      +......+.+..|.-+...|+...|..+-.+.+                       .|+..-|...|.+|+..++     
T Consensus       172 ~~~f~~~Sl~~Ti~~li~~~~~k~A~kl~k~Fk-----------------------v~dkrfw~lki~aLa~~~~w~eL~  228 (319)
T PF04840_consen  172 NTNFVGLSLNDTIRKLIEMGQEKQAEKLKKEFK-----------------------VPDKRFWWLKIKALAENKDWDELE  228 (319)
T ss_pred             ccchhcCCHHHHHHHHHHCCCHHHHHHHHHHcC-----------------------CcHHHHHHHHHHHHHhcCCHHHHH
Confidence            333344566777777888888888877655443                       3889999999999999998     


Q ss_pred             --CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHC-CCCcCCCcccHHHHHHH
Q 041786          191 --LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVED-GHKLFPSLGQFDDAFCF  243 (260)
Q Consensus       191 --~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~g~~~~a~~~  243 (260)
                        .+.+-.+.-|-..+..|.+.|...+|......+... .+..+...|.+.+|...
T Consensus       229 ~fa~skKsPIGyepFv~~~~~~~~~~eA~~yI~k~~~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  229 KFAKSKKSPIGYEPFVEACLKYGNKKEASKYIPKIPDEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             HHHhCCCCCCChHHHHHHHHHCCCHHHHHHHHHhCChHHHHHHHHHCCCHHHHHHH
Confidence              333455688999999999999999999888763210 11111122777777655

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

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

Probab=82.12  E-value=49  Score=31.71  Aligned_cols=140  Identities=13%  Similarity=0.095  Sum_probs=81.9

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcC-CCCcHHHHHHHHHHH-----------------------------HHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFN-CQQCVLLYNSLHVCF-----------------------------VRM  112 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~-----------------------------~~m  112 (260)
                      +...|..|+..|...+++++|.++.+.-.+.. -.+....+..++...                             ..|
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~~~~~i  109 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLLNLIDSFSQNLKWAIVEHICDKI  109 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhhhhhhhcccccchhHHHHHHHHH
Confidence            35667777777777777777777777544432 122223333332111                             111


Q ss_pred             HhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCC
Q 041786          113 IRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELG  192 (260)
Q Consensus       113 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~  192 (260)
                      .+.+  -+...+-.+-.+|-+.|+.++|.++++++.+.+                    .-|+...|.+-..|+..   .
T Consensus       110 ~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D--------------------~~n~~aLNn~AY~~ae~---d  164 (906)
T PRK14720        110 LLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKAD--------------------RDNPEIVKKLATSYEEE---D  164 (906)
T ss_pred             Hhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--------------------cccHHHHHHHHHHHHHh---h
Confidence            1111  111334445555666677777777777766542                    23566777777777766   2


Q ss_pred             CCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCC
Q 041786          193 LCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDG  227 (260)
Q Consensus       193 ~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~  227 (260)
                      +.--...+.-.+..|....++..+..+|.++....
T Consensus       165 L~KA~~m~~KAV~~~i~~kq~~~~~e~W~k~~~~~  199 (906)
T PRK14720        165 KEKAITYLKKAIYRFIKKKQYVGIEEIWSKLVHYN  199 (906)
T ss_pred             HHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHhcC
Confidence            33345556666777888888888888888887654

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=81.91  E-value=26  Score=28.36  Aligned_cols=168  Identities=10%  Similarity=-0.006  Sum_probs=83.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCc--HHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQC--VLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      ..|.-.-..|...+++++|.+.|........+.+  ...-..+..+..-..+....--...|.-.+..|...|++..|-.
T Consensus        36 ~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~~~~~Ai~~~~~A~~~y~~~G~~~~aA~  115 (282)
T PF14938_consen   36 DLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKGDPDEAIECYEKAIEIYREAGRFSQAAK  115 (282)
T ss_dssp             HHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHCT-HHHHHH
T ss_pred             HHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            4556666667777778887777776543221111  11111111111111222111124567778888888898888887


Q ss_pred             HHHHHHhC--CCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHH
Q 041786          143 FLQELSDK--GFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLL  220 (260)
Q Consensus       143 ~~~~m~~~--~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~  220 (260)
                      ++..+-+.  ...++...|.+.|..-.               ..|...|.  ..--..++.-+...+.+.|++++|..+|
T Consensus       116 ~~~~lA~~ye~~~~d~e~Ai~~Y~~A~---------------~~y~~e~~--~~~a~~~~~~~A~l~~~l~~y~~A~~~~  178 (282)
T PF14938_consen  116 CLKELAEIYEEQLGDYEKAIEYYQKAA---------------ELYEQEGS--PHSAAECLLKAADLYARLGRYEEAIEIY  178 (282)
T ss_dssp             HHHHHHHHHCCTT--HHHHHHHHHHHH---------------HHHHHTT---HHHHHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHH---------------HHHHHCCC--hhhHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            77766432  11135555555554432               22222220  0011234445556677777777777777


Q ss_pred             HHHHHCCCCcCCC-c----------------ccHHHHHHHHHHHHh
Q 041786          221 CNLVEDGHKLFPS-L----------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       221 ~~m~~~~~~p~~~-~----------------g~~~~a~~~~~~m~~  249 (260)
                      ++........... .                |+...|.+.|++...
T Consensus       179 e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~  224 (282)
T PF14938_consen  179 EEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCS  224 (282)
T ss_dssp             HHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGT
T ss_pred             HHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            7766543322211 1                666677777766653

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

Probab=81.90  E-value=50  Score=31.66  Aligned_cols=136  Identities=12%  Similarity=0.101  Sum_probs=86.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHH
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFL  144 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  144 (260)
                      ..+-.+..+|-+.|+.++|..+++++.+..                       .-|....|-+-..|+.. ++++|.+++
T Consensus       117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-----------------------~~n~~aLNn~AY~~ae~-dL~KA~~m~  172 (906)
T PRK14720        117 LALRTLAEAYAKLNENKKLKGVWERLVKAD-----------------------RDNPEIVKKLATSYEEE-DKEKAITYL  172 (906)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-----------------------cccHHHHHHHHHHHHHh-hHHHHHHHH
Confidence            345556666667788888888888777643                       23556666677777777 777777777


Q ss_pred             HHHHhCCC-CCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          145 QELSDKGF-NPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       145 ~~m~~~~~-~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                      .+....-+ .-....+.+++..+..... -|...+..++.....+  .+...-+.++-.|-..|-...+++++..+|+.+
T Consensus       173 ~KAV~~~i~~kq~~~~~e~W~k~~~~~~-~d~d~f~~i~~ki~~~--~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~i  249 (906)
T PRK14720        173 KKAIYRFIKKKQYVGIEEIWSKLVHYNS-DDFDFFLRIERKVLGH--REFTRLVGLLEDLYEPYKALEDWDEVIYILKKI  249 (906)
T ss_pred             HHHHHHHHhhhcchHHHHHHHHHHhcCc-ccchHHHHHHHHHHhh--hccchhHHHHHHHHHHHhhhhhhhHHHHHHHHH
Confidence            66544322 1133356666666655432 1333334444433332  235566778888889999999999999999998


Q ss_pred             HHCC
Q 041786          224 VEDG  227 (260)
Q Consensus       224 ~~~~  227 (260)
                      .+..
T Consensus       250 L~~~  253 (906)
T PRK14720        250 LEHD  253 (906)
T ss_pred             HhcC
Confidence            8753

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=81.63  E-value=13  Score=24.75  Aligned_cols=69  Identities=9%  Similarity=0.063  Sum_probs=49.9

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhc-CCCCcHHHHHHHHH-HHHHHHhCCC
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAF-NCQQCVLLYNSLHV-CFVRMIRKGF  117 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~li~-~~~~m~~~g~  117 (260)
                      +..+-+..+....+.|+.....+-+.+|.|..++..|.++|+-.+.+ |.  ....|..++. ....+.+.|+
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lqeikp~l~ELGI   95 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQEIKPTLKELGI   95 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHHHHhHHHHHHCC
Confidence            45555566667788999999999999999999999999999988843 32  3446666662 2234444454

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.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=81.53  E-value=25  Score=30.56  Aligned_cols=66  Identities=17%  Similarity=0.103  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHHCC-CCCChhchHHHHHHHHhcCC----------CCCCcchHHHH-HHHHhhhhhccHHHHHHHHHHH
Q 041786          158 SAKQMVNKMIKQG-SVPDLETFNSLIETICKSGE----------LGLCADVNTNK-ISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       158 ~a~~l~~~m~~~g-~~p~~~~~~~li~~~~~~~~----------~~~~~~~~t~~-~li~~~~~~g~~~~a~~~~~~m  223 (260)
                      .|..+|....+.| +.+++..++++|.-++....          ...-||.-.|. -.+.-+.+.++-+.|..+|+.-
T Consensus       415 aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi~inde~naraLFets  492 (660)
T COG5107         415 AARKLFIKLRKEGIVGHHVYIYCAFIEYYATGDRATAYNIFELGLLKFPDSTLYKEKYLLFLIRINDEENARALFETS  492 (660)
T ss_pred             HHHHHHHHHhccCCCCcceeeeHHHHHHHhcCCcchHHHHHHHHHHhCCCchHHHHHHHHHHHHhCcHHHHHHHHHHh
Confidence            3344444444555 56788889999988887765          22335554443 3455566778888888888743

>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF

Probab=80.58  E-value=1.6  Score=30.76  Aligned_cols=26  Identities=8%  Similarity=0.024  Sum_probs=19.3

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHH
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEF   74 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~   74 (260)
                      +|..+|..|.++|-.||.  |+.|+...
T Consensus       113 DaY~VF~kML~~G~pPdd--W~~Ll~~a  138 (140)
T PF11663_consen  113 DAYAVFRKMLERGNPPDD--WDALLKEA  138 (140)
T ss_pred             cHHHHHHHHHhCCCCCcc--HHHHHHHh
Confidence            788888888888877775  77776553

The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=80.42  E-value=6.9  Score=23.82  Aligned_cols=55  Identities=11%  Similarity=-0.027  Sum_probs=42.3

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcC
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFN   94 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   94 (260)
                      +........|.++++.+..... .+...|...-..+.+.|++++|...|+...+.+
T Consensus         5 ~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    5 YLQQEDYEEALEVLERALELDP-DDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHhCCCHHHHHHHHHHHHHhCc-ccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            3444455588888888876642 266777888899999999999999999988754

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=80.31  E-value=17  Score=25.26  Aligned_cols=57  Identities=18%  Similarity=0.229  Sum_probs=42.9

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCC--HhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 041786           71 IEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPD--KRTHTILVNAWCSSGKMREAQEFLQELS  148 (260)
Q Consensus        71 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~  148 (260)
                      -.++-..|+.++|+.+|++....|..                      ..  ...+-.+-..+...|++++|..++++..
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~----------------------~~~~~~a~i~lastlr~LG~~deA~~~L~~~~   65 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLS----------------------GADRRRALIQLASTLRNLGRYDEALALLEEAL   65 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCC----------------------chHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34566779999999999988765432                      22  2345556778889999999999999776


Q ss_pred             h
Q 041786          149 D  149 (260)
Q Consensus       149 ~  149 (260)
                      .
T Consensus        66 ~   66 (120)
T PF12688_consen   66 E   66 (120)
T ss_pred             H
Confidence            5

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	260
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-06

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 47.5 bits (111), Expect = 2e-06
 Identities = 15/141 (10%), Positives = 33/141 (23%), Gaps = 38/141 (26%)

Query: 50  KTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF 109
                     LS   Q L    +       +  A  +                       
Sbjct: 113 APSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVV-------------------H 153

Query: 110 VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQ 169
               +K  +     +  ++  W   G  +E    L  + D G  P               
Sbjct: 154 HGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTP--------------- 198

Query: 170 GSVPDLETFNSLIETICKSGE 190
               DL ++ + ++ + +  +
Sbjct: 199 ----DLLSYAAALQCMGRQDQ 215

>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 = 46.8 bits (110), Expect = 4e-06
 Identities = 34/247 (13%), Positives = 65/247 (26%), Gaps = 70/247 (28%)

Query: 21  IANIVRHDIYAERTLNRLNLTLISELSMWKTIEL------MKPDSL-----SVFPQTLSL 69
           + + +        +L+  ++TL  +    +   L       +P  L     +  P+ LS+
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPD----EVKSLLLKYLDCRPQDLPREVLTTNPRRLSI 332

Query: 70  IIE---------EFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPD 120
           I E         +  KH   D    +       N  +            V      F P 
Sbjct: 333 IAESIRDGLATWDNWKHVNCDKLTTIIESS--LNVLEPAEYRKMFDRLSV------FPPS 384

Query: 121 -KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQG--SVPDLET 177
                 +L   W       +    + +L              +V K  K+   S+P +  
Sbjct: 385 AHIPTILLSLIWFDV-IKSDVMVVVNKLHKYS----------LVEKQPKESTISIPSI-- 431

Query: 178 FNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQF 237
               +E   K                  A+ +  +  + + +      D   L P     
Sbjct: 432 ---YLELKVKLENE-------------YALHRSIV--DHYNIPKTF--DSDDLIPP--YL 469

Query: 238 DDAFCFF 244
           D  F   
Sbjct: 470 DQYFYSH 476

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	260
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.85
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.79
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.64
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.6
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.08
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.94
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.77
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.75
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.73
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.72
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.71
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.69
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.61
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.61
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.59
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.56
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.55
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.53
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.52
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	98.51
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.5
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.49
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	98.49
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.43
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.41
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.41
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.4
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.4
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	98.38
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.35
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	98.34
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.34
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.33
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.33
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.3
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.29
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.27
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.25
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.23
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.23
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.16
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.15
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.09
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.07
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.03
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	97.96
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	97.95
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	97.94
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	97.93
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	97.91
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	97.89
3u4t_A	272	TPR repeat-containing protein; structural genomics	97.84
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	97.76
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	97.73
3u4t_A	272	TPR repeat-containing protein; structural genomics	97.73
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	97.67
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	97.66
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	97.61
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	97.59
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	97.58
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	97.54
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	97.49
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	97.48
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	97.42
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	97.37
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	97.34
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	97.33
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	97.33
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	97.32
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.32
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	97.31
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	97.27
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	97.26
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.25
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.24
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.22
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	97.2
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	97.19
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	97.19
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	97.17
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.16
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.15
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.14
4g1t_A	472	Interferon-induced protein with tetratricopeptide	97.13
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	97.13
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.12
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.12
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.08
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.07
4g1t_A	472	Interferon-induced protein with tetratricopeptide	97.06
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	97.05
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	97.05
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.04
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	97.04
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.03
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	97.02
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.01
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	96.99
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	96.99
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	96.97
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	96.96
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	96.94
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	96.93
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	96.92
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	96.91
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	96.91
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	96.9
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	96.88
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	96.84
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	96.81
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	96.74
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	96.71
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	96.71
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	96.7
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	96.65
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	96.64
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	96.64
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	96.62
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	96.56
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	96.56
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	96.56
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	96.53
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	96.53
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	96.5
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	96.48
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	96.47
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	96.46
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	96.42
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	96.42
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	96.39
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	96.3
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	96.3
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	96.29
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	96.28
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	96.23
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	96.21
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	96.21
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	96.2
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	96.18
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	96.14
3k9i_A	117	BH0479 protein; putative protein binding protein,	96.14
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	96.13
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	96.12
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	96.11
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	96.11
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	96.07
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	95.99
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	95.98
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	95.96
2kat_A	115	Uncharacterized protein; NESG, structure, structur	95.95
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	95.91
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	95.88
2l6j_A	111	TPR repeat-containing protein associated with HSP;	95.84
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	95.79
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	95.73
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	95.66
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	95.61
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	95.56
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	95.48
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	95.43
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	95.38
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	95.35
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	95.35
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	95.3
3k9i_A	117	BH0479 protein; putative protein binding protein,	95.26
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	95.11
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	95.09
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	95.05
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	95.0
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	94.7
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	94.67
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	94.43
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	94.38
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	94.34
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	94.24
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	94.21
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	94.05
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	93.99
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	93.39
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	93.26
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	93.01
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	92.99
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	92.71
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	91.91
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	91.33
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	91.22
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	91.03
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	90.9
2l6j_A	111	TPR repeat-containing protein associated with HSP;	90.84
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	90.07
1pc2_A	152	Mitochondria fission protein; unknown function; NM	89.83
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	89.48
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	89.39
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	89.1
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	89.06
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	88.99
2kat_A	115	Uncharacterized protein; NESG, structure, structur	88.15
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	87.93
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	87.83
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	87.03
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	86.8
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	86.35
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	85.73
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	84.79
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	84.59
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	84.16
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	84.08
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	82.64
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	81.7
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	81.51
1klx_A	138	Cysteine rich protein B; structural genomics, heli	81.02

>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=99.97  E-value=2.3e-31  Score=229.35  Aligned_cols=169  Identities=15%  Similarity=0.184  Sum_probs=138.2

Q ss_pred             HHHHHHHhcccCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH----------------
Q 041786           47 SMWKTIELMKPDSLSVFP-QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF----------------  109 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~----------------  109 (260)
                      .+..+.+.+.+++..+.. ..++.+|++|++.|++++|+++|++|.+.|++||..|||+||.++                
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~   87 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLS   87 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHH
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHH
Confidence            345566777777766554 457888888888888888888888888888888888888888432                


Q ss_pred             ------HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHH
Q 041786          110 ------VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIE  183 (260)
Q Consensus       110 ------~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~  183 (260)
                            ++|.+.|+.||..|||+||++|++.|++++|.++|++|.                   +.|+.||..||++||.
T Consensus        88 ~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~-------------------~~g~~Pd~~tyn~lI~  148 (501)
T 4g26_A           88 RGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMK-------------------AFGIQPRLRSYGPALF  148 (501)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-------------------HTTCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-------------------HcCCCCccceehHHHH
Confidence                  678889999999999999999999999999999988887                   4568899999999999


Q ss_pred             HHHhcCC-------------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc
Q 041786          184 TICKSGE-------------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL  234 (260)
Q Consensus       184 ~~~~~~~-------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  234 (260)
                      +|++.|+             .|+.||..||++||.+|++.|++++|.++|++|.+.|+.|+..|
T Consensus       149 ~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T  212 (501)
T 4g26_A          149 GFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKST  212 (501)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHH
Confidence            9999998             89999999999999999999999999999999999999999888

>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=99.96  E-value=1e-27  Score=206.72  Aligned_cols=157  Identities=9%  Similarity=0.071  Sum_probs=145.4

Q ss_pred             hHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCC---------hHHHHHHHHHhhhcCCCCcHHHH
Q 041786           32 ERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGL---------IDNAVEVFNKCTAFNCQQCVLLY  102 (260)
Q Consensus        32 ~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~---------~~~a~~~~~~m~~~~~~~~~~~~  102 (260)
                      ....+..+.+.+...+|+++|++|.+.|++||..+||+||++|++.+.         +++|.++|++|.+.|+.||..||
T Consensus        29 l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~ty  108 (501)
T 4g26_A           29 LKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATF  108 (501)
T ss_dssp             HHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHH
Confidence            344566777888888999999999999999999999999999998765         68899999999999999999999


Q ss_pred             HHHHHHH-------------HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHH------------
Q 041786          103 NSLHVCF-------------VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVR------------  157 (260)
Q Consensus       103 ~~li~~~-------------~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------  157 (260)
                      |+||.++             ++|.+.|+.||..|||+||.+|++.|++++|.++|++|.+.|+.|+..            
T Consensus       109 n~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~  188 (501)
T 4g26_A          109 TNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDT  188 (501)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhC
Confidence            9999655             789999999999999999999999999999999999999999999976            


Q ss_pred             ----HHHHHHHHHHHCCCCCChhchHHHHHHHHhc
Q 041786          158 ----SAKQMVNKMIKQGSVPDLETFNSLIETICKS  188 (260)
Q Consensus       158 ----~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~  188 (260)
                          +|.++|++|.+.|..|+..||+.++..|+..
T Consensus       189 g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          189 KNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             TCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             CCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence                9999999999999999999999999998863

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.85  E-value=3e-21  Score=173.03  Aligned_cols=132  Identities=14%  Similarity=0.097  Sum_probs=106.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      -..|||+||++||+.|++++|.++|++|.+                   |...|+.||.+|||+||++||+.|++++|.+
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~-------------------m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~  186 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHG-------------------QRQKRKLLTLDMYNAVMLGWARQGAFKELVY  186 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHH-------------------SHHHHTTCCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHH-------------------HhhcCCCCCHhHHHHHHHHHHhCCCHHHHHH
Confidence            356899999999999999999999999885                   4567899999999999999999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhcc-HHHHHHHHH
Q 041786          143 FLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFM-IDEAFRLLC  221 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~-~~~a~~~~~  221 (260)
                      +|++|.+.|                                         +.||+.|||+||.++++.|+ .++|.++|+
T Consensus       187 Lf~eM~~~G-----------------------------------------~~PDvvTYntLI~glcK~G~~~e~A~~Ll~  225 (1134)
T 3spa_A          187 VLFMVKDAG-----------------------------------------LTPDLLSYAAALQCMGRQDQDAGTIERCLE  225 (1134)
T ss_dssp             HHHHHHHTT-----------------------------------------CCCCHHHHHHHHHHHHHHTCCHHHHHHHHH
T ss_pred             HHHHHHHcC-----------------------------------------CCCcHHHHHHHHHHHHhCCCcHHHHHHHHH
Confidence            999998643                                         44666666666677777777 478889999


Q ss_pred             HHHHCCCCcCCCc-------ccHHHHHHHHHHHHhcCCCCC
Q 041786          222 NLVEDGHKLFPSL-------GQFDDAFCFFSEMQIKTHPPN  255 (260)
Q Consensus       222 ~m~~~~~~p~~~~-------g~~~~a~~~~~~m~~~g~~p~  255 (260)
                      +|.+.|+.||..+       ...+.+++.++++ ..++.|+
T Consensus       226 EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv-~P~f~p~  265 (1134)
T 3spa_A          226 QMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV-KPTFSLP  265 (1134)
T ss_dssp             HHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGG-CCCCCCC
T ss_pred             HHHHcCCCCChhhcccccChhhHHHHHHHHHHh-CcccCCC
Confidence            9999999998887       3334455555555 4467765

>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=1.7e-19  Score=161.89  Aligned_cols=140  Identities=11%  Similarity=0.062  Sum_probs=115.2

Q ss_pred             hhHHHHHhhhhhcchHHHHHHHHhcc---cCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHH
Q 041786           31 AERTLNRLNLTLISELSMWKTIELMK---PDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHV  107 (260)
Q Consensus        31 ~~~~~~~~~~~~~~~~~a~~~~~~m~---~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  107 (260)
                      ++++++..+.+.+...+|.++|++|.   +.|+.||+.|||+||++||+.|++++|.++|++|.+               
T Consensus       129 TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~---------------  193 (1134)
T 3spa_A          129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD---------------  193 (1134)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---------------
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHH---------------
Confidence            47888888999999999999998875   458999999999999999999999999999998775               


Q ss_pred             HHHHHHhCCCCCCHhhHHHHHHHHhccCCH-HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHH
Q 041786          108 CFVRMIRKGFVPDKRTHTILVNAWCSSGKM-REAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETIC  186 (260)
Q Consensus       108 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~  186 (260)
                             .|+.||.+|||+||+++|+.|+. ++|.++|++|.                   +.|+.||..+|+++++++.
T Consensus       194 -------~G~~PDvvTYntLI~glcK~G~~~e~A~~Ll~EM~-------------------~kG~~PD~vtY~~ll~~~e  247 (1134)
T 3spa_A          194 -------AGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMS-------------------QEGLKLQALFTAVLLSEED  247 (1134)
T ss_dssp             -------TTCCCCHHHHHHHHHHHHHHTCCHHHHHHHHHHHH-------------------HHTCCSHHHHHHSCCCHHH
T ss_pred             -------cCCCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHHH-------------------HcCCCCChhhcccccChhh
Confidence                   57789999999999999999984 78888888888                   4567888899986555544


Q ss_pred             hcCC--------CCCCcc------hHHHHHHHHhhhhhc
Q 041786          187 KSGE--------LGLCAD------VNTNKISIPAVSKEF  211 (260)
Q Consensus       187 ~~~~--------~~~~~~------~~t~~~li~~~~~~g  211 (260)
                      +.+-        .++.|.      +.|...|.+-|.+.+
T Consensus       248 R~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~d~  286 (1134)
T 3spa_A          248 RATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDG  286 (1134)
T ss_dssp             HHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCCCS
T ss_pred             HHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHccCC
Confidence            4432        444444      667777778887765

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.64  E-value=7.1e-14  Score=122.66  Aligned_cols=205  Identities=8%  Similarity=-0.087  Sum_probs=133.5

Q ss_pred             hhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH-----------
Q 041786           41 TLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF-----------  109 (260)
Q Consensus        41 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-----------  109 (260)
                      ..+...+|.++|+.+.+.  .++..+|+.++..|.+.|++++|+++|+++.+.+. .+..+|+.++.++           
T Consensus       284 ~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~  360 (597)
T 2xpi_A          284 HEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDP-YNLDVYPLHLASLHESGEKNKLYL  360 (597)
T ss_dssp             THHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCCTTHHHHHHHHHHHTCHHHHHH
T ss_pred             CcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHhCCHHHHHH
Confidence            445555899999998765  57899999999999999999999999999987652 3556666666544           


Q ss_pred             --HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCC---------------CCCHHHHHHHHHHHHHCCCC
Q 041786          110 --VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGF---------------NPPVRSAKQMVNKMIKQGSV  172 (260)
Q Consensus       110 --~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~---------------~~~~~~a~~l~~~m~~~g~~  172 (260)
                        +++.+. ...+..+|+.+..+|.+.|++++|.++|+++.+..-               ..+..+|.++|+.+.+.+ +
T Consensus       361 ~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~  438 (597)
T 2xpi_A          361 ISNDLVDR-HPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-Q  438 (597)
T ss_dssp             HHHHHHHH-CTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-T
T ss_pred             HHHHHHhh-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-c
Confidence              223321 233566777777777777777777777777655321               112226677777766553 2


Q ss_pred             CChhchHHHHHHHHhcCC------------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHC----CCCcCCC--c
Q 041786          173 PDLETFNSLIETICKSGE------------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVED----GHKLFPS--L  234 (260)
Q Consensus       173 p~~~~~~~li~~~~~~~~------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~~--~  234 (260)
                      .+..+|+.+..+|.+.|+            .....+..+|+.+...|.+.|++++|.++|+++.+.    +..|+..  .
T Consensus       439 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~  518 (597)
T 2xpi_A          439 GTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAAT  518 (597)
T ss_dssp             TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHH
T ss_pred             cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHH
Confidence            356677777777777776            111224566666667777777777777777666554    4455421  1


Q ss_pred             -----------ccHHHHHHHHHHHHhc
Q 041786          235 -----------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       235 -----------g~~~~a~~~~~~m~~~  250 (260)
                                 |++++|.++|+++...
T Consensus       519 ~~~l~~~~~~~g~~~~A~~~~~~~~~~  545 (597)
T 2xpi_A          519 WANLGHAYRKLKMYDAAIDALNQGLLL  545 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence                       6666666666666544

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.60  E-value=2e-13  Score=119.85  Aligned_cols=218  Identities=8%  Similarity=-0.101  Sum_probs=174.2

Q ss_pred             cccchhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHH
Q 041786           27 HDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLH  106 (260)
Q Consensus        27 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  106 (260)
                      ++......+...+...+...+|.++|+.+.+.+. .+..+|+.++.+|.+.|++++|.++|+++.+.. +.+..+|+.+.
T Consensus       303 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~  380 (597)
T 2xpi_A          303 KSSDLLLCKADTLFVRSRFIDVLAITTKILEIDP-YNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVG  380 (597)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHH
Confidence            3444556677778888888899999999976552 367889999999999999999999999998643 45677888887


Q ss_pred             HHH-------------HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC---------------CCHHH
Q 041786          107 VCF-------------VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFN---------------PPVRS  158 (260)
Q Consensus       107 ~~~-------------~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~---------------~~~~~  158 (260)
                      .++             +++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+..               .+..+
T Consensus       381 ~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  459 (597)
T 2xpi_A          381 IYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILL  459 (597)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHH
Confidence            554             3333321 235779999999999999999999999998876432               22338


Q ss_pred             HHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------------CCCCcc--hHHHHHHHHhhhhhccHHHHHHH
Q 041786          159 AKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------------LGLCAD--VNTNKISIPAVSKEFMIDEAFRL  219 (260)
Q Consensus       159 a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------------~~~~~~--~~t~~~li~~~~~~g~~~~a~~~  219 (260)
                      |.++|+.+.+.. +.+..+|+.+...|.+.|+                 .+..|+  ..+|..+..+|.+.|++++|...
T Consensus       460 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~  538 (597)
T 2xpi_A          460 ANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDA  538 (597)
T ss_dssp             HHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            999999998764 3478899999999999999                 266787  78999999999999999999999


Q ss_pred             HHHHHHCCCCcCCCc------------ccHHHHHHHHHHHHhc
Q 041786          220 LCNLVEDGHKLFPSL------------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       220 ~~~m~~~~~~p~~~~------------g~~~~a~~~~~~m~~~  250 (260)
                      |+++.+.+  |+...            |++++|..+|+++.+.
T Consensus       539 ~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  579 (597)
T 2xpi_A          539 LNQGLLLS--TNDANVHTAIALVYLHKKIPGLAITHLHESLAI  579 (597)
T ss_dssp             HHHHHHHS--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            99998765  43222            9999999999998864

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.08  E-value=3.2e-08  Score=82.07  Aligned_cols=107  Identities=14%  Similarity=0.082  Sum_probs=68.1

Q ss_pred             HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC----------
Q 041786          121 KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE----------  190 (260)
Q Consensus       121 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~----------  190 (260)
                      ..++..+...|.+.|++++|.+.|+++.                   +.. +.+..+|..+...|.+.|+          
T Consensus       237 ~~~~~~l~~~~~~~g~~~~A~~~~~~al-------------------~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  296 (388)
T 1w3b_A          237 AVVHGNLACVYYEQGLIDLAIDTYRRAI-------------------ELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNT  296 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH-------------------HTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHH-------------------hhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3444445555555555555555555444                   332 1245677777778877777          


Q ss_pred             --CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc------------ccHHHHHHHHHHHHh
Q 041786          191 --LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       191 --~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a~~~~~~m~~  249 (260)
                        .....+..+|+.+...+.+.|++++|...|+++.+.  .|+...            |++++|...|+++..
T Consensus       297 al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          297 ALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHhhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence              122345677888888888888888888888887654  243222            888888888888774

>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=98.95  E-value=2e-07  Score=78.62  Aligned_cols=227  Identities=16%  Similarity=0.072  Sum_probs=143.1

Q ss_pred             hhhhHHHHHHHHccc---chhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 041786           15 FAAVNHIANIVRHDI---YAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCT   91 (260)
Q Consensus        15 ~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   91 (260)
                      ..++..+...+..+.   .....+-..+...+...+|.+.|+.+.+.+ +.+...|..+...|.+.|++++|...|+++.
T Consensus        43 ~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  121 (450)
T 2y4t_A           43 ADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVL  121 (450)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            334444444443332   223444445556666668888888876553 2346778888888888888888888888887


Q ss_pred             hcCCCCc-H---HHHHHHHHH------------H-------------HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           92 AFNCQQC-V---LLYNSLHVC------------F-------------VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        92 ~~~~~~~-~---~~~~~li~~------------~-------------~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      +..  |+ .   ..+..+...            +             +++.+. .+.+...+..+...|.+.|++++|.+
T Consensus       122 ~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~  198 (450)
T 2y4t_A          122 KSN--PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEV-CVWDAELRELRAECFIKEGEPRKAIS  198 (450)
T ss_dssp             TSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCGGGGHH
T ss_pred             hcC--CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHCCCHHHHHH
Confidence            643  33 2   444444221            1             222222 12356777888888888888888888


Q ss_pred             HHHHHHhCCC---------------CCCHHHHHHHHHHHHHCCCCCC-hhchHHH------------HHHHHhcCC----
Q 041786          143 FLQELSDKGF---------------NPPVRSAKQMVNKMIKQGSVPD-LETFNSL------------IETICKSGE----  190 (260)
Q Consensus       143 ~~~~m~~~~~---------------~~~~~~a~~l~~~m~~~g~~p~-~~~~~~l------------i~~~~~~~~----  190 (260)
                      +|+++.+..-               ..+..+|...|+.+.+.  .|+ ...+..+            ...|.+.|+    
T Consensus       199 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A  276 (450)
T 2y4t_A          199 DLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDA  276 (450)
T ss_dssp             HHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            8887765321               23333788888877654  343 3334333            667777777    


Q ss_pred             -------CCCCcc-----hHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc------------ccHHHHHHHHHH
Q 041786          191 -------LGLCAD-----VNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDDAFCFFSE  246 (260)
Q Consensus       191 -------~~~~~~-----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a~~~~~~  246 (260)
                             ....|+     ...|..+...+.+.|++++|...++++.+..  |+...            |++++|...|++
T Consensus       277 ~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~l~~~~~~~~~~~~A~~~~~~  354 (450)
T 2y4t_A          277 TSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME--PDNVNALKDRAEAYLIEEMYDEAIQDYET  354 (450)
T ss_dssp             HHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence                   222333     4477788888888888988888888877642  32222            888899888888


Q ss_pred             HHh
Q 041786          247 MQI  249 (260)
Q Consensus       247 m~~  249 (260)
                      ...
T Consensus       355 al~  357 (450)
T 2y4t_A          355 AQE  357 (450)
T ss_dssp             HHT
T ss_pred             HHH
Confidence            875

>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=98.95  E-value=3.3e-07  Score=75.91  Aligned_cols=124  Identities=10%  Similarity=0.020  Sum_probs=75.3

Q ss_pred             HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCH-----------------HHHHHHHHHHHHCCCCCChhchHHHHH
Q 041786          121 KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPV-----------------RSAKQMVNKMIKQGSVPDLETFNSLIE  183 (260)
Q Consensus       121 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-----------------~~a~~l~~~m~~~g~~p~~~~~~~li~  183 (260)
                      ...|+.+...|.+.|++++|.+.|+++.+.+  |+.                 .+|...|....+.. +-+..++..+..
T Consensus       169 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~  245 (388)
T 1w3b_A          169 AVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD--PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLAC  245 (388)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHH
Confidence            4555666666666666666666666655432  221                 14555555444432 123566777777


Q ss_pred             HHHhcCC-----------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc------------ccHHH
Q 041786          184 TICKSGE-----------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDD  239 (260)
Q Consensus       184 ~~~~~~~-----------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~  239 (260)
                      .|.+.|+           ....| +..+|..+...|.+.|++++|...|+++.+..  |+...            |++++
T Consensus       246 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~  323 (388)
T 1w3b_A          246 VYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC--PTHADSLNNLANIKREQGNIEE  323 (388)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHcCCHHH
Confidence            7777776           22233 35567777778888888888888887777652  32221            78888


Q ss_pred             HHHHHHHHHh
Q 041786          240 AFCFFSEMQI  249 (260)
Q Consensus       240 a~~~~~~m~~  249 (260)
                      |...++++..
T Consensus       324 A~~~~~~al~  333 (388)
T 1w3b_A          324 AVRLYRKALE  333 (388)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHHh
Confidence            8888887765

>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=98.94  E-value=1.2e-07  Score=80.04  Aligned_cols=208  Identities=12%  Similarity=-0.002  Sum_probs=126.1

Q ss_pred             hhHHHHHHHHcccch---hHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhc
Q 041786           17 AVNHIANIVRHDIYA---ERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAF   93 (260)
Q Consensus        17 ~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   93 (260)
                      ....+.+.+..+...   ...+...+...+...+|.++|+.+.+.. +.+...|..+...|.+.|++++|+..|+++.+.
T Consensus        11 ~~~~~~~~~~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~   89 (450)
T 2y4t_A           11 VDLGTENLYFQSMADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQL   89 (450)
T ss_dssp             ------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccccccccccccHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            334444444444333   3444455666777779999999886542 346889999999999999999999999998875


Q ss_pred             CCCCcHHHHHHHHHHH-------------HHHHhCCCCCCH----hhHHHHHHH------------HhccCCHHHHHHHH
Q 041786           94 NCQQCVLLYNSLHVCF-------------VRMIRKGFVPDK----RTHTILVNA------------WCSSGKMREAQEFL  144 (260)
Q Consensus        94 ~~~~~~~~~~~li~~~-------------~~m~~~g~~p~~----~~~~~li~~------------~~~~g~~~~a~~~~  144 (260)
                      + +.+...+..+..++             +++.+  ..|+.    ..+..+...            +.+.|++++|.+.|
T Consensus        90 ~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~  166 (450)
T 2y4t_A           90 K-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLK--SNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFL  166 (450)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             C-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            4 11233344333332             11111  22322    233333222            45555555555555


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------C-CCCcchHHHHHHHHhhhhhcc
Q 041786          145 QELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------L-GLCADVNTNKISIPAVSKEFM  212 (260)
Q Consensus       145 ~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~-~~~~~~~t~~~li~~~~~~g~  212 (260)
                      +++.+                   .. +.+...+..+...|.+.|+           . ....+..+|..+...|...|+
T Consensus       167 ~~~~~-------------------~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  226 (450)
T 2y4t_A          167 DKILE-------------------VC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGD  226 (450)
T ss_dssp             HHHHH-------------------HC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTC
T ss_pred             HHHHH-------------------hC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            54443                   22 2356778888888888887           1 122356788888999999999


Q ss_pred             HHHHHHHHHHHHHCCCCcCCCc------------------------ccHHHHHHHHHHHHhc
Q 041786          213 IDEAFRLLCNLVEDGHKLFPSL------------------------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       213 ~~~a~~~~~~m~~~~~~p~~~~------------------------g~~~~a~~~~~~m~~~  250 (260)
                      +++|...|+++....  |+...                        |++++|...|+++...
T Consensus       227 ~~~A~~~~~~~~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~  286 (450)
T 2y4t_A          227 HELSLSEVRECLKLD--QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT  286 (450)
T ss_dssp             HHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            999999999887543  22211                        8888888888888753

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=98.77  E-value=6.7e-07  Score=73.34  Aligned_cols=182  Identities=12%  Similarity=0.028  Sum_probs=122.7

Q ss_pred             cchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHh
Q 041786           43 ISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKR  122 (260)
Q Consensus        43 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~  122 (260)
                      +...+|.+.|+...+.. +.+...|..+...|.+.|++++|+..|++..+..                       +.+..
T Consensus        79 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-----------------------p~~~~  134 (365)
T 4eqf_A           79 GDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-----------------------PNNLK  134 (365)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHH
T ss_pred             CCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-----------------------CCCHH
Confidence            33335555555554332 1234555555555555566666655555554321                       12467


Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCCC-------------------------CCCHHHHHHHHHHHHHCCCC-CChh
Q 041786          123 THTILVNAWCSSGKMREAQEFLQELSDKGF-------------------------NPPVRSAKQMVNKMIKQGSV-PDLE  176 (260)
Q Consensus       123 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-------------------------~~~~~~a~~l~~~m~~~g~~-p~~~  176 (260)
                      .|..+...|.+.|++++|.+.|+++.+..-                         ..+..+|..+|+...+.... ++..
T Consensus       135 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  214 (365)
T 4eqf_A          135 ALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPD  214 (365)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHH
T ss_pred             HHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHH
Confidence            788888888888888888888887754310                         11233788888887766422 2678


Q ss_pred             chHHHHHHHHhcCC-----------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc----------
Q 041786          177 TFNSLIETICKSGE-----------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL----------  234 (260)
Q Consensus       177 ~~~~li~~~~~~~~-----------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~----------  234 (260)
                      ++..+...|.+.|+           ....| +..+|..+...|.+.|++++|...|++..+..  |+...          
T Consensus       215 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~  292 (365)
T 4eqf_A          215 LQTGLGVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ--PGFIRSRYNLGISCI  292 (365)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHH
Confidence            89999999999998           22233 57789999999999999999999999988753  33322          


Q ss_pred             --ccHHHHHHHHHHHHhc
Q 041786          235 --GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       235 --g~~~~a~~~~~~m~~~  250 (260)
                        |++++|...|++....
T Consensus       293 ~~g~~~~A~~~~~~al~~  310 (365)
T 4eqf_A          293 NLGAYREAVSNFLTALSL  310 (365)
T ss_dssp             HHTCCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHh
Confidence              9999999999988753

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=98.75  E-value=1.7e-06  Score=69.23  Aligned_cols=184  Identities=15%  Similarity=0.123  Sum_probs=117.2

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHH-HHH----
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLH-VCF----  109 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li-~~~----  109 (260)
                      +.+.++..+....|...+   ... -.|+...+..+...+.+.++.++|++.++++...+..|+...+..++ ..+    
T Consensus        40 l~r~yi~~g~~~~al~~~---~~~-~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g  115 (291)
T 3mkr_A           40 LYRAYLAQRKYGVVLDEI---KPS-SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQ  115 (291)
T ss_dssp             HHHHHHHTTCHHHHHHHS---CTT-SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHh---ccc-CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCC
Confidence            445566666665666544   332 35677888999999999999999999999998877667655444433 322    


Q ss_pred             -----HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC-----------------CCHHHHHHHHHHHH
Q 041786          110 -----VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFN-----------------PPVRSAKQMVNKMI  167 (260)
Q Consensus       110 -----~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-----------------~~~~~a~~l~~~m~  167 (260)
                           ....+.  ..+...+..+...|.+.|++++|...|+++.+..-.                 ....+|..+|+++.
T Consensus       116 ~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l  193 (291)
T 3mkr_A          116 NPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMA  193 (291)
T ss_dssp             CHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHH
Confidence                 112222  467788889999999999999999999998865311                 11115555666665


Q ss_pred             HCCCCCChhchHHHHHHHHhcCC-----------CCCCc-chHHHHHHHHhhhhhccHHH-HHHHHHHHHH
Q 041786          168 KQGSVPDLETFNSLIETICKSGE-----------LGLCA-DVNTNKISIPAVSKEFMIDE-AFRLLCNLVE  225 (260)
Q Consensus       168 ~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~-~~~t~~~li~~~~~~g~~~~-a~~~~~~m~~  225 (260)
                      +. .+.+...|+.+-.++.+.|+           ....| +..++..++..+...|+.++ +.++++++.+
T Consensus       194 ~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~  263 (291)
T 3mkr_A          194 DK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD  263 (291)
T ss_dssp             HH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             Hh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            54 23455566666666666665           12222 34455556666666666544 3455555554

>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=98.73  E-value=3.4e-06  Score=67.59  Aligned_cols=126  Identities=10%  Similarity=-0.036  Sum_probs=79.0

Q ss_pred             HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCC---------------CCCHHHHHHHHHHHHHCCCCCChhchHHHHHHH
Q 041786          121 KRTHTILVNAWCSSGKMREAQEFLQELSDKGF---------------NPPVRSAKQMVNKMIKQGSVPDLETFNSLIETI  185 (260)
Q Consensus       121 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~---------------~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~  185 (260)
                      ...|..+...|...|++++|.+.|++..+..-               ..+..+|...+....+.. +.+...+..+...|
T Consensus       125 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~  203 (330)
T 3hym_B          125 GPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVA  203 (330)
T ss_dssp             THHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            34455555555555555555555555443321               111224555555544432 23566777777778


Q ss_pred             HhcCC---------------------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc----------
Q 041786          186 CKSGE---------------------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL----------  234 (260)
Q Consensus       186 ~~~~~---------------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~----------  234 (260)
                      .+.|+                     .....+...|..+...|.+.|++++|...|++..+..  |+...          
T Consensus       204 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~  281 (330)
T 3hym_B          204 FQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI--PQNASTYSAIGYIHS  281 (330)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCSHHHHHHHHHHH
T ss_pred             HHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC--ccchHHHHHHHHHHH
Confidence            88777                     1113345788888889999999999999999888653  33222          


Q ss_pred             --ccHHHHHHHHHHHHh
Q 041786          235 --GQFDDAFCFFSEMQI  249 (260)
Q Consensus       235 --g~~~~a~~~~~~m~~  249 (260)
                        |++++|...|++...
T Consensus       282 ~~g~~~~A~~~~~~al~  298 (330)
T 3hym_B          282 LMGNFENAVDYFHTALG  298 (330)
T ss_dssp             HHTCHHHHHHHHHTTTT
T ss_pred             HhccHHHHHHHHHHHHc
Confidence              899999999887764

>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=98.72  E-value=2.8e-06  Score=69.46  Aligned_cols=182  Identities=13%  Similarity=0.013  Sum_probs=119.1

Q ss_pred             cchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHh
Q 041786           43 ISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKR  122 (260)
Q Consensus        43 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~  122 (260)
                      +...+|.+.|+...+.. +.+...|..+...|.+.|++++|+..|++..+..                       +.+..
T Consensus        78 g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-----------------------~~~~~  133 (368)
T 1fch_A           78 GDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-----------------------PDNQT  133 (368)
T ss_dssp             TCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-----------------------CCCHH
Confidence            33334444444443332 1234444444455555555555555555444321                       23567


Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCCCC------------------------------CCHHHHHHHHHHHHHCCCC
Q 041786          123 THTILVNAWCSSGKMREAQEFLQELSDKGFN------------------------------PPVRSAKQMVNKMIKQGSV  172 (260)
Q Consensus       123 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~------------------------------~~~~~a~~l~~~m~~~g~~  172 (260)
                      .+..+...|.+.|++++|.+.|+++......                              .+..+|...|..+.+....
T Consensus       134 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~  213 (368)
T 1fch_A          134 ALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPT  213 (368)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcC
Confidence            7888888888889999999888887664321                              1122677777777665322


Q ss_pred             -CChhchHHHHHHHHhcCC-----------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-----
Q 041786          173 -PDLETFNSLIETICKSGE-----------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-----  234 (260)
Q Consensus       173 -p~~~~~~~li~~~~~~~~-----------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-----  234 (260)
                       ++..++..+...|.+.|+           ....| +...|..+...|.+.|++++|...|++..+..  |+...     
T Consensus       214 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~l  291 (368)
T 1fch_A          214 SIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ--PGYIRSRYNL  291 (368)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHH
Confidence             157788899999999998           22233 46789999999999999999999999988753  33222     


Q ss_pred             -------ccHHHHHHHHHHHHhc
Q 041786          235 -------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       235 -------g~~~~a~~~~~~m~~~  250 (260)
                             |++++|...|++....
T Consensus       292 ~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          292 GISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh
Confidence                   9999999999888753

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=98.71  E-value=5.7e-07  Score=69.54  Aligned_cols=190  Identities=9%  Similarity=-0.016  Sum_probs=139.9

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHh
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIR  114 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~  114 (260)
                      +-..+...+...+|.+.|+...+..  .+...|..+...|.+.|++++|...|++..+..                    
T Consensus        11 ~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--------------------   68 (258)
T 3uq3_A           11 EGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQG--------------------   68 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--------------------
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC--------------------
Confidence            3344555566668999998887666  678899999999999999999999999877521                    


Q ss_pred             CCCCCC----HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC-------HHHHHHHHHHHHHCCCCCChhchHHHHH
Q 041786          115 KGFVPD----KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPP-------VRSAKQMVNKMIKQGSVPDLETFNSLIE  183 (260)
Q Consensus       115 ~g~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-------~~~a~~l~~~m~~~g~~p~~~~~~~li~  183 (260)
                      ....|+    ...|..+-..|.+.|++++|.+.|++..+..-.++       ..+|...+....+.. +.+...+..+..
T Consensus        69 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~  147 (258)
T 3uq3_A           69 REMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGK  147 (258)
T ss_dssp             HHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHH
Confidence            011122    57788888999999999999999998876432222       226667777766543 224567778888


Q ss_pred             HHHhcCC-----------CCC-CcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc------------ccHHH
Q 041786          184 TICKSGE-----------LGL-CADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDD  239 (260)
Q Consensus       184 ~~~~~~~-----------~~~-~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~  239 (260)
                      .+...|+           ... ..+...|..+...|.+.|++++|...|++..+..  |+...            |+.++
T Consensus       148 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~  225 (258)
T 3uq3_A          148 EYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--PNFVRAYIRKATAQIAVKEYAS  225 (258)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--HHHHHHHHHHHHHHHHHhhHHH
Confidence            8888887           122 2356788889999999999999999999988754  33222            99999


Q ss_pred             HHHHHHHHHh
Q 041786          240 AFCFFSEMQI  249 (260)
Q Consensus       240 a~~~~~~m~~  249 (260)
                      |...|++...
T Consensus       226 A~~~~~~a~~  235 (258)
T 3uq3_A          226 ALETLDAART  235 (258)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988764

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.69  E-value=7.2e-06  Score=70.02  Aligned_cols=82  Identities=7%  Similarity=-0.093  Sum_probs=59.4

Q ss_pred             cchhhhhHHHHHHHHcccc--hhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 041786           12 EDYFAAVNHIANIVRHDIY--AERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNK   89 (260)
Q Consensus        12 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~   89 (260)
                      ..+..++..+.+.+..+..  ....+-..+...+...+|.+.++...+.. +.+...|..+...|.+.|++++|...|+.
T Consensus        20 g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~   98 (514)
T 2gw1_A           20 KKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFADAMFDLSV   98 (514)
T ss_dssp             SCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            4555666666666665432  33445556666777779999998886654 23567888999999999999999999998


Q ss_pred             hhhcC
Q 041786           90 CTAFN   94 (260)
Q Consensus        90 m~~~~   94 (260)
                      +.+.+
T Consensus        99 ~~~~~  103 (514)
T 2gw1_A           99 LSLNG  103 (514)
T ss_dssp             HHHSS
T ss_pred             HHhcC
Confidence            87655

>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=98.61  E-value=1.6e-05  Score=63.58  Aligned_cols=199  Identities=8%  Similarity=-0.042  Sum_probs=141.7

Q ss_pred             cccchhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHH
Q 041786           27 HDIYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLH  106 (260)
Q Consensus        27 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  106 (260)
                      .+..........+...+...+|.++|+.+.+.. +.+...+..+...+.+.|++++|..+++++.+..            
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~------------   86 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY------------   86 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC------------
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC------------
Confidence            334444455555556666678888888775443 2234556667777788888888888888777532            


Q ss_pred             HHHHHHHhCCCCCCHhhHHHHHHHHhccC-CHHHHHHHHHHHHhCCCC---------------CCHHHHHHHHHHHHHCC
Q 041786          107 VCFVRMIRKGFVPDKRTHTILVNAWCSSG-KMREAQEFLQELSDKGFN---------------PPVRSAKQMVNKMIKQG  170 (260)
Q Consensus       107 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~---------------~~~~~a~~l~~~m~~~g  170 (260)
                                 +.+...|..+-..|...| ++++|.+.|++..+..-.               .+..+|...|....+..
T Consensus        87 -----------~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  155 (330)
T 3hym_B           87 -----------PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM  155 (330)
T ss_dssp             -----------TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT
T ss_pred             -----------cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc
Confidence                       124667888888999999 999999999998765422               12228888888887664


Q ss_pred             CCCChhchHHHHHHHHhcCC-----------CCC-CcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCC-------cC
Q 041786          171 SVPDLETFNSLIETICKSGE-----------LGL-CADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHK-------LF  231 (260)
Q Consensus       171 ~~p~~~~~~~li~~~~~~~~-----------~~~-~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-------p~  231 (260)
                      . .+...+..+...|...|+           ... ..+...+..+...|...|++++|...|++..+..-.       |.
T Consensus       156 ~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  234 (330)
T 3hym_B          156 K-GCHLPMLYIGLEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDK  234 (330)
T ss_dssp             T-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTT
T ss_pred             c-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccH
Confidence            2 346677778888999998           233 335678889999999999999999999998764210       11


Q ss_pred             CC-c-----------ccHHHHHHHHHHHHhc
Q 041786          232 PS-L-----------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       232 ~~-~-----------g~~~~a~~~~~~m~~~  250 (260)
                      .. .           |++++|...+++....
T Consensus       235 ~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  265 (330)
T 3hym_B          235 WEPLLNNLGHVCRKLKKYAEALDYHRQALVL  265 (330)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Confidence            11 1           9999999999988764

>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=98.61  E-value=6.2e-06  Score=66.00  Aligned_cols=186  Identities=12%  Similarity=-0.021  Sum_probs=131.5

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      .+...+...+|.++|+.+.+.. +.+...|..+...+.+.|++++|...|++..+..                       
T Consensus        30 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-----------------------   85 (327)
T 3cv0_A           30 SMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-----------------------   85 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-----------------------
Confidence            3444556668888888876543 2367888889999999999999999999887632                       


Q ss_pred             CCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC------------------------------CCHHHHHHHHHHHH
Q 041786          118 VPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFN------------------------------PPVRSAKQMVNKMI  167 (260)
Q Consensus       118 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~------------------------------~~~~~a~~l~~~m~  167 (260)
                      +.+...+..+...|.+.|++++|.+.+++..+....                              .+..+|..++....
T Consensus        86 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  165 (327)
T 3cv0_A           86 PKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAAL  165 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHH
Confidence            124556666777777777777777777776543110                              11136666666666


Q ss_pred             HCCCCCChhchHHHHHHHHhcCC-----------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-
Q 041786          168 KQGSVPDLETFNSLIETICKSGE-----------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-  234 (260)
Q Consensus       168 ~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-  234 (260)
                      +.. +.+...+..+...|.+.|+           ....| +...|..+...|...|++++|...|++..+..  |+... 
T Consensus       166 ~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~  242 (327)
T 3cv0_A          166 EMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN--PGYVRV  242 (327)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHH
T ss_pred             hhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHH
Confidence            553 2367788888888888888           12223 46778888899999999999999999987653  32211 


Q ss_pred             -----------ccHHHHHHHHHHHHhc
Q 041786          235 -----------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       235 -----------g~~~~a~~~~~~m~~~  250 (260)
                                 |++++|...|++....
T Consensus       243 ~~~l~~~~~~~g~~~~A~~~~~~a~~~  269 (327)
T 3cv0_A          243 MYNMAVSYSNMSQYDLAAKQLVRAIYM  269 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence                       9999999999887654

>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=98.59  E-value=1.6e-05  Score=61.29  Aligned_cols=171  Identities=13%  Similarity=-0.031  Sum_probs=99.1

Q ss_pred             HHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhC
Q 041786           36 NRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRK  115 (260)
Q Consensus        36 ~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~  115 (260)
                      -..+...+...+|.+.|+...+.. +.+...|..+...|.+.|++++|.+.|++..+..  |                  
T Consensus        44 a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~------------------  102 (252)
T 2ho1_A           44 GLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD--S------------------  102 (252)
T ss_dssp             HHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------------
T ss_pred             HHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--c------------------
Confidence            334445566668888888876543 2357888888999999999999999999887643  1                  


Q ss_pred             CCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----
Q 041786          116 GFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----  190 (260)
Q Consensus       116 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----  190 (260)
                         .+...+..+...|.+.|++++|.++|++..+.+..|+                  +...+..+...|...|+     
T Consensus       103 ---~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~------------------~~~~~~~la~~~~~~g~~~~A~  161 (252)
T 2ho1_A          103 ---RNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPE------------------RSRVFENLGLVSLQMKKPAQAK  161 (252)
T ss_dssp             ---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTT------------------HHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ---CcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcc------------------cHHHHHHHHHHHHHcCCHHHHH
Confidence               1344555555556666666666666665554211121                  12222333333333333     


Q ss_pred             ------CCC-CcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc------------ccHHHHHHHHHHHHhc
Q 041786          191 ------LGL-CADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       191 ------~~~-~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a~~~~~~m~~~  250 (260)
                            ... ..+...+..+...|...|+.++|...|++..+..  |+...            |+.++|..+++++...
T Consensus       162 ~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          162 EYFEKSLRLNRNQPSVALEMADLLYKEREYVPARQYYDLFAQGG--GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence                  001 1134555666666666777777777776665532  22111            6777777777666543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=98.56  E-value=2.3e-06  Score=68.39  Aligned_cols=198  Identities=9%  Similarity=-0.001  Sum_probs=125.8

Q ss_pred             hhhcchHHHHHHHHhcccCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH--------
Q 041786           40 LTLISELSMWKTIELMKPDSLSVF--PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF--------  109 (260)
Q Consensus        40 ~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--------  109 (260)
                      ...+....|.+.++.....  .|+  ....-.+..+|...|+++.|+..++..    -.|+..++..+...+        
T Consensus        10 ~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~la~~~~~~~~~~~   83 (291)
T 3mkr_A           10 FYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRMFAEYLASHSRRDA   83 (291)
T ss_dssp             HHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHHHHHHHHCSTTHHH
T ss_pred             HHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhccc----CChhHHHHHHHHHHHcCCCcHHH
Confidence            3445555777777666544  344  345567789999999999999866542    244555555554333        


Q ss_pred             -----HHHHhCCCCCCHh-hHHHHHHHHhccCCHHHHHHHHHHHHhCC------------CCCCHHHHHHHHHHHHHCCC
Q 041786          110 -----VRMIRKGFVPDKR-THTILVNAWCSSGKMREAQEFLQELSDKG------------FNPPVRSAKQMVNKMIKQGS  171 (260)
Q Consensus       110 -----~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~------------~~~~~~~a~~l~~~m~~~g~  171 (260)
                           +++...+..|+.. .+..+-..+.+.|++++|++.+++  ...            ......+|...|+.+.+.. 
T Consensus        84 A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~-  160 (291)
T 3mkr_A           84 IVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD-  160 (291)
T ss_dssp             HHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-
Confidence                 4555666667654 445555888999999999998876  000            0223338888888887764 


Q ss_pred             CCChhchHHHHHHHH----hcCC------------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-
Q 041786          172 VPDLETFNSLIETIC----KSGE------------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-  234 (260)
Q Consensus       172 ~p~~~~~~~li~~~~----~~~~------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-  234 (260)
                       |+.. ...+..++.    ..|+            .....+...|+.+-.++.+.|++++|...|++..+..  |+... 
T Consensus       161 -p~~~-~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~--p~~~~~  236 (291)
T 3mkr_A          161 -EDAT-LTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD--SGHPET  236 (291)
T ss_dssp             -TTCH-HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHH
T ss_pred             -cCcH-HHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHH
Confidence             5532 223323322    2233            2233467788888888999999999999998877643  43332 


Q ss_pred             -----------ccHHH-HHHHHHHHHhc
Q 041786          235 -----------GQFDD-AFCFFSEMQIK  250 (260)
Q Consensus       235 -----------g~~~~-a~~~~~~m~~~  250 (260)
                                 |+.++ +.++++++.+.
T Consensus       237 l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          237 LINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence                       66654 56788777643

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.55  E-value=2.4e-05  Score=63.23  Aligned_cols=189  Identities=12%  Similarity=-0.025  Sum_probs=114.6

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH--------
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF--------  109 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--------  109 (260)
                      .+...+...+|.+.|+...+.. +.+...|..+...|.+.|++++|...|++..+.. +.+...|..+..++        
T Consensus        12 ~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~   89 (359)
T 3ieg_A           12 KLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDE   89 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHH
Confidence            3444455557777777765442 2346677777778888888888888887777643 11223333333222        


Q ss_pred             -----HHHHhCCCCC----CHhhHHHH------------HHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 041786          110 -----VRMIRKGFVP----DKRTHTIL------------VNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIK  168 (260)
Q Consensus       110 -----~~m~~~g~~p----~~~~~~~l------------i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~  168 (260)
                           ++..  ...|    +...+..+            ...+...|++++|.++|++..+..                 
T Consensus        90 A~~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-----------------  150 (359)
T 3ieg_A           90 AEDDFKKVL--KSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-----------------  150 (359)
T ss_dssp             HHHHHHHHH--TSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------
T ss_pred             HHHHHHHHH--hcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-----------------
Confidence                 1111  2234    22333333            356677777777777777665421                 


Q ss_pred             CCCCCChhchHHHHHHHHhcCC------------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCC----
Q 041786          169 QGSVPDLETFNSLIETICKSGE------------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFP----  232 (260)
Q Consensus       169 ~g~~p~~~~~~~li~~~~~~~~------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~----  232 (260)
                         +.+...+..+...|...|+            .....+...+..+...|...|++++|...|++..+..-....    
T Consensus       151 ---~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~  227 (359)
T 3ieg_A          151 ---VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAH  227 (359)
T ss_dssp             ---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             ---CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCccchHHHHH
Confidence               2345667777777777777            222335677888888888899999999988888764322111    


Q ss_pred             ------------------CcccHHHHHHHHHHHHhc
Q 041786          233 ------------------SLGQFDDAFCFFSEMQIK  250 (260)
Q Consensus       233 ------------------~~g~~~~a~~~~~~m~~~  250 (260)
                                        ..|++++|...+++....
T Consensus       228 ~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~  263 (359)
T 3ieg_A          228 YKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT  263 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence                              017888888888777653

>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=98.53  E-value=3.4e-07  Score=76.65  Aligned_cols=177  Identities=10%  Similarity=0.017  Sum_probs=60.9

Q ss_pred             HHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH----
Q 041786           34 TLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF----  109 (260)
Q Consensus        34 ~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~----  109 (260)
                      .+...+...+...+|.+.|..      .+|...|..++..+.+.|++++|+..++..++.  .+++.+.+.++.|+    
T Consensus        37 ~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg  108 (449)
T 1b89_A           37 QLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTN  108 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhC
Confidence            344444445555577777754      257778888888888889999988877666653  45567788888776    


Q ss_pred             --HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHHCCCCCChhchHH
Q 041786          110 --VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDK-------GFNPPVRSAKQMVNKMIKQGSVPDLETFNS  180 (260)
Q Consensus       110 --~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~  180 (260)
                        .++.+---.|+..+|+.+-..|...|.+++|..+|..+...       ....+...|.+.+...      .++.+|..
T Consensus       109 ~l~e~e~f~~~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~  182 (449)
T 1b89_A          109 RLAELEEFINGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKE  182 (449)
T ss_dssp             CHHHHTTTTTCC----------------CTTTHHHHHHHTTCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHH
T ss_pred             CHHHHHHHHcCCcHHHHHHHHHHHHHcCCHHHHHHHHHHhhhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHH
Confidence              33444333577788999999999999999999988866321       1234444677777766      27788888


Q ss_pred             HHHHHHhcCC--------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHH
Q 041786          181 LIETICKSGE--------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLV  224 (260)
Q Consensus       181 li~~~~~~~~--------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~  224 (260)
                      ++.+|...|+        ..+..+..-...++..|.+.|++++|..+++.-.
T Consensus       183 v~~aCv~~~ef~lA~~~~l~L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL  234 (449)
T 1b89_A          183 VCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAAL  234 (449)
T ss_dssp             HHHHHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            8888888887        2222333334467788888888888888887754

>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=98.52  E-value=1.4e-05  Score=63.96  Aligned_cols=211  Identities=12%  Similarity=-0.038  Sum_probs=139.6

Q ss_pred             hhhhhHHHHHHHHcccc---hhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHh
Q 041786           14 YFAAVNHIANIVRHDIY---AERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKC   90 (260)
Q Consensus        14 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m   90 (260)
                      +..++..+.+.++.+..   ....+-..+...+...+|.+.++...+.. +.+...|..+...|.+.|++++|...|++.
T Consensus        37 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~  115 (327)
T 3cv0_A           37 LAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAALASLRAW  115 (327)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33444444454444332   23334445566677779999999886653 236788999999999999999999999998


Q ss_pred             hhcCCCCcHHHHHHH----------------------------HHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           91 TAFNCQQCVLLYNSL----------------------------HVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        91 ~~~~~~~~~~~~~~l----------------------------i~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      .+.... +...+..+                            +..+++..+.. +.+...+..+...|.+.|++++|.+
T Consensus       116 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~  193 (327)
T 3cv0_A          116 LLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAA  193 (327)
T ss_dssp             HHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHH
Confidence            865311 11112111                            11123333322 2357788888899999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCCc-chHHHHHHHHhhhhh
Q 041786          143 FLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLCA-DVNTNKISIPAVSKE  210 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~-~~~t~~~li~~~~~~  210 (260)
                      .+++..+..                    +.+...|..+...|.+.|+           ....| +...|..+...|.+.
T Consensus       194 ~~~~~~~~~--------------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~  253 (327)
T 3cv0_A          194 NLRRAVELR--------------------PDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNM  253 (327)
T ss_dssp             HHHHHHHHC--------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhC--------------------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHh
Confidence            999876531                    2245667777777777777           12223 467888899999999


Q ss_pred             ccHHHHHHHHHHHHHCCCCc-----------CCCc-----------ccHHHHHHHHHHH
Q 041786          211 FMIDEAFRLLCNLVEDGHKL-----------FPSL-----------GQFDDAFCFFSEM  247 (260)
Q Consensus       211 g~~~~a~~~~~~m~~~~~~p-----------~~~~-----------g~~~~a~~~~~~m  247 (260)
                      |++++|...|++..+..-..           +...           |+.++|..++++.
T Consensus       254 g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          254 SQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             TCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             ccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            99999999999987653221           0111           8888888887643

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=98.51  E-value=9.5e-06  Score=61.14  Aligned_cols=171  Identities=11%  Similarity=-0.025  Sum_probs=112.6

Q ss_pred             HHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhC
Q 041786           36 NRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRK  115 (260)
Q Consensus        36 ~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~  115 (260)
                      -..+...+...+|.+.|+...+.. +.+...|..+...|...|++++|...|++..+..                     
T Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~---------------------   72 (225)
T 2vq2_A           15 AMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK---------------------   72 (225)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---------------------
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC---------------------
Confidence            334445556667888887765542 2346778888888888888888888888877532                     


Q ss_pred             CCCCCHhhHHHHHHHHhcc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC----
Q 041786          116 GFVPDKRTHTILVNAWCSS-GKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE----  190 (260)
Q Consensus       116 g~~p~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~----  190 (260)
                        ..+...+..+...|... |++++|...++++.+.+..|+                  +...+..+...|...|+    
T Consensus        73 --~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~------------------~~~~~~~l~~~~~~~~~~~~A  132 (225)
T 2vq2_A           73 --PDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPT------------------PYIANLNKGICSAKQGQFGLA  132 (225)
T ss_dssp             --TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSC------------------HHHHHHHHHHHHHHTTCHHHH
T ss_pred             --CCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcc------------------hHHHHHHHHHHHHHcCCHHHH
Confidence              12456677777888888 888888888887775222221                  13344444555555554    


Q ss_pred             -------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCc-CCCc------------ccHHHHHHHHHHHHh
Q 041786          191 -------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKL-FPSL------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       191 -------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~------------g~~~~a~~~~~~m~~  249 (260)
                             ....| +...+..+...+.+.|++++|...|++..+..  | +...            |+.+.|..+++.+..
T Consensus       133 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          133 EAYLKRSLAAQPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRV--EVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence                   11122 35667778888888888999888888877643  2 1111            888888888887764


Q ss_pred             c
Q 041786          250 K  250 (260)
Q Consensus       250 ~  250 (260)
                      .
T Consensus       211 ~  211 (225)
T 2vq2_A          211 N  211 (225)
T ss_dssp             H
T ss_pred             h
Confidence            3

>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=98.50  E-value=6.6e-06  Score=63.52  Aligned_cols=142  Identities=8%  Similarity=-0.031  Sum_probs=112.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      ...|..+...+...|++++|...|+++.+..                       ..+...+..+...|.+.|++++|.+.
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-----------------------~~~~~~~~~la~~~~~~~~~~~A~~~   93 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-----------------------PSSADAHAALAVVFQTEMEPKLADEE   93 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-----------------------CChHHHHHHHHHHHHHcCCHHHHHHH
Confidence            5778888999999999999999999887632                       23567888889999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CC--CCc-chHHHHHHHHhhhh
Q 041786          144 LQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LG--LCA-DVNTNKISIPAVSK  209 (260)
Q Consensus       144 ~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~--~~~-~~~t~~~li~~~~~  209 (260)
                      |++..+..                    +.+...+..+...|...|+           ..  ..| +...+..+...|..
T Consensus        94 ~~~a~~~~--------------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~  153 (252)
T 2ho1_A           94 YRKALASD--------------------SRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQ  153 (252)
T ss_dssp             HHHHHHHC--------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHC--------------------cCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHH
Confidence            99887532                    2245667777777777777           22  344 56778888899999


Q ss_pred             hccHHHHHHHHHHHHHCCCCcCCCc------------ccHHHHHHHHHHHHhc
Q 041786          210 EFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       210 ~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a~~~~~~m~~~  250 (260)
                      .|++++|...|++..+..  |....            |++++|..++++....
T Consensus       154 ~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  204 (252)
T 2ho1_A          154 MKKPAQAKEYFEKSLRLN--RNQPSVALEMADLLYKEREYVPARQYYDLFAQG  204 (252)
T ss_dssp             TTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             cCCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999988754  32211            9999999999998753

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=98.49  E-value=1.5e-05  Score=65.25  Aligned_cols=189  Identities=12%  Similarity=0.015  Sum_probs=132.3

Q ss_pred             hhhhHHHHHHHHccc---chhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhh
Q 041786           15 FAAVNHIANIVRHDI---YAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCT   91 (260)
Q Consensus        15 ~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   91 (260)
                      ..++..+.+.+..+.   .....+-..+...+...+|.+.|+...+.. +.+...|..+...|.+.|++++|+..|+++.
T Consensus        82 ~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  160 (365)
T 4eqf_A           82 PVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTSHQQDACEALKNWI  160 (365)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccccHHHHHHHHHHHH
Confidence            344444555544433   334455556666777779999999986653 2358899999999999999999999999998


Q ss_pred             hcCCCCcH-HHHHH----------HHHH-------------HHHHHhCC-CCCCHhhHHHHHHHHhccCCHHHHHHHHHH
Q 041786           92 AFNCQQCV-LLYNS----------LHVC-------------FVRMIRKG-FVPDKRTHTILVNAWCSSGKMREAQEFLQE  146 (260)
Q Consensus        92 ~~~~~~~~-~~~~~----------li~~-------------~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  146 (260)
                      +..  |+. ..+..          +..+             +++..+.. -.++...|..+...|.+.|++++|.+.|++
T Consensus       161 ~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  238 (365)
T 4eqf_A          161 KQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNA  238 (365)
T ss_dssp             HHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            753  221 11111          1111             13333322 112577888889999999999999999988


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCCc-chHHHHHHHHhhhhhccHH
Q 041786          147 LSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLCA-DVNTNKISIPAVSKEFMID  214 (260)
Q Consensus       147 m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~-~~~t~~~li~~~~~~g~~~  214 (260)
                      ..+..                    +.+..+|..+...|.+.|+           ....| +...|..+...|.+.|+++
T Consensus       239 al~~~--------------------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          239 ALTVR--------------------PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HHHHC--------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHhC--------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHH
Confidence            77531                    2357788889999999988           22334 4778999999999999999


Q ss_pred             HHHHHHHHHHHC
Q 041786          215 EAFRLLCNLVED  226 (260)
Q Consensus       215 ~a~~~~~~m~~~  226 (260)
                      +|...|++..+.
T Consensus       299 ~A~~~~~~al~~  310 (365)
T 4eqf_A          299 EAVSNFLTALSL  310 (365)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998764

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=98.49  E-value=2.5e-06  Score=65.39  Aligned_cols=54  Identities=4%  Similarity=-0.041  Sum_probs=33.2

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhc
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAF   93 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   93 (260)
                      +...+...+|.+.|+...+.. +.+...|..+...|.+.|++++|...|++..+.
T Consensus        33 ~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   86 (243)
T 2q7f_A           33 GSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALEL   86 (243)
T ss_dssp             ---------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            334444446777777765532 235777888888888888888888888887764

>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=98.43  E-value=2.6e-05  Score=63.63  Aligned_cols=192  Identities=17%  Similarity=0.057  Sum_probs=133.8

Q ss_pred             chhhhhHHHHHHHHcccc---hhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 041786           13 DYFAAVNHIANIVRHDIY---AERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNK   89 (260)
Q Consensus        13 ~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~   89 (260)
                      .+..++..+.+.+..+..   ....+-.++...+...+|.+.|+...+.. +.+...|..+...|.+.|++++|...|++
T Consensus        79 ~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  157 (368)
T 1fch_A           79 DLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRD  157 (368)
T ss_dssp             CHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            344455555555554432   23445555666777779999999886654 23688999999999999999999999999


Q ss_pred             hhhcCCCCcHHHH-------------------HHHH---------HHHHHHHhCCC-CCCHhhHHHHHHHHhccCCHHHH
Q 041786           90 CTAFNCQQCVLLY-------------------NSLH---------VCFVRMIRKGF-VPDKRTHTILVNAWCSSGKMREA  140 (260)
Q Consensus        90 m~~~~~~~~~~~~-------------------~~li---------~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~a  140 (260)
                      +.+..... ...+                   ..+.         ..++++.+... .++..++..+...|.+.|++++|
T Consensus       158 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A  236 (368)
T 1fch_A          158 WLRYTPAY-AHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKA  236 (368)
T ss_dssp             HHHTSTTT-GGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhCcCc-HHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            88754211 1111                   1111         11133333221 12478888999999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCCc-chHHHHHHHHhhh
Q 041786          141 QEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLCA-DVNTNKISIPAVS  208 (260)
Q Consensus       141 ~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~-~~~t~~~li~~~~  208 (260)
                      ...|++..+..                    +.+...|..+...|.+.|+           ....| +...+..+...|.
T Consensus       237 ~~~~~~al~~~--------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~  296 (368)
T 1fch_A          237 VDCFTAALSVR--------------------PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCI  296 (368)
T ss_dssp             HHHHHHHHHHC--------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC--------------------cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            99999877531                    2246678888888888887           22233 4678899999999


Q ss_pred             hhccHHHHHHHHHHHHHC
Q 041786          209 KEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       209 ~~g~~~~a~~~~~~m~~~  226 (260)
                      +.|++++|...|++..+.
T Consensus       297 ~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          297 NLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             HHTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHh
Confidence            999999999999998764

>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=98.41  E-value=7.1e-08  Score=80.75  Aligned_cols=145  Identities=14%  Similarity=0.107  Sum_probs=26.9

Q ss_pred             hhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH----------
Q 041786           40 LTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF----------  109 (260)
Q Consensus        40 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~----------  109 (260)
                      -.+++..+|.+.++.+      ++..+|..|..++.+.|++++|++.|.+.      +|..+|..++.+.          
T Consensus        14 ~~~~~ld~A~~fae~~------~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi   81 (449)
T 1b89_A           14 EHIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELV   81 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhC------CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHH
Confidence            3445556888888887      23358999999999999999999999652      3444555555322          


Q ss_pred             --HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHh
Q 041786          110 --VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICK  187 (260)
Q Consensus       110 --~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~  187 (260)
                        -+|.+.. .++..+.+.++.+|.+.|+++++.++++                          .|+..+|+.+...|..
T Consensus        82 ~yl~~ark~-~~~~~i~~~Li~~Y~Klg~l~e~e~f~~--------------------------~pn~~a~~~IGd~~~~  134 (449)
T 1b89_A           82 KYLQMARKK-ARESYVETELIFALAKTNRLAELEEFIN--------------------------GPNNAHIQQVGDRCYD  134 (449)
T ss_dssp             ----------------------------CHHHHTTTTT--------------------------CC--------------
T ss_pred             HHHHHHHHh-CccchhHHHHHHHHHHhCCHHHHHHHHc--------------------------CCcHHHHHHHHHHHHH
Confidence              1111111 2344556666666666666666655443                          2555677777777777


Q ss_pred             cCCCC----CCcchHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          188 SGELG----LCADVNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       188 ~~~~~----~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                      .|...    .-.....|..+..++.+.|++++|.+.++.+
T Consensus       135 ~g~yeeA~~~Y~~a~n~~~LA~~L~~Lg~yq~AVea~~KA  174 (449)
T 1b89_A          135 EKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKA  174 (449)
T ss_dssp             --CTTTHHHHHHHTTCHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHhhhHHHHHHHHHHhccHHHHHHHHHHc
Confidence            77611    1112246777777777777777777777766

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.41  E-value=3.5e-05  Score=65.73  Aligned_cols=189  Identities=11%  Similarity=-0.002  Sum_probs=109.4

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH-----
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF-----  109 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-----  109 (260)
                      +-..+...+...+|.+.|+...+..  |+...|..+...|.+.|++++|...|+...+.. +.+...|..+..++     
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            3344445556668888887776554  337777788888888888888888888877543 12334444444333     


Q ss_pred             --------HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHH
Q 041786          110 --------VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSL  181 (260)
Q Consensus       110 --------~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~l  181 (260)
                              ++..+.. +.+...+..+...|.+.|++++|.+.|++..+..                    +.+...+..+
T Consensus       320 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--------------------~~~~~~~~~l  378 (514)
T 2gw1_A          320 YDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF--------------------PEAPEVPNFF  378 (514)
T ss_dssp             TTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS--------------------TTCSHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc--------------------ccCHHHHHHH
Confidence                    2222211 1234566666667777777777777776655421                    1234455555


Q ss_pred             HHHHHhcCC-----------CCCCc---c----hHHHHHHHHhhhh---hccHHHHHHHHHHHHHCCCCcCCCc------
Q 041786          182 IETICKSGE-----------LGLCA---D----VNTNKISIPAVSK---EFMIDEAFRLLCNLVEDGHKLFPSL------  234 (260)
Q Consensus       182 i~~~~~~~~-----------~~~~~---~----~~t~~~li~~~~~---~g~~~~a~~~~~~m~~~~~~p~~~~------  234 (260)
                      ...|.+.|+           ....|   +    ...|..+...|..   .|++++|...|++..+..  |+...      
T Consensus       379 a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la  456 (514)
T 2gw1_A          379 AEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD--PRSEQAKIGLA  456 (514)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC--cccHHHHHHHH
Confidence            666666665           00111   1    3356666666666   777777777777766542  22211      


Q ss_pred             ------ccHHHHHHHHHHHHh
Q 041786          235 ------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       235 ------g~~~~a~~~~~~m~~  249 (260)
                            |++++|...|++...
T Consensus       457 ~~~~~~g~~~~A~~~~~~a~~  477 (514)
T 2gw1_A          457 QMKLQQEDIDEAITLFEESAD  477 (514)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHH
Confidence                  777777777766654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.40  E-value=2.1e-05  Score=59.81  Aligned_cols=166  Identities=16%  Similarity=0.026  Sum_probs=107.8

Q ss_pred             HHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHH
Q 041786           34 TLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMI  113 (260)
Q Consensus        34 ~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~  113 (260)
                      .+-..+...+...+|...|+...+.. +-+...|..+-..+.+.|++++|+..|++..+..  |+               
T Consensus        10 ~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--P~---------------   71 (217)
T 2pl2_A           10 RLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART--PR---------------   71 (217)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT---------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CC---------------
Confidence            34444555666678999998876553 2357888889999999999999999999888643  21               


Q ss_pred             hCCCCCCHhhHHHHHHHHhcc-----------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCC-ChhchHHH
Q 041786          114 RKGFVPDKRTHTILVNAWCSS-----------GKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVP-DLETFNSL  181 (260)
Q Consensus       114 ~~g~~p~~~~~~~li~~~~~~-----------g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p-~~~~~~~l  181 (260)
                            +...+..+-..|.+.           |++++|++.|++..+.                     .| +...|..+
T Consensus        72 ------~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---------------------~P~~~~~~~~l  124 (217)
T 2pl2_A           72 ------YLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERV---------------------NPRYAPLHLQR  124 (217)
T ss_dssp             ------CHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH---------------------CTTCHHHHHHH
T ss_pred             ------cHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh---------------------CcccHHHHHHH
Confidence                  233444455555555           9999999999987763                     23 35566666


Q ss_pred             HHHHHhcCC-------------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc------------cc
Q 041786          182 IETICKSGE-------------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL------------GQ  236 (260)
Q Consensus       182 i~~~~~~~~-------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------------g~  236 (260)
                      -..|...|+             ..  .+...+..+-..|...|++++|...|++..+..  |+...            |+
T Consensus       125 g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--P~~~~~~~~la~~~~~~g~  200 (217)
T 2pl2_A          125 GLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA--PKDLDLRVRYASALLLKGK  200 (217)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTC---
T ss_pred             HHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHccC
Confidence            667777776             22  567778888888999999999999998887643  43322            88


Q ss_pred             HHHHHHHHHHHH
Q 041786          237 FDDAFCFFSEMQ  248 (260)
Q Consensus       237 ~~~a~~~~~~m~  248 (260)
                      .++|+..|++..
T Consensus       201 ~~~A~~~~~~~~  212 (217)
T 2pl2_A          201 AEEAARAAALEH  212 (217)
T ss_dssp             ------------
T ss_pred             HHHHHHHHHHHh
Confidence            888888877654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.40  E-value=6.8e-05  Score=60.12  Aligned_cols=80  Identities=5%  Similarity=-0.085  Sum_probs=55.4

Q ss_pred             HHHHHHHHhcccCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCH-h-
Q 041786           46 LSMWKTIELMKPDSLSV-FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDK-R-  122 (260)
Q Consensus        46 ~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~-~-  122 (260)
                      .+|.++|+...+. +.| +...|..+...+.+.|++++|..+|++..+                        +.|+. . 
T Consensus        81 ~~A~~~~~rAl~~-~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~------------------------~~p~~~~~  135 (308)
T 2ond_A           81 DEAANIYERAIST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA------------------------IEDIDPTL  135 (308)
T ss_dssp             HHHHHHHHHHHTT-TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT------------------------SSSSCTHH
T ss_pred             HHHHHHHHHHHHH-hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHh------------------------ccccCccH
Confidence            4777777776552 123 456788888888888888888888887775                        22432 2 


Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          123 THTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       123 ~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      .|..+...+.+.|++++|..+|++..+.
T Consensus       136 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~  163 (308)
T 2ond_A          136 VYIQYMKFARRAEGIKSGRMIFKKARED  163 (308)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            5677777777777777777777776653

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=98.38  E-value=2.5e-05  Score=58.81  Aligned_cols=143  Identities=13%  Similarity=0.005  Sum_probs=111.9

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      +...|..+...+.+.|++++|.+.|++..+..                       +.+...|..+...|...|++++|.+
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-----------------------~~~~~~~~~l~~~~~~~~~~~~A~~   63 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-----------------------PKNELAWLVRAEIYQYLKVNDKAQE   63 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-----------------------ccchHHHHHHHHHHHHcCChHHHHH
Confidence            46778889999999999999999999887632                       1346688888999999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhc-CC------------C--CCCcchHHHHHHHHhh
Q 041786          143 FLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKS-GE------------L--GLCADVNTNKISIPAV  207 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~-~~------------~--~~~~~~~t~~~li~~~  207 (260)
                      .|++..+..                    +.+...+..+...|... |+            .  ....+...+..+...+
T Consensus        64 ~~~~a~~~~--------------------~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  123 (225)
T 2vq2_A           64 SFRQALSIK--------------------PDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICS  123 (225)
T ss_dssp             HHHHHHHHC--------------------TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhC--------------------CCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHH
Confidence            999877532                    22456677777777777 76            2  2223467888899999


Q ss_pred             hhhccHHHHHHHHHHHHHCCCCcCCCc------------ccHHHHHHHHHHHHhc
Q 041786          208 SKEFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       208 ~~~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a~~~~~~m~~~  250 (260)
                      ...|++++|...|+++.+..  |....            |++++|..++++....
T Consensus       124 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  176 (225)
T 2vq2_A          124 AKQGQFGLAEAYLKRSLAAQ--PQFPPAFKELARTKMLAGQLGDADYYFKKYQSR  176 (225)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC--CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999988753  32211            9999999999988754

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.35  E-value=8.6e-05  Score=57.76  Aligned_cols=167  Identities=15%  Similarity=0.034  Sum_probs=100.0

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHh
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIR  114 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~  114 (260)
                      +-..+...+...+|.+.|+...+.. +.+...|..+...|.+.|++++|...|++..+..                    
T Consensus        49 l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~--------------------  107 (275)
T 1xnf_A           49 RGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD--------------------  107 (275)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------------
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC--------------------
Confidence            3333444555556777776665442 1245666777777777777777777777666532                    


Q ss_pred             CCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCC--------------CHHHHHHHHHHHHHCCCCCChhchHH
Q 041786          115 KGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNP--------------PVRSAKQMVNKMIKQGSVPDLETFNS  180 (260)
Q Consensus       115 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--------------~~~~a~~l~~~m~~~g~~p~~~~~~~  180 (260)
                         +.+...+..+...|.+.|++++|.+.|+++.+..-..              +..+|...+....... .++...+. 
T Consensus       108 ---~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~-  182 (275)
T 1xnf_A          108 ---PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-DKEQWGWN-  182 (275)
T ss_dssp             ---TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-CCCSTHHH-
T ss_pred             ---ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CcchHHHH-
Confidence               1235566667777777777777777777765532111              1225556665554432 23333333 


Q ss_pred             HHHHHHhcCC-----------CCCCcc-----hHHHHHHHHhhhhhccHHHHHHHHHHHHHCC
Q 041786          181 LIETICKSGE-----------LGLCAD-----VNTNKISIPAVSKEFMIDEAFRLLCNLVEDG  227 (260)
Q Consensus       181 li~~~~~~~~-----------~~~~~~-----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~  227 (260)
                      +...+...++           ....|.     ...|..+...|.+.|++++|...|++.....
T Consensus       183 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          183 IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            4444444443           222232     4678888899999999999999999988754

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=98.34  E-value=2.2e-05  Score=59.94  Aligned_cols=150  Identities=9%  Similarity=-0.031  Sum_probs=102.9

Q ss_pred             HHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHH
Q 041786           33 RTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRM  112 (260)
Q Consensus        33 ~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m  112 (260)
                      ..+-..+...+...+|.+.++...+.. +.+...|..+...|.+.|++++|...|++..+..                  
T Consensus        61 ~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~------------------  121 (243)
T 2q7f_A           61 INFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG------------------  121 (243)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT------------------
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC------------------
Confidence            344455666677779999998876553 2367889999999999999999999999987632                  


Q ss_pred             HhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC--
Q 041786          113 IRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE--  190 (260)
Q Consensus       113 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~--  190 (260)
                           ..+...+..+...|.+.|++++|.+.+++..+..                    +.+...+..+...|.+.|+  
T Consensus       122 -----~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--------------------~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A          122 -----MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN--------------------ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             -----CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--------------------TTCHHHHHHHHHHHHHHTCCH
T ss_pred             -----CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--------------------CccHHHHHHHHHHHHHcCCHH
Confidence                 1245667777788888888888888888766521                    1233444445555555554  


Q ss_pred             ---------CC-CCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          191 ---------LG-LCADVNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       191 ---------~~-~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                               .. ...+...+..+...|.+.|++++|...|++..+.
T Consensus       177 ~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          177 EALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence                     01 1123556667777777777777777777777654

>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=98.34  E-value=0.00012  Score=62.83  Aligned_cols=231  Identities=9%  Similarity=-0.072  Sum_probs=148.7

Q ss_pred             hhhhhHHHHHHHHccc---chhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHh
Q 041786           14 YFAAVNHIANIVRHDI---YAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKC   90 (260)
Q Consensus        14 ~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m   90 (260)
                      +..++..+...++.+.   .....+-.++...+...+|.+.|+...+.. +.+...|..+...|.+.|++++|+..|+.+
T Consensus        41 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~  119 (537)
T 3fp2_A           41 FNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTDAMFDLSVL  119 (537)
T ss_dssp             CC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444555555554443   334445556667777779999998886653 235788889999999999999999988644


Q ss_pred             hhcCC------------------------------------CCcHHHH------------------------------HH
Q 041786           91 TAFNC------------------------------------QQCVLLY------------------------------NS  104 (260)
Q Consensus        91 ~~~~~------------------------------------~~~~~~~------------------------------~~  104 (260)
                      ....-                                    .|+....                              ..
T Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  199 (537)
T 3fp2_A          120 SLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDA  199 (537)
T ss_dssp             C-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHH
T ss_pred             hcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHH
Confidence            21110                                    0111110                              00


Q ss_pred             HH---------------------HHHHHHHhCCCCCC--------HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC--
Q 041786          105 LH---------------------VCFVRMIRKGFVPD--------KRTHTILVNAWCSSGKMREAQEFLQELSDKGFN--  153 (260)
Q Consensus       105 li---------------------~~~~~m~~~g~~p~--------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--  153 (260)
                      +.                     .+++++.  ...|+        ...+..+-..+...|++++|.+.|++..+..-.  
T Consensus       200 l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l--~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~~~~~  277 (537)
T 3fp2_A          200 LQRLYSATDEGYLVANDLLTKSTDMYHSLL--SANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLHPTPN  277 (537)
T ss_dssp             HHHHHTCSHHHHHHHHHHHHHHHHHHHHHH--C--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHHHHHHHH--HHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCch
Confidence            00                     0111222  22343        224566667788889999999999887764322  


Q ss_pred             ------------CCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCCc-chHHHHHHHHhhhh
Q 041786          154 ------------PPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLCA-DVNTNKISIPAVSK  209 (260)
Q Consensus       154 ------------~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~-~~~t~~~li~~~~~  209 (260)
                                  .+...|...|....+.. +.+..+|..+...|...|+           ....| +...|..+...|..
T Consensus       278 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~  356 (537)
T 3fp2_A          278 SYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYK  356 (537)
T ss_dssp             HHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence                        11227888888877654 2357788888888888888           12223 45678888899999


Q ss_pred             hccHHHHHHHHHHHHHCCCCcCCCc------------ccHHHHHHHHHHHHhc
Q 041786          210 EFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       210 ~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a~~~~~~m~~~  250 (260)
                      .|++++|...|++..+..  |+...            |++++|...|++....
T Consensus       357 ~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  407 (537)
T 3fp2_A          357 QGKFTESEAFFNETKLKF--PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRL  407 (537)
T ss_dssp             TTCHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            999999999999988753  33322            9999999999887654

>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=98.33  E-value=7.2e-05  Score=54.25  Aligned_cols=88  Identities=13%  Similarity=0.059  Sum_probs=65.5

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      .+...+...+|.+.++...+.. +.+...|..+...+.+.|++++|...+++..+..                       
T Consensus        17 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-----------------------   72 (186)
T 3as5_A           17 SHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-----------------------   72 (186)
T ss_dssp             HHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------
T ss_pred             HHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-----------------------
Confidence            3444556668888888876553 2367888899999999999999999999887632                       


Q ss_pred             CCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          118 VPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       118 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      +.+...+..+...|...|++++|.+.|++..+
T Consensus        73 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~  104 (186)
T 3as5_A           73 PDNVKVATVLGLTYVQVQKYDLAVPLLIKVAE  104 (186)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            12456667777778888888888888877664

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.33  E-value=9.6e-05  Score=59.63  Aligned_cols=232  Identities=15%  Similarity=0.069  Sum_probs=153.7

Q ss_pred             cchhhhhHHHHHHHHcccc---hhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 041786           12 EDYFAAVNHIANIVRHDIY---AERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFN   88 (260)
Q Consensus        12 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~   88 (260)
                      ..+..++..+...+..+..   ....+-..+...+...+|.+.|+...+.. +-+...|..+...|.+.|++++|...|+
T Consensus        17 g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~   95 (359)
T 3ieg_A           17 GQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDEAEDDFK   95 (359)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHHHHHHHH
Confidence            3445555566665555433   33445555666777779999999886653 2257889999999999999999999999


Q ss_pred             HhhhcCCCC----cHHHHHHHH------------HHH-------------HHHHhCCCCCCHhhHHHHHHHHhccCCHHH
Q 041786           89 KCTAFNCQQ----CVLLYNSLH------------VCF-------------VRMIRKGFVPDKRTHTILVNAWCSSGKMRE  139 (260)
Q Consensus        89 ~m~~~~~~~----~~~~~~~li------------~~~-------------~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  139 (260)
                      +..+..  |    +...+..+.            .++             ++..+. .+.+...+..+...|.+.|++++
T Consensus        96 ~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~  172 (359)
T 3ieg_A           96 KVLKSN--PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEV-CVWDAELRELRAECFIKEGEPRK  172 (359)
T ss_dssp             HHHTSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhcC--CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-CCCchHHHHHHHHHHHHCCCHHH
Confidence            998753  4    333443331            111             222222 22356788889999999999999


Q ss_pred             HHHHHHHHHhCCCC---------------CCHHHHHHHHHHHHHCCCCCChhchH------------HHHHHHHhcCC--
Q 041786          140 AQEFLQELSDKGFN---------------PPVRSAKQMVNKMIKQGSVPDLETFN------------SLIETICKSGE--  190 (260)
Q Consensus       140 a~~~~~~m~~~~~~---------------~~~~~a~~l~~~m~~~g~~p~~~~~~------------~li~~~~~~~~--  190 (260)
                      |.+.+++..+....               .+...|...|....+... .+...+.            .+...+.+.|+  
T Consensus       173 A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  251 (359)
T 3ieg_A          173 AISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYT  251 (359)
T ss_dssp             HHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-cchHHHHHHHHHHHHHHHHHHHHHHHHcCCHH
Confidence            99999998765321               122277777877766531 1233332            22455677777  


Q ss_pred             ---------CCCCcch-----HHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc------------ccHHHHHHHH
Q 041786          191 ---------LGLCADV-----NTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDDAFCFF  244 (260)
Q Consensus       191 ---------~~~~~~~-----~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a~~~~  244 (260)
                               ....|+.     ..+..+-..|.+.|++++|...|++..+..  |+...            |++++|...|
T Consensus       252 ~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~  329 (359)
T 3ieg_A          252 DATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME--PDNVNALKDRAEAYLIEEMYDEAIQDY  329 (359)
T ss_dssp             HHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence                     1222322     335556788899999999999999988753  43322            9999999999


Q ss_pred             HHHHhc
Q 041786          245 SEMQIK  250 (260)
Q Consensus       245 ~~m~~~  250 (260)
                      ++..+.
T Consensus       330 ~~a~~~  335 (359)
T 3ieg_A          330 EAAQEH  335 (359)
T ss_dssp             HHHHTT
T ss_pred             HHHHhc
Confidence            988754

>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=98.30  E-value=0.00015  Score=62.27  Aligned_cols=106  Identities=12%  Similarity=0.096  Sum_probs=65.0

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH---------
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF---------  109 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~---------  109 (260)
                      +...+....|.+.|+...+.  .|+...|..+...|.+.|++++|...|++..+.. +.+..+|..+..++         
T Consensus       253 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  329 (537)
T 3fp2_A          253 HFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNA  329 (537)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHH
Confidence            33344445777777777654  3556777777888888888888888888877653 12344444444333         


Q ss_pred             ----HHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          110 ----VRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       110 ----~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                          ++..+.  .| +...|..+...|.+.|++++|.+.|++..+
T Consensus       330 ~~~~~~a~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  372 (537)
T 3fp2_A          330 KEDFQKAQSL--NPENVYPYIQLACLLYKQGKFTESEAFFNETKL  372 (537)
T ss_dssp             HHHHHHHHHH--CTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                122221  22 345666667777777777777777776654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.29  E-value=5e-05  Score=55.66  Aligned_cols=141  Identities=16%  Similarity=0.050  Sum_probs=94.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~  141 (260)
                      ++..|..|=..|.+.|++++|+..|++..+..                        | +...|..+-..|.+.|++++|.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~------------------------p~~~~~~~~la~~~~~~~~~~~a~   59 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD------------------------PNNVETLLKLGKTYMDIGLPNDAI   59 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC------------------------TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------------------------CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            56789999999999999999999999987632                        3 4556777777788888888888


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCC-cchHHHHHHHHhhhh
Q 041786          142 EFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLC-ADVNTNKISIPAVSK  209 (260)
Q Consensus       142 ~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~-~~~~t~~~li~~~~~  209 (260)
                      ..+.......  |+                  +...+..+-..+...++           .... -+...+..+-..|.+
T Consensus        60 ~~~~~~~~~~--~~------------------~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~  119 (184)
T 3vtx_A           60 ESLKKFVVLD--TT------------------SAEAYYILGSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDS  119 (184)
T ss_dssp             HHHHHHHHHC--CC------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcC--ch------------------hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHH
Confidence            8887765432  11                  12222222233333333           1112 245566677777888


Q ss_pred             hccHHHHHHHHHHHHHCCCCcCCCc------------ccHHHHHHHHHHHHh
Q 041786          210 EFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       210 ~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a~~~~~~m~~  249 (260)
                      .|++++|...|++..+..  |+...            |++++|+..|++..+
T Consensus       120 ~g~~~~A~~~~~~~l~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  169 (184)
T 3vtx_A          120 MGEHDKAIEAYEKTISIK--PGFIRAYQSIGLAYEGKGLRDEAVKYFKKALE  169 (184)
T ss_dssp             TTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hCCchhHHHHHHHHHHhc--chhhhHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            888888888888877643  33222            888888888877654

>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=98.27  E-value=3.7e-05  Score=52.51  Aligned_cols=62  Identities=23%  Similarity=0.301  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHH
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFL  144 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  144 (260)
                      ..|..+...+.+.|++++|..+|+++.+.+                       ..+...+..+...+...|++++|...|
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-----------------------~~~~~~~~~~a~~~~~~~~~~~A~~~~   58 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-----------------------PRSAEAWYNLGNAYYKQGDYDEAIEYY   58 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcC-----------------------CcchhHHHHHHHHHHHhcCHHHHHHHH
Confidence            357788889999999999999999887632                       124556666677777777777777777


Q ss_pred             HHHHh
Q 041786          145 QELSD  149 (260)
Q Consensus       145 ~~m~~  149 (260)
                      +++.+
T Consensus        59 ~~~~~   63 (136)
T 2fo7_A           59 QKALE   63 (136)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76654

>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=98.25  E-value=2.1e-05  Score=61.30  Aligned_cols=153  Identities=13%  Similarity=0.082  Sum_probs=102.3

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHH
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTI  126 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~  126 (260)
                      +|++++..............|..+-..|...|++++|+..|++..+..               +............++..
T Consensus        26 ~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~---------------~~~~~~~~~~~~~~~~~   90 (283)
T 3edt_B           26 QALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIR---------------EKTLGKDHPAVAATLNN   90 (283)
T ss_dssp             HHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---------------HHHTCTTCHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHH---------------HHHcCCcchHHHHHHHH
Confidence            566666665443333457788999999999999999999999887520               00000111224567888


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC----------------
Q 041786          127 LVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE----------------  190 (260)
Q Consensus       127 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~----------------  190 (260)
                      +-..|...|++++|.+.|++..+.            +..............+..+-..|...|+                
T Consensus        91 l~~~~~~~g~~~~A~~~~~~al~~------------~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  158 (283)
T 3edt_B           91 LAVLYGKRGKYKEAEPLCKRALEI------------REKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYA  158 (283)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHH------------HHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHH------------HHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999876542            2221111111224456666666666666                


Q ss_pred             ---CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          191 ---LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       191 ---~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                         ....| ...++..+-..|.+.|++++|...|++..+.
T Consensus       159 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~  198 (283)
T 3edt_B          159 TRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTR  198 (283)
T ss_dssp             HHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence               11133 3567888889999999999999999888753

>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=98.23  E-value=3.9e-05  Score=55.69  Aligned_cols=142  Identities=14%  Similarity=0.016  Sum_probs=106.0

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      ...|..+...+...|++++|...|+++.+..                       +.+...+..+...+.+.|++++|.+.
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~~~~~A~~~   64 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-----------------------AFDVDVALHLGIAYVKTGAVDRGTEL   64 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-----------------------SCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-----------------------ccChHHHHHHHHHHHHcCCHHHHHHH
Confidence            4567778889999999999999999877521                       23567788888999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC------------CCCCcchHHHHHHHHhhhhhc
Q 041786          144 LQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE------------LGLCADVNTNKISIPAVSKEF  211 (260)
Q Consensus       144 ~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~------------~~~~~~~~t~~~li~~~~~~g  211 (260)
                      +++..+..                    +.+...+..+...|...|+            .....+...+..+...+...|
T Consensus        65 ~~~~~~~~--------------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  124 (186)
T 3as5_A           65 LERSLADA--------------------PDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLG  124 (186)
T ss_dssp             HHHHHHHC--------------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhcC--------------------CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcC
Confidence            99877532                    2244556666666666666            112235667778888899999


Q ss_pred             cHHHHHHHHHHHHHCCCCcCCCc------------ccHHHHHHHHHHHHhc
Q 041786          212 MIDEAFRLLCNLVEDGHKLFPSL------------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       212 ~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a~~~~~~m~~~  250 (260)
                      ++++|...|++..+..  |+...            |+.++|...+++....
T Consensus       125 ~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A          125 RFDEAIDSFKIALGLR--PNEGKVHRAIAFSYEQMGRHEEALPHFKKANEL  173 (186)
T ss_dssp             CHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            9999999999887654  32211            8999999999887654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.23  E-value=3.6e-05  Score=58.48  Aligned_cols=145  Identities=17%  Similarity=0.062  Sum_probs=110.2

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHH
Q 041786           61 SVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREA  140 (260)
Q Consensus        61 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a  140 (260)
                      +++...+..+-..+.+.|++++|...|++..+..                       +-+...|..+-..+.+.|++++|
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-----------------------p~~~~a~~~lg~~~~~~g~~~~A   58 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-----------------------PQDPEALYWLARTQLKLGLVNPA   58 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-----------------------SSCHHHHHHHHHHHHHTTCHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----------------------CCCHHHHHHHHHHHHHcCCHHHH
Confidence            4567788899999999999999999999877532                       13567788888899999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhc-----------CC-----------CCCCc-ch
Q 041786          141 QEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKS-----------GE-----------LGLCA-DV  197 (260)
Q Consensus       141 ~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~-----------~~-----------~~~~~-~~  197 (260)
                      +..|++..+..  |+                  +...+..+-..|...           |+           ....| +.
T Consensus        59 ~~~~~~al~~~--P~------------------~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~  118 (217)
T 2pl2_A           59 LENGKTLVART--PR------------------YLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYA  118 (217)
T ss_dssp             HHHHHHHHHHC--TT------------------CHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHhC--CC------------------cHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccH
Confidence            99999887632  11                  344555555555555           54           22344 46


Q ss_pred             HHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-----------ccHHHHHHHHHHHHhc
Q 041786          198 NTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       198 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-----------g~~~~a~~~~~~m~~~  250 (260)
                      ..|..+-..|...|++++|...|++..+..  .+...           |++++|+..|++....
T Consensus       119 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  180 (217)
T 2pl2_A          119 PLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQ  180 (217)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            678888889999999999999999998876  22222           9999999999988764

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.16  E-value=0.00012  Score=56.89  Aligned_cols=181  Identities=12%  Similarity=-0.000  Sum_probs=112.6

Q ss_pred             chHHHHHHHHhcccCCC-C--CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCC
Q 041786           44 SELSMWKTIELMKPDSL-S--VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPD  120 (260)
Q Consensus        44 ~~~~a~~~~~~m~~~g~-~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~  120 (260)
                      ...+|.+.|+.+.+... .  .+...|..+...|...|++++|...|++..+..                       +.+
T Consensus        20 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-----------------------~~~   76 (275)
T 1xnf_A           20 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-----------------------PDM   76 (275)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------CCC
T ss_pred             hHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-----------------------CCc
Confidence            33488888888876532 1  246788899999999999999999999988632                       135


Q ss_pred             HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCC---------------CCCHHHHHHHHHHHHHCCCCCChhchHHHHHHH
Q 041786          121 KRTHTILVNAWCSSGKMREAQEFLQELSDKGF---------------NPPVRSAKQMVNKMIKQGSVPDLETFNSLIETI  185 (260)
Q Consensus       121 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~---------------~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~  185 (260)
                      ...|..+-..|.+.|++++|...|++..+..-               ..+..+|...|+...+..  |+.......+..+
T Consensus        77 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~  154 (275)
T 1xnf_A           77 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLA  154 (275)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHH
Confidence            77888899999999999999999998876431               111225666666655432  3333223333333


Q ss_pred             HhcCC------------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcC---CCc-----------ccHHH
Q 041786          186 CKSGE------------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLF---PSL-----------GQFDD  239 (260)
Q Consensus       186 ~~~~~------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~-----------g~~~~  239 (260)
                      ...|+            ....++...+. +...+...++.++|...+++..+......   ...           |++++
T Consensus       155 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  233 (275)
T 1xnf_A          155 EQKLDEKQAKEVLKQHFEKSDKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDS  233 (275)
T ss_dssp             HHHHCHHHHHHHHHHHHHHSCCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcCCcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHH
Confidence            33333            11112222222 44445555566666666665543321110   111           89999


Q ss_pred             HHHHHHHHHhc
Q 041786          240 AFCFFSEMQIK  250 (260)
Q Consensus       240 a~~~~~~m~~~  250 (260)
                      |...|++....
T Consensus       234 A~~~~~~al~~  244 (275)
T 1xnf_A          234 ATALFKLAVAN  244 (275)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHHhC
Confidence            99999888754

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=98.15  E-value=0.00018  Score=55.14  Aligned_cols=189  Identities=10%  Similarity=0.022  Sum_probs=130.1

Q ss_pred             hhhhhHHHHHHHHcc--cchhHHHHHhhhhhcchHHHHHHHHhcccCC--CCCC----HHHHHHHHHHHHhcCChHHHHH
Q 041786           14 YFAAVNHIANIVRHD--IYAERTLNRLNLTLISELSMWKTIELMKPDS--LSVF----PQTLSLIIEEFGKHGLIDNAVE   85 (260)
Q Consensus        14 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g--~~~~----~~~~~~li~~~~~~~~~~~a~~   85 (260)
                      +..++..+...+..+  ......+-..+...+...+|.+.++...+..  ..++    ...|..+...|.+.|++++|..
T Consensus        21 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  100 (258)
T 3uq3_A           21 FDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIE  100 (258)
T ss_dssp             HHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHH
Confidence            334444444444433  3334445555666777778999998875532  1122    5788999999999999999999


Q ss_pred             HHHHhhhcCCCCcHHHHHHHHH------HHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHH
Q 041786           86 VFNKCTAFNCQQCVLLYNSLHV------CFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRS  158 (260)
Q Consensus        86 ~~~~m~~~~~~~~~~~~~~li~------~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  158 (260)
                      .|++..+..  |+...+..+-.      .++....  ..| +...|..+-..+.+.|++++|...|++..+..       
T Consensus       101 ~~~~a~~~~--~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-------  169 (258)
T 3uq3_A          101 YYQKSLTEH--RTADILTKLRNAEKELKKAEAEAY--VNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-------  169 (258)
T ss_dssp             HHHHHHHHC--CCHHHHHHHHHHHHHHHHHHHHHH--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------
T ss_pred             HHHHHHhcC--chhHHHHHHhHHHHHHHHHHHHHH--cCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-------
Confidence            999998754  44443333321      1122222  223 45677888889999999999999999877532       


Q ss_pred             HHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          159 AKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       159 a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                                   +.+...|..+...|.+.|+           ....| +...|..+-..|.+.|+.++|...|++..+.
T Consensus       170 -------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          170 -------------PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             -------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -------------cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence                         2346677778888888887           12223 4678888999999999999999999988754

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.09  E-value=8.9e-05  Score=58.67  Aligned_cols=165  Identities=13%  Similarity=0.044  Sum_probs=102.4

Q ss_pred             HHHHhhhhhcchHHHHHHHHhcccC-------CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHH
Q 041786           34 TLNRLNLTLISELSMWKTIELMKPD-------SLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLH  106 (260)
Q Consensus        34 ~~~~~~~~~~~~~~a~~~~~~m~~~-------g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  106 (260)
                      .+-..+...+...+|.+.++...+.       ........+..+...|...|++++|...|++..+..            
T Consensus        32 ~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~------------   99 (311)
T 3nf1_A           32 NLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIR------------   99 (311)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH------------
Confidence            3444455555666777777776542       122335667777777888888888888877766420            


Q ss_pred             HHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHH
Q 041786          107 VCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETIC  186 (260)
Q Consensus       107 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~  186 (260)
                         +.............+..+...|...|++++|.+.|++..+.            ...............+..+-..|.
T Consensus       100 ---~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~------------~~~~~~~~~~~~~~~~~~la~~~~  164 (311)
T 3nf1_A          100 ---EKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEI------------REKVLGKDHPDVAKQLNNLALLCQ  164 (311)
T ss_dssp             ---HHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH------------HHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             ---HHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHH------------HHHhcCCCChHHHHHHHHHHHHHH
Confidence               00000111224567888889999999999999999876642            111100111112334555555555


Q ss_pred             hcCC-------------------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          187 KSGE-------------------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       187 ~~~~-------------------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                      ..|+                   .+..| ....+..+...|...|++++|...|++..+
T Consensus       165 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          165 NQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             TTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6665                   12133 355788888999999999999999988875

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.07  E-value=0.00015  Score=57.33  Aligned_cols=181  Identities=12%  Similarity=0.013  Sum_probs=106.0

Q ss_pred             HHHHHhhhhhcchHHHHHHHHhcccC------CC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhc------CCCCc-
Q 041786           33 RTLNRLNLTLISELSMWKTIELMKPD------SL-SVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAF------NCQQC-   98 (260)
Q Consensus        33 ~~~~~~~~~~~~~~~a~~~~~~m~~~------g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~~-   98 (260)
                      ..+-.++...+...+|.+.++...+.      +- ......|..+...|...|++++|...|++..+.      +-.|. 
T Consensus        73 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  152 (311)
T 3nf1_A           73 NILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDV  152 (311)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHH
Confidence            33444555566677999999887543      22 234678889999999999999999999998764      22222 


Q ss_pred             HHHHHHHHHHH-------------HHHHhC------CCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHH
Q 041786           99 VLLYNSLHVCF-------------VRMIRK------GFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRS  158 (260)
Q Consensus        99 ~~~~~~li~~~-------------~~m~~~------g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  158 (260)
                      ...+..+-.++             ++..+.      +-.| ....+..+...|.+.|++++|.+.|++..+.        
T Consensus       153 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--------  224 (311)
T 3nf1_A          153 AKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTR--------  224 (311)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--------
Confidence            22333333332             111111      1122 2346667777778888888888887765531        


Q ss_pred             HHHHHHHHHHCCCCCChhchHHHHHHHHhcCC------------------C-CCCcchHHHHHHHHhhhhhccHHHHHHH
Q 041786          159 AKQMVNKMIKQGSVPDLETFNSLIETICKSGE------------------L-GLCADVNTNKISIPAVSKEFMIDEAFRL  219 (260)
Q Consensus       159 a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~------------------~-~~~~~~~t~~~li~~~~~~g~~~~a~~~  219 (260)
                          .....-....+...........+...+.                  . ....+..++..+...|.+.|++++|...
T Consensus       225 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  300 (311)
T 3nf1_A          225 ----AHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETL  300 (311)
T ss_dssp             ----HHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             ----HHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHH
Confidence                1111111222333333333333333333                  0 1123456788899999999999999999


Q ss_pred             HHHHHH
Q 041786          220 LCNLVE  225 (260)
Q Consensus       220 ~~~m~~  225 (260)
                      |++..+
T Consensus       301 ~~~al~  306 (311)
T 3nf1_A          301 EEAAMR  306 (311)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988764

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.03  E-value=1.7e-05  Score=67.82  Aligned_cols=172  Identities=10%  Similarity=-0.037  Sum_probs=113.0

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCCh-HHHHHHHHHhhhcCCCCcHHHHHHHHHHH-------------HHH
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLI-DNAVEVFNKCTAFNCQQCVLLYNSLHVCF-------------VRM  112 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~~~~~~~~~~~~li~~~-------------~~m  112 (260)
                      .+.+.++...+.. ..+...|..+-..|...|++ ++|+..|++..+.. +-+...|..+-.++             ++.
T Consensus        86 ~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a  163 (474)
T 4abn_A           86 KTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGA  163 (474)
T ss_dssp             HHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4555555543322 23566777777777777777 88888777776653 12244555555444             111


Q ss_pred             HhCCCCCCHhhHHHHHHHHhcc---------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHH
Q 041786          113 IRKGFVPDKRTHTILVNAWCSS---------GKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIE  183 (260)
Q Consensus       113 ~~~g~~p~~~~~~~li~~~~~~---------g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~  183 (260)
                      .  .+.|+...+..+-..|.+.         |++++|++.|++..+..                    +-+...|..+-.
T Consensus       164 l--~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--------------------p~~~~~~~~lg~  221 (474)
T 4abn_A          164 L--THCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD--------------------VLDGRSWYILGN  221 (474)
T ss_dssp             H--TTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC--------------------TTCHHHHHHHHH
T ss_pred             H--hhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC--------------------CCCHHHHHHHHH
Confidence            2  3457778888888899998         99999999999877632                    123455555555


Q ss_pred             HHHhc--------CC-----------CCCCc----chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc------
Q 041786          184 TICKS--------GE-----------LGLCA----DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL------  234 (260)
Q Consensus       184 ~~~~~--------~~-----------~~~~~----~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------  234 (260)
                      .|...        |+           ....|    +...|..+-..|...|++++|...|++..+..  |+...      
T Consensus       222 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~a~~~l~  299 (474)
T 4abn_A          222 AYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD--PAWPEPQQREQ  299 (474)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHH
Confidence            55554        33           12234    67788899999999999999999999987653  33322      


Q ss_pred             ------ccHHHHHHHH
Q 041786          235 ------GQFDDAFCFF  244 (260)
Q Consensus       235 ------g~~~~a~~~~  244 (260)
                            |++++|+..+
T Consensus       300 ~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          300 QLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHh
Confidence                  7777777544

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=97.96  E-value=0.0016  Score=56.22  Aligned_cols=159  Identities=8%  Similarity=-0.078  Sum_probs=94.9

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCH--hhH
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDK--RTH  124 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~--~~~  124 (260)
                      +|.++++.-.+.-.+-+...|..+...+.+.|++++|..+|+...+.                        .|+.  ..|
T Consensus       304 ~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~------------------------~p~~~~~~~  359 (530)
T 2ooe_A          304 EAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI------------------------EDIDPTLVY  359 (530)
T ss_dssp             HHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS------------------------SSSCHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc------------------------cccCchHHH
Confidence            67788877654212235788888888888899999999999987763                        2321  356


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHH-HHhcCC-----------CC
Q 041786          125 TILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIET-ICKSGE-----------LG  192 (260)
Q Consensus       125 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~-~~~~~~-----------~~  192 (260)
                      ......+.+.|++++|.++|++..+..  |.                  +...|...... +...|+           ..
T Consensus       360 ~~~~~~~~~~~~~~~A~~~~~~Al~~~--~~------------------~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~  419 (530)
T 2ooe_A          360 IQYMKFARRAEGIKSGRMIFKKAREDA--RT------------------RHHVYVTAALMEYYCSKDKSVAFKIFELGLK  419 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTCT--TC------------------CTHHHHHHHHHHHHHTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHhcc--CC------------------chHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Confidence            666666666666666666666655421  10                  00000000000 011222           00


Q ss_pred             CCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCC-CcCCCc-------------ccHHHHHHHHHHHHh
Q 041786          193 LCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGH-KLFPSL-------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       193 ~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~-------------g~~~~a~~~~~~m~~  249 (260)
                      ..| +...|..++..+.+.|+.++|..+|++....+. .|....             |+.+.+..+++.+.+
T Consensus       420 ~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~  491 (530)
T 2ooe_A          420 KYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  491 (530)
T ss_dssp             HHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             HCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            113 356677777778888888888888888877642 232111             888888888777654

>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=97.95  E-value=0.0037  Score=48.65  Aligned_cols=178  Identities=11%  Similarity=-0.081  Sum_probs=94.7

Q ss_pred             hhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH-------
Q 041786           41 TLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGK----HGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF-------  109 (260)
Q Consensus        41 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-------  109 (260)
                      ..+...+|.+.|+...+.   -+...+..+-..|.+    .+++++|...|++..+.+   +...+..+-.++       
T Consensus        18 ~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~   91 (273)
T 1ouv_A           18 KEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVS   91 (273)
T ss_dssp             HTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSC
T ss_pred             hCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcc
Confidence            334444666666665552   244566666666776    777777777777766544   223333222211       


Q ss_pred             ----------HHHHhCCCCCCHhhHHHHHHHHhc----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCCh
Q 041786          110 ----------VRMIRKGFVPDKRTHTILVNAWCS----SGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDL  175 (260)
Q Consensus       110 ----------~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~  175 (260)
                                ++..+.+   +...+..+-..|.+    .+++++|.+.|++..+.+                      +.
T Consensus        92 ~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~----------------------~~  146 (273)
T 1ouv_A           92 QNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN----------------------DG  146 (273)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT----------------------CH
T ss_pred             cCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC----------------------cH
Confidence                      1112222   45566666666776    777777777777666543                      12


Q ss_pred             hchHHHHHHHHh----cCC-----------CCCCcchHHHHHHHHhhhh----hccHHHHHHHHHHHHHCCCCcCCC---
Q 041786          176 ETFNSLIETICK----SGE-----------LGLCADVNTNKISIPAVSK----EFMIDEAFRLLCNLVEDGHKLFPS---  233 (260)
Q Consensus       176 ~~~~~li~~~~~----~~~-----------~~~~~~~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~---  233 (260)
                      ..+..+-..|..    .++           ... -+...+..+-..|..    .++.++|...|++..+.+. +...   
T Consensus       147 ~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~-~~a~~~l  224 (273)
T 1ouv_A          147 DGCTILGSLYDAGRGTPKDLKKALASYDKACDL-KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN-GGGCFNL  224 (273)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC-HHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC-HHHHHHH
Confidence            222222222222    111           000 123445555566666    7777888777777766543 1110   


Q ss_pred             ----------cccHHHHHHHHHHHHhcC
Q 041786          234 ----------LGQFDDAFCFFSEMQIKT  251 (260)
Q Consensus       234 ----------~g~~~~a~~~~~~m~~~g  251 (260)
                                .++.++|...|++..+.|
T Consensus       225 ~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          225 GAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence                      156677777776665443

>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=97.94  E-value=0.0011  Score=51.38  Aligned_cols=181  Identities=13%  Similarity=0.037  Sum_probs=106.7

Q ss_pred             HHHHHhhhhhcchHHHHHHHHhcccC------CC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcC------CCC-c
Q 041786           33 RTLNRLNLTLISELSMWKTIELMKPD------SL-SVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFN------CQQ-C   98 (260)
Q Consensus        33 ~~~~~~~~~~~~~~~a~~~~~~m~~~------g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~~-~   98 (260)
                      ..+-..+...+...+|.+.++...+.      +- ......|..+-..|...|++++|...|++..+..      -.| .
T Consensus        47 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  126 (283)
T 3edt_B           47 NILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDV  126 (283)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHH
Confidence            33444455566666888888776433      22 2346788899999999999999999999887641      112 2


Q ss_pred             HHHHHHHHHHH-------------HHHHhC------CCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHH
Q 041786           99 VLLYNSLHVCF-------------VRMIRK------GFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRS  158 (260)
Q Consensus        99 ~~~~~~li~~~-------------~~m~~~------g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  158 (260)
                      ..++..+-.++             ++..+.      +-.| ....+..+-..|.+.|++++|.+.|++..+.        
T Consensus       127 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~--------  198 (283)
T 3edt_B          127 AKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTR--------  198 (283)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--------
Confidence            33344443333             111111      1122 3456777777888888888888888765531        


Q ss_pred             HHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-------------------CCCCcchHHHHHHHHhhhhhccHHHHHHH
Q 041786          159 AKQMVNKMIKQGSVPDLETFNSLIETICKSGE-------------------LGLCADVNTNKISIPAVSKEFMIDEAFRL  219 (260)
Q Consensus       159 a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-------------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~  219 (260)
                          ..........+....+...+..+...+.                   .........+..+...|...|++++|...
T Consensus       199 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  274 (283)
T 3edt_B          199 ----AHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTL  274 (283)
T ss_dssp             ----HHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ----HHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence                1111111223333333333333222222                   11122356788889999999999999999


Q ss_pred             HHHHHH
Q 041786          220 LCNLVE  225 (260)
Q Consensus       220 ~~~m~~  225 (260)
                      |++..+
T Consensus       275 ~~~al~  280 (283)
T 3edt_B          275 EDCASR  280 (283)
T ss_dssp             HHHHHT
T ss_pred             HHHHHH
Confidence            988765

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=97.93  E-value=0.0013  Score=47.93  Aligned_cols=149  Identities=15%  Similarity=0.055  Sum_probs=97.7

Q ss_pred             hHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH--
Q 041786           32 ERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF--  109 (260)
Q Consensus        32 ~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--  109 (260)
                      +..+-..+...+...+|.+.|++..+.. +-+...|..+...|.+.|++++|...+......... +...+..+-.++  
T Consensus         8 y~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~   85 (184)
T 3vtx_A            8 YMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGSANFM   85 (184)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHHHHHH
Confidence            3445555666677778999998876543 225788999999999999999999999988765422 122222222111  


Q ss_pred             -----------HHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhc
Q 041786          110 -----------VRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLET  177 (260)
Q Consensus       110 -----------~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~  177 (260)
                                 .+..  .+.| +...+..+-..|.+.|++++|++.|++..+.                     .|    
T Consensus        86 ~~~~~~a~~~~~~a~--~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~---------------------~p----  138 (184)
T 3vtx_A           86 IDEKQAAIDALQRAI--ALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISI---------------------KP----  138 (184)
T ss_dssp             TTCHHHHHHHHHHHH--HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------------CT----
T ss_pred             cCCHHHHHHHHHHHH--HhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHh---------------------cc----
Confidence                       1111  1122 3455666666677777777777777665541                     11    


Q ss_pred             hHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          178 FNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       178 ~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                                       -+...|..+-..|.+.|++++|...|++..+.
T Consensus       139 -----------------~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  170 (184)
T 3vtx_A          139 -----------------GFIRAYQSIGLAYEGKGLRDEAVKYFKKALEK  170 (184)
T ss_dssp             -----------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             -----------------hhhhHHHHHHHHHHHCCCHHHHHHHHHHHHhC
Confidence                             23556777778889999999999999988764

>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=97.91  E-value=0.00013  Score=65.57  Aligned_cols=138  Identities=15%  Similarity=0.139  Sum_probs=98.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHhccCCHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPD-KRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      ...|+.|-..|.+.|++++|+..|++..+.                        .|+ ...|+.+-..|.+.|++++|++
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l------------------------~P~~~~a~~nLg~~l~~~g~~~eA~~   64 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEV------------------------FPEFAAAHSNLASVLQQQGKLQEALM   64 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------CSCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------------------------CCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            678999999999999999999999988763                        243 5667777777788888888888


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCCCCC-ChhchHHHHHHHHhcCC-----------CCCCc-chHHHHHHHHhhhh
Q 041786          143 FLQELSDKGFNPPVRSAKQMVNKMIKQGSVP-DLETFNSLIETICKSGE-----------LGLCA-DVNTNKISIPAVSK  209 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p-~~~~~~~li~~~~~~~~-----------~~~~~-~~~t~~~li~~~~~  209 (260)
                      .|++..+.                     .| +...|..+-..|.+.|+           ..+.| +...|+.+-..|..
T Consensus        65 ~~~~Al~l---------------------~P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~  123 (723)
T 4gyw_A           65 HYKEAIRI---------------------SPTFADAYSNMGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKD  123 (723)
T ss_dssp             HHHHHHHH---------------------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHh---------------------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            88776652                     23 34566666666666666           22334 35678888888888


Q ss_pred             hccHHHHHHHHHHHHHCCCCcCCCc------------ccHHHHHHHHHHHH
Q 041786          210 EFMIDEAFRLLCNLVEDGHKLFPSL------------GQFDDAFCFFSEMQ  248 (260)
Q Consensus       210 ~g~~~~a~~~~~~m~~~~~~p~~~~------------g~~~~a~~~~~~m~  248 (260)
                      .|++++|...|++..+.  .|+...            |++++|.+.+++..
T Consensus       124 ~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~~~A~~~~~kal  172 (723)
T 4gyw_A          124 SGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDWTDYDERMKKLV  172 (723)
T ss_dssp             TTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCCTTHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccHHHHHHHHHHHH
Confidence            88999998888887764  344332            66666666665544

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=97.89  E-value=0.00024  Score=60.72  Aligned_cols=107  Identities=10%  Similarity=0.021  Sum_probs=77.0

Q ss_pred             HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhc---------CC-
Q 041786          121 KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKS---------GE-  190 (260)
Q Consensus       121 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~---------~~-  190 (260)
                      ...|..+-..|.+.|++++|.+.|++..+.                     .|+...+..+-..|...         |+ 
T Consensus       137 ~~a~~~lg~~~~~~g~~~~A~~~~~~al~~---------------------~p~~~~~~~lg~~~~~~~~~~~~~~~g~~  195 (474)
T 4abn_A          137 VEAWNQLGEVYWKKGDVTSAHTCFSGALTH---------------------CKNKVSLQNLSMVLRQLQTDSGDEHSRHV  195 (474)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHTT---------------------CCCHHHHHHHHHHHTTCCCSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---------------------CCCHHHHHHHHHHHHHhccCChhhhhhhH
Confidence            567777777777778888887777776653                     35555556666666555         44 


Q ss_pred             ----------CCCCc-chHHHHHHHHhhhhh--------ccHHHHHHHHHHHHHCCCCc---CCCc------------cc
Q 041786          191 ----------LGLCA-DVNTNKISIPAVSKE--------FMIDEAFRLLCNLVEDGHKL---FPSL------------GQ  236 (260)
Q Consensus       191 ----------~~~~~-~~~t~~~li~~~~~~--------g~~~~a~~~~~~m~~~~~~p---~~~~------------g~  236 (260)
                                ....| +...|..+-..|...        |++++|...|++..+..  |   +...            |+
T Consensus       196 ~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~lg~~~~~~g~  273 (474)
T 4abn_A          196 MDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVD--RKASSNPDLHLNRATLHKYEES  273 (474)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHC--GGGGGCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhC--CCcccCHHHHHHHHHHHHHcCC
Confidence                      22234 467888888999988        99999999999998753  3   2222            99


Q ss_pred             HHHHHHHHHHHHhc
Q 041786          237 FDDAFCFFSEMQIK  250 (260)
Q Consensus       237 ~~~a~~~~~~m~~~  250 (260)
                      +++|...|++....
T Consensus       274 ~~~A~~~~~~al~l  287 (474)
T 4abn_A          274 YGEALEGFSQAAAL  287 (474)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999988754

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=97.84  E-value=0.0011  Score=51.27  Aligned_cols=148  Identities=9%  Similarity=-0.048  Sum_probs=94.8

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      .+...+...+|.+.|+...+... -+...|..+...|.+.|++++|+..|++..+.+-                    ..
T Consensus        12 ~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~--------------------~~   70 (272)
T 3u4t_A           12 FLFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVN--------------------AT   70 (272)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSC--------------------TT
T ss_pred             HHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccC--------------------ch
Confidence            34445555688888888765431 2345788888888899999999998888775210                    01


Q ss_pred             CCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-------
Q 041786          118 VPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-------  190 (260)
Q Consensus       118 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-------  190 (260)
                      ......|..+-..|.+.|++++|...|++..+..                    +.+...|..+-..|...|+       
T Consensus        71 ~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~--------------------~~~~~~~~~l~~~~~~~~~~~~A~~~  130 (272)
T 3u4t_A           71 KAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD--------------------TTRLDMYGQIGSYFYNKGNFPLAIQY  130 (272)
T ss_dssp             TCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--------------------TTCTHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC--------------------cccHHHHHHHHHHHHHccCHHHHHHH
Confidence            1123346677777788888888888887766521                    1244567777777777776       


Q ss_pred             ----CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          191 ----LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       191 ----~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                          ....| +...|..+-..+...+++++|...|++..+.
T Consensus       131 ~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  171 (272)
T 3u4t_A          131 MEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL  171 (272)
T ss_dssp             HGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence                23334 3445555552333445888888888888764

>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=97.76  E-value=0.0003  Score=47.78  Aligned_cols=107  Identities=21%  Similarity=0.172  Sum_probs=76.5

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------C
Q 041786          123 THTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------L  191 (260)
Q Consensus       123 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~  191 (260)
                      .|..+...|.+.|++++|..+|+++.+.+                    +.+...+..+...+...|+           .
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--------------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~   62 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD--------------------PRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL   62 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC--------------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC--------------------CcchhHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            46778888999999999999999887532                    1234455556666666665           1


Q ss_pred             C-CCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-----------ccHHHHHHHHHHHHhc
Q 041786          192 G-LCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       192 ~-~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-----------g~~~~a~~~~~~m~~~  250 (260)
                      . ...+...+..+...+...|++++|...|+++.+..... ...           |+.++|...++++...
T Consensus        63 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           63 ELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRS-AEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHCCCchHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            1 12345677788888999999999999999888754211 111           8999999999988754

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=97.73  E-value=0.00063  Score=54.45  Aligned_cols=134  Identities=14%  Similarity=0.081  Sum_probs=91.2

Q ss_pred             HHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC-CCCHhhHHH
Q 041786           48 MWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF-VPDKRTHTI  126 (260)
Q Consensus        48 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~-~p~~~~~~~  126 (260)
                      +...|+++.+.+ .++...+..+-.++...|++++|++++.+....+                      - .-+...+-.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~----------------------~~~~~lea~~l  141 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDND----------------------EAEGTTELLLL  141 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSS----------------------CSTTHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccC----------------------CCcCcHHHHHH
Confidence            667777776655 4556666677888999999999999998765422                      1 124566778


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCC-----ChhchHHHHHHHHh--cC--C-------
Q 041786          127 LVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVP-----DLETFNSLIETICK--SG--E-------  190 (260)
Q Consensus       127 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p-----~~~~~~~li~~~~~--~~--~-------  190 (260)
                      ++..+.+.|+++.|...+++|.+.                     .|     +..+...|..++..  .|  +       
T Consensus       142 ~vqi~L~~~r~d~A~k~l~~~~~~---------------------~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~  200 (310)
T 3mv2_B          142 AIEVALLNNNVSTASTIFDNYTNA---------------------IEDTVSGDNEMILNLAESYIKFATNKETATSNFYY  200 (310)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---------------------SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhc---------------------CccccccchHHHHHHHHHHHHHHhCCccHHHHHHH
Confidence            899999999999999999999863                     23     13333334433221  12  1       


Q ss_pred             ----CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          191 ----LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       191 ----~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                          ....|+..+-..++.++.+.|++++|+..++.+.+
T Consensus       201 f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          201 YEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             HHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                22234434444555589999999999999987664

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=97.73  E-value=0.0089  Score=46.11  Aligned_cols=195  Identities=10%  Similarity=0.019  Sum_probs=115.8

Q ss_pred             cchhhhhHHHHHHHHccc---chhHHHHHhhhhhcchHHHHHHHHhcccCCCCCC--HHHHHHHHHHHHhcCChHHHHHH
Q 041786           12 EDYFAAVNHIANIVRHDI---YAERTLNRLNLTLISELSMWKTIELMKPDSLSVF--PQTLSLIIEEFGKHGLIDNAVEV   86 (260)
Q Consensus        12 ~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~~~~~~a~~~   86 (260)
                      ..+..++..+...+..+.   .....+-..+...+...+|.+.++...+.+-.++  ...|..+-..|.+.|++++|+..
T Consensus        17 ~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~   96 (272)
T 3u4t_A           17 NNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQ   96 (272)
T ss_dssp             TCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHH
Confidence            344555666666555543   3445555667777778899999999876432222  34588999999999999999999


Q ss_pred             HHHhhhcCCCCcHHHHHHHHHHH---------HHHHhC--CCCCC-HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCC
Q 041786           87 FNKCTAFNCQQCVLLYNSLHVCF---------VRMIRK--GFVPD-KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNP  154 (260)
Q Consensus        87 ~~~m~~~~~~~~~~~~~~li~~~---------~~m~~~--g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  154 (260)
                      |++..+..- .+..+|..+-.++         ....+.  ...|+ ...|..+-..+...+++++|.+.|++..+..  |
T Consensus        97 ~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--p  173 (272)
T 3u4t_A           97 YQAAVDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSSFVKVLELK--P  173 (272)
T ss_dssp             HHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--T
T ss_pred             HHHHHhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--c
Confidence            999887531 2334455444443         111111  22343 3444444413334457777777777665532  2


Q ss_pred             CHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------------CCCCcc------hHHHHHHHHhhhhhc
Q 041786          155 PVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------------LGLCAD------VNTNKISIPAVSKEF  211 (260)
Q Consensus       155 ~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------------~~~~~~------~~t~~~li~~~~~~g  211 (260)
                      +                  +...+..+...+...|+                 ....|+      ...|..+-..|.+.|
T Consensus       174 ~------------------~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  235 (272)
T 3u4t_A          174 N------------------IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINR  235 (272)
T ss_dssp             T------------------CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTT
T ss_pred             c------------------chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcC
Confidence            1                  12333333333333332                 001122      256777778888889


Q ss_pred             cHHHHHHHHHHHHHCC
Q 041786          212 MIDEAFRLLCNLVEDG  227 (260)
Q Consensus       212 ~~~~a~~~~~~m~~~~  227 (260)
                      ++++|...|++..+..
T Consensus       236 ~~~~A~~~~~~al~~~  251 (272)
T 3u4t_A          236 DKVKADAAWKNILALD  251 (272)
T ss_dssp             CHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHhcC
Confidence            9999999998887653

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=97.67  E-value=0.0034  Score=50.02  Aligned_cols=148  Identities=8%  Similarity=-0.086  Sum_probs=88.1

Q ss_pred             HHHHhhhhhcchHHHHHHHHhcccCCCCCC-HH-HHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHH
Q 041786           34 TLNRLNLTLISELSMWKTIELMKPDSLSVF-PQ-TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVR  111 (260)
Q Consensus        34 ~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  111 (260)
                      .+..+....+...+|.++|+...+.  .|+ .. .|..+...+.+.|++++|+.+|++..+..  |              
T Consensus       104 ~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--p--------------  165 (308)
T 2ond_A          104 AYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA--R--------------  165 (308)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST--T--------------
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--C--------------
Confidence            3444455566667999999998764  343 33 89999999999999999999999987632  1              


Q ss_pred             HHhCCCCCCHhhHHHHHHHH-hccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC
Q 041786          112 MIRKGFVPDKRTHTILVNAW-CSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE  190 (260)
Q Consensus       112 m~~~g~~p~~~~~~~li~~~-~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~  190 (260)
                             ++...|....... ...|+.++|..+|+...+..                    +-+...|..++..+.+.|+
T Consensus       166 -------~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~--------------------p~~~~~~~~~~~~~~~~g~  218 (308)
T 2ond_A          166 -------TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--------------------GDIPEYVLAYIDYLSHLNE  218 (308)
T ss_dssp             -------CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--------------------TTCHHHHHHHHHHHHTTCC
T ss_pred             -------CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------------------CCcHHHHHHHHHHHHHCCC
Confidence                   1122222222221 12467777777766554310                    1123333344444444333


Q ss_pred             -------------C-CCCc--chHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          191 -------------L-GLCA--DVNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       191 -------------~-~~~~--~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                                   . ...|  ....|..++..+.+.|+.+.|..+++++.+.
T Consensus       219 ~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          219 DNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                         1 1233  2445666666677777777777777776654

>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=97.66  E-value=0.0011  Score=59.74  Aligned_cols=146  Identities=11%  Similarity=0.021  Sum_probs=103.0

Q ss_pred             HHHHHhhhhhcchHHHHHHHHhcccCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHH
Q 041786           33 RTLNRLNLTLISELSMWKTIELMKPDSLSV-FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVR  111 (260)
Q Consensus        33 ~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  111 (260)
                      ..+-.++...+...+|.+.|++..+.  .| +...|+.|-..|.+.|++++|+..|++..+..                 
T Consensus        13 ~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-----------------   73 (723)
T 4gyw_A           13 NNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-----------------   73 (723)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----------------
Confidence            33444555666777899998887554  24 47889999999999999999999999887632                 


Q ss_pred             HHhCCCCCC-HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCC-ChhchHHHHHHHHhcC
Q 041786          112 MIRKGFVPD-KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVP-DLETFNSLIETICKSG  189 (260)
Q Consensus       112 m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p-~~~~~~~li~~~~~~~  189 (260)
                             |+ ...|..+-..|.+.|++++|++.|++..+.                     .| +...|+.+-..|.+.|
T Consensus        74 -------P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l---------------------~P~~~~a~~~Lg~~~~~~g  125 (723)
T 4gyw_A           74 -------PTFADAYSNMGNTLKEMQDVQGALQCYTRAIQI---------------------NPAFADAHSNLASIHKDSG  125 (723)
T ss_dssp             -------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------------CTTCHHHHHHHHHHHHHTT
T ss_pred             -------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---------------------CCCCHHHHHHHHHHHHHcC
Confidence                   33 456666777777777777777777765542                     22 3456666666666666


Q ss_pred             C-----------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          190 E-----------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       190 ~-----------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                      +           ....| +...|..+...|...|++++|.+.+++..+
T Consensus       126 ~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          126 NIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             CHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHHHHHHHHHHH
Confidence            6           23344 356778888888888999888888877653

>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=97.61  E-value=0.0042  Score=46.18  Aligned_cols=47  Identities=15%  Similarity=-0.090  Sum_probs=36.7

Q ss_pred             hHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCcccHHHHHHHHH
Q 041786          197 VNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQFDDAFCFFS  245 (260)
Q Consensus       197 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~g~~~~a~~~~~  245 (260)
                      ...+..+-..|.+.|+.++|...|++..+.  .|....+..+.|+..++
T Consensus       121 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~  167 (213)
T 1hh8_A          121 CEVLYNIAFMYAKKEEWKKAEEQLALATSM--KSEPRHSKIDKAMECVW  167 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCSGGGGHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CcccccchHHHHHHHHH
Confidence            466778888899999999999999998875  35555577777766665

>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=97.59  E-value=0.0073  Score=45.53  Aligned_cols=88  Identities=9%  Similarity=-0.192  Sum_probs=66.0

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      .+...+...+|.+.|+...+..-.++...+..+-..+.+.|++++|+..|++..+.                        
T Consensus        16 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~------------------------   71 (228)
T 4i17_A           16 DALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK------------------------   71 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT------------------------
T ss_pred             HHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh------------------------
Confidence            34445555588888887766543356677777888888888888888888877652                        


Q ss_pred             CC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          118 VP-DKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       118 ~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      .| +...|..+-..|.+.|++++|.+.|++..+
T Consensus        72 ~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  104 (228)
T 4i17_A           72 NYNLANAYIGKSAAYRDMKNNQEYIATLTEGIK  104 (228)
T ss_dssp             TCSHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            24 356778888889999999999999998775

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=97.58  E-value=0.0031  Score=42.03  Aligned_cols=99  Identities=21%  Similarity=0.194  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      ...|..+...+.+.|++++|...|+++.+..                       ..+...+..+...+.+.|++++|...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-----------------------~~~~~~~~~la~~~~~~~~~~~A~~~   65 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-----------------------PNNAEAWYNLGNAYYKQGDYDEAIEY   65 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-----------------------cCcHHHHHHHHHHHHHhCCHHHHHHH
Confidence            5678888999999999999999999887532                       13566788888999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          144 LQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       144 ~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                      |+++.+..                     |                     .+...+..+...|...|++++|...|+++
T Consensus        66 ~~~~~~~~---------------------~---------------------~~~~~~~~la~~~~~~~~~~~A~~~~~~~  103 (125)
T 1na0_A           66 YQKALELD---------------------P---------------------NNAEAWYNLGNAYYKQGDYDEAIEYYQKA  103 (125)
T ss_dssp             HHHHHHHC---------------------T---------------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhC---------------------C---------------------ccHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            99876521                     1                     12345566677788889999999999988


Q ss_pred             HHCC
Q 041786          224 VEDG  227 (260)
Q Consensus       224 ~~~~  227 (260)
                      .+..
T Consensus       104 ~~~~  107 (125)
T 1na0_A          104 LELD  107 (125)
T ss_dssp             HHHC
T ss_pred             HHhC
Confidence            7653

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=97.54  E-value=0.0008  Score=55.63  Aligned_cols=73  Identities=10%  Similarity=-0.000  Sum_probs=47.6

Q ss_pred             chHHHHHHHHhcCC-----------------CCC-CcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCC----cCCCc
Q 041786          177 TFNSLIETICKSGE-----------------LGL-CADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHK----LFPSL  234 (260)
Q Consensus       177 ~~~~li~~~~~~~~-----------------~~~-~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~----p~~~~  234 (260)
                      .+..+...|...|+                 .+. .....++..+-..|...|++++|...|++..+..-.    +....
T Consensus       265 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  344 (411)
T 4a1s_A          265 ANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEAR  344 (411)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHH
Confidence            56666777777776                 111 112466777888888999999999988877643211    11000


Q ss_pred             ------------ccHHHHHHHHHHHHh
Q 041786          235 ------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       235 ------------g~~~~a~~~~~~m~~  249 (260)
                                  |+.++|...|++...
T Consensus       345 ~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          345 ACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence                        888888888877653

>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=97.49  E-value=0.021  Score=44.22  Aligned_cols=182  Identities=10%  Similarity=-0.057  Sum_probs=113.7

Q ss_pred             hhhhhHHHHHHHHccc-chhHHHHHhhhh----hcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHh----cCChHHHH
Q 041786           14 YFAAVNHIANIVRHDI-YAERTLNRLNLT----LISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGK----HGLIDNAV   84 (260)
Q Consensus        14 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~~~~~~a~   84 (260)
                      +..++.-+.+...++. .....+-..+..    .....+|.+.|+...+.+   +...+..+-..|.+    .+++++|+
T Consensus        22 ~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~   98 (273)
T 1ouv_A           22 FTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKAL   98 (273)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHHHH
Confidence            3344444555444432 222333444444    556668999999887775   77888889899999    99999999


Q ss_pred             HHHHHhhhcCCCCcHHHHHHHHHHH-----------------HHHHhCCCCCCHhhHHHHHHHHhc----cCCHHHHHHH
Q 041786           85 EVFNKCTAFNCQQCVLLYNSLHVCF-----------------VRMIRKGFVPDKRTHTILVNAWCS----SGKMREAQEF  143 (260)
Q Consensus        85 ~~~~~m~~~~~~~~~~~~~~li~~~-----------------~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~  143 (260)
                      ..|++..+.+   +...+..+-.++                 ++..+.+   +...+..+-..|.+    .+++++|...
T Consensus        99 ~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~  172 (273)
T 1ouv_A           99 QYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALAS  172 (273)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            9999998865   444444444332                 2223333   45556666666766    7888888888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHh----cCC-----------CCCCcchHHHHHHHHhhh
Q 041786          144 LQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICK----SGE-----------LGLCADVNTNKISIPAVS  208 (260)
Q Consensus       144 ~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~----~~~-----------~~~~~~~~t~~~li~~~~  208 (260)
                      |++..+.+                      +...+..+-..|..    .++           ....+ ...+..+-..|.
T Consensus       173 ~~~a~~~~----------------------~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~-~~a~~~l~~~~~  229 (273)
T 1ouv_A          173 YDKACDLK----------------------DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN-GGGCFNLGAMQY  229 (273)
T ss_dssp             HHHHHHTT----------------------CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC-HHHHHHHHHHHH
T ss_pred             HHHHHHCC----------------------CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC-HHHHHHHHHHHH
Confidence            88776543                      12222333333333    222           00112 445666666677


Q ss_pred             h----hccHHHHHHHHHHHHHCC
Q 041786          209 K----EFMIDEAFRLLCNLVEDG  227 (260)
Q Consensus       209 ~----~g~~~~a~~~~~~m~~~~  227 (260)
                      +    .++.++|...|++..+.|
T Consensus       230 ~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          230 NGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             TTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             cCCCcccCHHHHHHHHHHHHHcC
Confidence            7    899999999999988765

>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=97.48  E-value=0.0066  Score=45.74  Aligned_cols=123  Identities=10%  Similarity=-0.085  Sum_probs=83.4

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHH
Q 041786           62 VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  141 (260)
                      .|+..|..+-..+.+.|++++|+..|++..+..                      ..++...+..+-..+.+.|++++|+
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~A~   62 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLT----------------------NNQDSVTAYNCGVCADNIKKYKEAA   62 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT----------------------TTCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhcc----------------------CCCCcHHHHHHHHHHHHhhcHHHHH
Confidence            356788888889999999999999999887632                      1256666767888899999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCCcc-h-------HHHHH
Q 041786          142 EFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLCAD-V-------NTNKI  202 (260)
Q Consensus       142 ~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~~-~-------~t~~~  202 (260)
                      +.|++..+..  |+                  +...|..+-..|...|+           ....|+ .       ..|..
T Consensus        63 ~~~~~al~~~--p~------------------~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  122 (228)
T 4i17_A           63 DYFDIAIKKN--YN------------------LANAYIGKSAAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLK  122 (228)
T ss_dssp             HHHHHHHHTT--CS------------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC--cc------------------hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHH
Confidence            9999887642  11                  23344445555555554           111222 1       33555


Q ss_pred             HHHhhhhhccHHHHHHHHHHHHHC
Q 041786          203 SIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       203 li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      +-..+...|++++|...|++..+.
T Consensus       123 ~g~~~~~~~~~~~A~~~~~~al~~  146 (228)
T 4i17_A          123 EGQKFQQAGNIEKAEENYKHATDV  146 (228)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHTTS
T ss_pred             HhHHHHHhccHHHHHHHHHHHHhc
Confidence            556666777777777777776654

>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=97.42  E-value=0.0074  Score=49.95  Aligned_cols=182  Identities=5%  Similarity=-0.058  Sum_probs=109.3

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCC-hHHHHHHHHHhhhcCCCCcHHHHHHHHHHH--------
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGL-IDNAVEVFNKCTAFNCQQCVLLYNSLHVCF--------  109 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--------  109 (260)
                      +...+...+|++.++...+.. +-+...|+.+-..+.+.|+ +++|+..|++..+..- -+...|+.+-.++        
T Consensus       107 ~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P-~~~~a~~~~g~~~~~~g~~~e  184 (382)
T 2h6f_A          107 LQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVLVEWLRDPSQ  184 (382)
T ss_dssp             HHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTT
T ss_pred             HHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHccCHHH
Confidence            334445557777777765543 1246777778888888886 8888888888776541 1344555544333        


Q ss_pred             -----HHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHH
Q 041786          110 -----VRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIE  183 (260)
Q Consensus       110 -----~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~  183 (260)
                           ++..+  +.| +...|..+-.++.+.|++++|++.|+++.+.+  |+                  +...|+.+-.
T Consensus       185 Al~~~~kal~--ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~--P~------------------~~~a~~~lg~  242 (382)
T 2h6f_A          185 ELEFIADILN--QDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VR------------------NNSVWNQRYF  242 (382)
T ss_dssp             HHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TT------------------CHHHHHHHHH
T ss_pred             HHHHHHHHHH--hCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC--CC------------------CHHHHHHHHH
Confidence                 22222  233 45677777888888888888888888877642  22                  2333444333


Q ss_pred             HHHh-cCC----------------CCCCc-chHHHHHHHHhhhhhc--cHHHHHHHHHHHHHCCCCcCCCc---------
Q 041786          184 TICK-SGE----------------LGLCA-DVNTNKISIPAVSKEF--MIDEAFRLLCNLVEDGHKLFPSL---------  234 (260)
Q Consensus       184 ~~~~-~~~----------------~~~~~-~~~t~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~p~~~~---------  234 (260)
                      .|.+ .|.                ....| +...|+.+-..+.+.|  +.++|...+.++ +  ..|+...         
T Consensus       243 ~l~~l~~~~~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~--~~p~~~~al~~La~~~  319 (382)
T 2h6f_A          243 VISNTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q--PSHSSPYLIAFLVDIY  319 (382)
T ss_dssp             HHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T--TTCCCHHHHHHHHHHH
T ss_pred             HHHHhcCcchHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-c--cCCCCHHHHHHHHHHH
Confidence            3333 221                01223 3556777777777777  578888888776 2  3333322         


Q ss_pred             ---c---------cHHHHHHHHHHH
Q 041786          235 ---G---------QFDDAFCFFSEM  247 (260)
Q Consensus       235 ---g---------~~~~a~~~~~~m  247 (260)
                         |         ..++|+.+++++
T Consensus       320 ~~~~~~~~~~~~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          320 EDMLENQCDNKEDILNKALELCEIL  344 (382)
T ss_dssp             HHHHHTTCSSHHHHHHHHHHHHHHH
T ss_pred             HHHhcccccchHHHHHHHHHHHHHH
Confidence               2         247888888887

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=97.37  E-value=0.0022  Score=50.77  Aligned_cols=53  Identities=8%  Similarity=-0.223  Sum_probs=39.3

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVF----PQTLSLIIEEFGKHGLIDNAVEVFNKCTA   92 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (260)
                      +...+...+|.+.|+...+.... +    ...|..+...|...|++++|...+++..+
T Consensus        15 ~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~   71 (338)
T 3ro2_A           15 LCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLT   71 (338)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34455556888888887654321 2    46788888999999999999999988664

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=97.34  E-value=0.0095  Score=39.50  Aligned_cols=90  Identities=16%  Similarity=0.096  Sum_probs=71.0

Q ss_pred             HhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCC
Q 041786           37 RLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKG  116 (260)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g  116 (260)
                      ..+...+....|.+.++...+.. +.+...+..+...+.+.|++++|...|+++.+..                      
T Consensus        17 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~----------------------   73 (125)
T 1na0_A           17 NAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD----------------------   73 (125)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----------------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC----------------------
Confidence            34445556668888888876543 2367889999999999999999999999887532                      


Q ss_pred             CCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          117 FVPDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       117 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                       ..+...+..+...|.+.|++++|.+.|++..+.
T Consensus        74 -~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           74 -PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence             235677888899999999999999999987753

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=97.33  E-value=0.0021  Score=53.10  Aligned_cols=196  Identities=14%  Similarity=0.002  Sum_probs=116.8

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHhhhc----CCCCc-HHHHHHHHHH
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFP----QTLSLIIEEFGKHGLIDNAVEVFNKCTAF----NCQQC-VLLYNSLHVC  108 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~-~~~~~~li~~  108 (260)
                      .+...+...+|.+.|+...+.... +.    ..|..+-..|...|++++|...|++..+.    +-.|. ..++..+-.+
T Consensus        57 ~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~  135 (411)
T 4a1s_A           57 RLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNT  135 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHH
Confidence            344556666899999887665321 22    57888889999999999999999887653    11111 2223333222


Q ss_pred             H-------------HHH----HhCCCCC-CHhhHHHHHHHHhccCC-----------------HHHHHHHHHHHHhCCCC
Q 041786          109 F-------------VRM----IRKGFVP-DKRTHTILVNAWCSSGK-----------------MREAQEFLQELSDKGFN  153 (260)
Q Consensus       109 ~-------------~~m----~~~g~~p-~~~~~~~li~~~~~~g~-----------------~~~a~~~~~~m~~~~~~  153 (260)
                      +             ++.    .+.+-.| ....+..+-..|...|+                 +++|.+.+++..+    
T Consensus       136 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~----  211 (411)
T 4a1s_A          136 LKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLK----  211 (411)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHH----
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHH----
Confidence            2             111    1111111 23466667777777777                 7777666664332    


Q ss_pred             CCHHHHHHHHHHHHHCCCCC-ChhchHHHHHHHHhcCC------------------CCCCcchHHHHHHHHhhhhhccHH
Q 041786          154 PPVRSAKQMVNKMIKQGSVP-DLETFNSLIETICKSGE------------------LGLCADVNTNKISIPAVSKEFMID  214 (260)
Q Consensus       154 ~~~~~a~~l~~~m~~~g~~p-~~~~~~~li~~~~~~~~------------------~~~~~~~~t~~~li~~~~~~g~~~  214 (260)
                              +....   +..| ....+..+-..|...|+                  .........+..+...|...|+++
T Consensus       212 --------~~~~~---~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  280 (411)
T 4a1s_A          212 --------LMRDL---GDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFE  280 (411)
T ss_dssp             --------HHHHH---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHH
T ss_pred             --------HHHHc---CCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHH
Confidence                    22211   1111 23356666667777776                  111112347888889999999999


Q ss_pred             HHHHHHHHHHHCCCCc-CC---Cc------------ccHHHHHHHHHHHHh
Q 041786          215 EAFRLLCNLVEDGHKL-FP---SL------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       215 ~a~~~~~~m~~~~~~p-~~---~~------------g~~~~a~~~~~~m~~  249 (260)
                      +|...|++..+..... +.   ..            |++++|...+++...
T Consensus       281 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  331 (411)
T 4a1s_A          281 DAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLA  331 (411)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999998876542111 00   00            999999999987654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=97.33  E-value=0.013  Score=46.90  Aligned_cols=166  Identities=15%  Similarity=0.046  Sum_probs=108.4

Q ss_pred             HHhhhhhcchHHHHHHHHhcccCCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHh
Q 041786           36 NRLNLTLISELSMWKTIELMKPDSL-SVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIR  114 (260)
Q Consensus        36 ~~~~~~~~~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~  114 (260)
                      -..+...+...+|++++..-...|- .-+...+..++..+.+.|+++.|.+.+++|.+.                     
T Consensus       107 a~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~---------------------  165 (310)
T 3mv2_B          107 ATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA---------------------  165 (310)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---------------------
Confidence            3334445666699999988755543 235788889999999999999999999999863                     


Q ss_pred             CCCCC-----CHhhHHHHHHHHhc----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHH
Q 041786          115 KGFVP-----DKRTHTILVNAWCS----SGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETI  185 (260)
Q Consensus       115 ~g~~p-----~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~  185 (260)
                         .|     +..+...|..++..    .++..+|..+|+++.+.                     .|+..+-..++.++
T Consensus       166 ---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---------------------~p~~~~~~lLln~~  221 (310)
T 3mv2_B          166 ---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---------------------FPTWKTQLGLLNLH  221 (310)
T ss_dssp             ---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---------------------SCSHHHHHHHHHHH
T ss_pred             ---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---------------------CCCcccHHHHHHHH
Confidence               24     24444555555322    33788888888887653                     23322223333455


Q ss_pred             HhcCC-----------CCC-----------CcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-ccHHHHHH
Q 041786          186 CKSGE-----------LGL-----------CADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-GQFDDAFC  242 (260)
Q Consensus       186 ~~~~~-----------~~~-----------~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-g~~~~a~~  242 (260)
                      .+.|+           ...           .-|..+...+|......|+  +|.+++.++++..  |+... -+..+...
T Consensus       222 ~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~--P~hp~i~d~~~k~~  297 (310)
T 3mv2_B          222 LQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD--HEHAFIKHHQEIDA  297 (310)
T ss_dssp             HHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT--CCCHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC--CCChHHHHHHHHHH
Confidence            55555           011           2256666555555555676  8899999998753  44433 77788888


Q ss_pred             HHHHHHhc
Q 041786          243 FFSEMQIK  250 (260)
Q Consensus       243 ~~~~m~~~  250 (260)
                      .|++...+
T Consensus       298 ~Fd~~~~k  305 (310)
T 3mv2_B          298 KFDELVRK  305 (310)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHHH
Confidence            88887754

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=97.32  E-value=0.0038  Score=46.73  Aligned_cols=137  Identities=8%  Similarity=-0.061  Sum_probs=91.2

Q ss_pred             cchHHHHHHHHhcccCCCCCC-HHHHHH----------------HHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHH
Q 041786           43 ISELSMWKTIELMKPDSLSVF-PQTLSL----------------IIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSL  105 (260)
Q Consensus        43 ~~~~~a~~~~~~m~~~g~~~~-~~~~~~----------------li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  105 (260)
                      +...+|.+.|+...+.  .|+ ...|..                +-..|.+.|++++|+..|++..+.            
T Consensus        18 g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~------------   83 (208)
T 3urz_A           18 GQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK------------   83 (208)
T ss_dssp             TCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------
T ss_pred             CCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH------------
Confidence            3444666666665443  232 344444                888999999999999999988763            


Q ss_pred             HHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCC-ChhchHHHHH
Q 041786          106 HVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVP-DLETFNSLIE  183 (260)
Q Consensus       106 i~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p-~~~~~~~li~  183 (260)
                                  .| +...|..+-..|...|++++|.+.|++..+.                     .| +...|..+-.
T Consensus        84 ------------~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---------------------~P~~~~a~~~lg~  130 (208)
T 3urz_A           84 ------------APNNVDCLEACAEMQVCRGQEKDALRMYEKILQL---------------------EADNLAANIFLGN  130 (208)
T ss_dssp             ------------CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---------------------CTTCHHHHHHHHH
T ss_pred             ------------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---------------------CCCCHHHHHHHHH
Confidence                        24 4677888889999999999999999988763                     23 3445555555


Q ss_pred             HHHhcCC-----------CCCCcchH--HHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          184 TICKSGE-----------LGLCADVN--TNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       184 ~~~~~~~-----------~~~~~~~~--t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      .|...|.           .-..|+..  .+..+-.++...|++++|...|++..+.
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  186 (208)
T 3urz_A          131 YYYLTAEQEKKKLETDYKKLSSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR  186 (208)
T ss_dssp             HHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT
T ss_pred             HHHHHhHHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            5443332           11223322  2333344566788999999999987764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.32  E-value=0.012  Score=41.88  Aligned_cols=123  Identities=10%  Similarity=-0.087  Sum_probs=90.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      +...|..+-..+.+.|++++|+..|++..+..                       .-+...|..+-..|.+.|++++|+.
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-----------------------p~~~~~~~~l~~~~~~~g~~~~A~~   66 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-----------------------PANPIYLSNRAAAYSASGQHEKAAE   66 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-----------------------TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----------------------CcCHHHHHHHHHHHHHccCHHHHHH
Confidence            46778888899999999999999999887632                       1256788888899999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHH
Q 041786          143 FLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCN  222 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~  222 (260)
                      .|++..+.                     .|+                     +...|..+-..|...|++++|...|++
T Consensus        67 ~~~~al~~---------------------~p~---------------------~~~~~~~lg~~~~~~g~~~~A~~~~~~  104 (164)
T 3sz7_A           67 DAELATVV---------------------DPK---------------------YSKAWSRLGLARFDMADYKGAKEAYEK  104 (164)
T ss_dssp             HHHHHHHH---------------------CTT---------------------CHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHh---------------------CCC---------------------CHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            99987752                     122                     245566677788888999999999998


Q ss_pred             HHHCCCCcCCCc----ccHHHHHHHHHHHHhcCC
Q 041786          223 LVEDGHKLFPSL----GQFDDAFCFFSEMQIKTH  252 (260)
Q Consensus       223 m~~~~~~p~~~~----g~~~~a~~~~~~m~~~g~  252 (260)
                      ..+..  |+...    ..+..+..-+.+......
T Consensus       105 al~~~--p~~~~~~~~~~l~~~~~~~~~~~~~~~  136 (164)
T 3sz7_A          105 GIEAE--GNGGSDAMKRGLETTKRKIEEANRGAE  136 (164)
T ss_dssp             HHHHH--SSSCCHHHHHHHHHHHHHHHHHHHCSS
T ss_pred             HHHhC--CCchHHHHHHHHHHHHHHHHHHHhccC
Confidence            87643  33332    334445555555554433

>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=97.31  E-value=0.0033  Score=45.61  Aligned_cols=148  Identities=13%  Similarity=0.089  Sum_probs=95.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHH
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFL  144 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~  144 (260)
                      .+..+...+.+.|++++|...|++..+.                        .| +...+..+-..+.+.|++++|+..|
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~------------------------~P~~~~a~~~la~~~~~~g~~~~A~~~~   63 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDE------------------------LQSRGDVKLAKADCLLETKQFELAQELL   63 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHH------------------------HHTSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH------------------------CCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3556667888999999999999987752                        23 4667888888999999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHH---HHHHCCCCCChhchHHHHHHHHhcCCCCCCc-chHHHHHHHHhhhhhccHHHHHHHH
Q 041786          145 QELSDKGFNPPVRSAKQMVN---KMIKQGSVPDLETFNSLIETICKSGELGLCA-DVNTNKISIPAVSKEFMIDEAFRLL  220 (260)
Q Consensus       145 ~~m~~~~~~~~~~~a~~l~~---~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~  220 (260)
                      +......  |+.. ...+..   .....+...-...+...+.         ..| +...+..+-..+...|++++|...|
T Consensus        64 ~~a~~~~--p~~~-~~~~~~~~~~~~~~~~~~a~~~~~~al~---------~~P~~~~~~~~la~~~~~~g~~~~A~~~~  131 (176)
T 2r5s_A           64 ATIPLEY--QDNS-YKSLIAKLELHQQAAESPELKRLEQELA---------ANPDNFELACELAVQYNQVGRDEEALELL  131 (176)
T ss_dssp             TTCCGGG--CCHH-HHHHHHHHHHHHHHTSCHHHHHHHHHHH---------HSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHhhhcc--CChH-HHHHHHHHHHHhhcccchHHHHHHHHHH---------hCCCCHHHHHHHHHHHHHcccHHHHHHHH
Confidence            8765432  2211 111111   1111111100111211111         234 4677888888999999999999999


Q ss_pred             HHHHHCCCCcCC-Cc-----------ccHHHHHHHHHHHHh
Q 041786          221 CNLVEDGHKLFP-SL-----------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       221 ~~m~~~~~~p~~-~~-----------g~~~~a~~~~~~m~~  249 (260)
                      ++..+..-.+.. ..           |+.++|...|++...
T Consensus       132 ~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          132 WNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHHH
Confidence            998876533221 11           888888888876543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=97.27  E-value=0.0046  Score=48.87  Aligned_cols=151  Identities=9%  Similarity=0.089  Sum_probs=94.4

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHH
Q 041786           62 VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREA  140 (260)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a  140 (260)
                      .+...+..+-..+.+.|++++|...|++..+.                        .| +...+..+-..+.+.|++++|
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~------------------------~P~~~~a~~~la~~~~~~g~~~~A  170 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQL------------------------SNQNGEIGLLLAETLIALNRSEDA  170 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------TTSCHHHHHHHHHHHHHTTCHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh------------------------CCcchhHHHHHHHHHHHCCCHHHH
Confidence            34566777888899999999999999988763                        24 456778888899999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHH--HHHHHHCCCCCChhchHHHHHHHHhcCCCCCCc-chHHHHHHHHhhhhhccHHHHH
Q 041786          141 QEFLQELSDKGFNPPVRSAKQM--VNKMIKQGSVPDLETFNSLIETICKSGELGLCA-DVNTNKISIPAVSKEFMIDEAF  217 (260)
Q Consensus       141 ~~~~~~m~~~~~~~~~~~a~~l--~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~-~~~t~~~li~~~~~~g~~~~a~  217 (260)
                      ...+++.....  |+.......  ..........+....|...+.         ..| +...+..+-..|...|+.++|.
T Consensus       171 ~~~l~~~~~~~--p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~---------~~P~~~~~~~~la~~l~~~g~~~~A~  239 (287)
T 3qou_A          171 EAVLXTIPLQD--QDTRYQGLVAQIELLXQAADTPEIQQLQQQVA---------ENPEDAALATQLALQLHQVGRNEEAL  239 (287)
T ss_dssp             HHHHTTSCGGG--CSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHH---------HCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHhCchhh--cchHHHHHHHHHHHHhhcccCccHHHHHHHHh---------cCCccHHHHHHHHHHHHHcccHHHHH
Confidence            99998765432  222210000  000011111111111111111         123 4667788888899999999999


Q ss_pred             HHHHHHHHCCCCcCCCc------------ccHHHHHHHHHHH
Q 041786          218 RLLCNLVEDGHKLFPSL------------GQFDDAFCFFSEM  247 (260)
Q Consensus       218 ~~~~~m~~~~~~p~~~~------------g~~~~a~~~~~~m  247 (260)
                      ..|+++.+..-......            |+.++|...+++-
T Consensus       240 ~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~a  281 (287)
T 3qou_A          240 ELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASXYRRQ  281 (287)
T ss_dssp             HHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            99999887642211111            6667776666543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=97.26  E-value=0.002  Score=52.78  Aligned_cols=54  Identities=7%  Similarity=-0.245  Sum_probs=39.8

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVF----PQTLSLIIEEFGKHGLIDNAVEVFNKCTA   92 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (260)
                      .+...+...+|.+.|+...+.+. .+    ...|..+-..|...|++++|...|++...
T Consensus        18 ~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~   75 (406)
T 3sf4_A           18 RLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLT   75 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            34445566688888888765532 12    35788888999999999999999988654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.25  E-value=0.0099  Score=40.08  Aligned_cols=101  Identities=10%  Similarity=-0.013  Sum_probs=78.6

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHH
Q 041786           61 SVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREA  140 (260)
Q Consensus        61 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a  140 (260)
                      ..+...|..+...+.+.|++++|...|++..+..                       ..+...+..+-..|...|++++|
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-----------------------~~~~~~~~~la~~~~~~~~~~~A   69 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-----------------------PKDAKLYSNRAACYTKLLEFQLA   69 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-----------------------TTCHHHHHHHHHHHTTTTCHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-----------------------CCcHHHHHHHHHHHHHhccHHHH
Confidence            3457788889999999999999999999877521                       12567788888899999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHH
Q 041786          141 QEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLL  220 (260)
Q Consensus       141 ~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~  220 (260)
                      .+.|++..+.                     .|+                     +...+..+-..|.+.|++++|...|
T Consensus        70 ~~~~~~a~~~---------------------~~~---------------------~~~~~~~la~~~~~~~~~~~A~~~~  107 (133)
T 2lni_A           70 LKDCEECIQL---------------------EPT---------------------FIKGYTRKAAALEAMKDYTKAMDVY  107 (133)
T ss_dssp             HHHHHHHHHH---------------------CTT---------------------CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHh---------------------CCC---------------------chHHHHHHHHHHHHHhhHHHHHHHH
Confidence            9999887652                     121                     2345566667788888999999999


Q ss_pred             HHHHHC
Q 041786          221 CNLVED  226 (260)
Q Consensus       221 ~~m~~~  226 (260)
                      ++..+.
T Consensus       108 ~~~~~~  113 (133)
T 2lni_A          108 QKALDL  113 (133)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            888764

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.24  E-value=0.0071  Score=39.38  Aligned_cols=102  Identities=12%  Similarity=-0.002  Sum_probs=75.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      +...|..+...+.+.|++++|...|++..+..                       ..+...|..+-..+.+.|++++|.+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-----------------------~~~~~~~~~~a~~~~~~~~~~~A~~   61 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-----------------------PEESKYWLMKGKALYNLERYEEAVD   61 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-----------------------CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-----------------------cCCHHHHHHHHHHHHHccCHHHHHH
Confidence            34567777888889999999999999877532                       1245677778888889999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhh-ccHHHHHHHHH
Q 041786          143 FLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKE-FMIDEAFRLLC  221 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~-g~~~~a~~~~~  221 (260)
                      .|++..+.                     .|+                   ..+...+..+...+.+. |++++|.+.|+
T Consensus        62 ~~~~a~~~---------------------~~~-------------------~~~~~~~~~l~~~~~~~~~~~~~A~~~~~  101 (112)
T 2kck_A           62 CYNYVINV---------------------IED-------------------EYNKDVWAAKADALRYIEGKEVEAEIAEA  101 (112)
T ss_dssp             HHHHHHHT---------------------SCC-------------------TTCHHHHHHHHHHHTTCSSCSHHHHHHHH
T ss_pred             HHHHHHHh---------------------Ccc-------------------cchHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            98877752                     122                   01345566777778888 89999999998


Q ss_pred             HHHHCC
Q 041786          222 NLVEDG  227 (260)
Q Consensus       222 ~m~~~~  227 (260)
                      ......
T Consensus       102 ~~~~~~  107 (112)
T 2kck_A          102 RAKLEH  107 (112)
T ss_dssp             HHGGGC
T ss_pred             HHhhcc
Confidence            887654

>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=97.22  E-value=0.01  Score=41.82  Aligned_cols=99  Identities=14%  Similarity=-0.063  Sum_probs=77.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      +...+..+-..+.+.|++++|...|+......                       +.+...|..+-.+|.+.|++++|..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-----------------------p~~~~~~~~lg~~~~~~g~~~~A~~   76 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-----------------------HYDSRFFLGLGACRQAMGQYDLAIH   76 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-----------------------cccHHHHHHHHHHHHHHhhHHHHHH
Confidence            35667778889999999999999999887532                       1356777788888999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHH
Q 041786          143 FLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCN  222 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~  222 (260)
                      .|++....                     .|+                     +...|..+-.+|...|++++|...|+.
T Consensus        77 ~~~~al~l---------------------~p~---------------------~~~~~~~lg~~~~~~g~~~~A~~~~~~  114 (148)
T 2vgx_A           77 SYSYGAVM---------------------DIX---------------------EPRFPFHAAECLLQXGELAEAESGLFL  114 (148)
T ss_dssp             HHHHHHHH---------------------STT---------------------CTHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhc---------------------CCC---------------------CchHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99987752                     121                     234556666778888999999999998


Q ss_pred             HHHC
Q 041786          223 LVED  226 (260)
Q Consensus       223 m~~~  226 (260)
                      ..+.
T Consensus       115 al~~  118 (148)
T 2vgx_A          115 AQEL  118 (148)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8764

>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=97.20  E-value=0.016  Score=47.97  Aligned_cols=163  Identities=9%  Similarity=0.034  Sum_probs=99.7

Q ss_pred             CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCc-HHHHHHHHHHH--------------HHHHhCCCCC-CH
Q 041786           59 SLSVF-PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQC-VLLYNSLHVCF--------------VRMIRKGFVP-DK  121 (260)
Q Consensus        59 g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~--------------~~m~~~g~~p-~~  121 (260)
                      .+.|+ ...|+.+-..+.+.|++++|+..|++..+.+  |+ ...|+.+-.++              ++..+  +.| +.
T Consensus        91 ~~~p~~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~--P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~--l~P~~~  166 (382)
T 2h6f_A           91 IYSDKFRDVYDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIE--EQPKNY  166 (382)
T ss_dssp             CCCHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTCH
T ss_pred             hCChhhHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC--ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHH--HCCCCH
Confidence            33444 5678888889999999999999999998754  32 23333332222              11111  122 23


Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------
Q 041786          122 RTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------  190 (260)
Q Consensus       122 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------  190 (260)
                      ..|+.+-..+.+.|++++|+..|++..+                   .. .-+...|..+-..+.+.|+           
T Consensus       167 ~a~~~~g~~~~~~g~~~eAl~~~~kal~-------------------ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~a  226 (382)
T 2h6f_A          167 QVWHHRRVLVEWLRDPSQELEFIADILN-------------------QD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQL  226 (382)
T ss_dssp             HHHHHHHHHHHHHTCCTTHHHHHHHHHH-------------------HC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHH-------------------hC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            4455555555555555555555555443                   22 2256677777777777777           


Q ss_pred             CCCCc-chHHHHHHHHhhhh-hccHHHH-----HHHHHHHHHCCCCcCCCc------------c--cHHHHHHHHHHH
Q 041786          191 LGLCA-DVNTNKISIPAVSK-EFMIDEA-----FRLLCNLVEDGHKLFPSL------------G--QFDDAFCFFSEM  247 (260)
Q Consensus       191 ~~~~~-~~~t~~~li~~~~~-~g~~~~a-----~~~~~~m~~~~~~p~~~~------------g--~~~~a~~~~~~m  247 (260)
                      ....| +...|+.+-..+.+ .|..++|     ...|++....  .|+...            |  +.++|+..++++
T Consensus       227 l~l~P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~  302 (382)
T 2h6f_A          227 LKEDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL  302 (382)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH
T ss_pred             HHhCCCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHh
Confidence            22233 56778888888888 6665777     4677776653  343322            4  688899888887

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=97.19  E-value=0.0086  Score=47.34  Aligned_cols=151  Identities=13%  Similarity=-0.012  Sum_probs=99.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHhccCCHHHHHHHH
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPD-KRTHTILVNAWCSSGKMREAQEFL  144 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~  144 (260)
                      .|......|...|++++|...|++..+.                  ..+.|-.++ ..+|+.+-..|.+.|++++|+..|
T Consensus        39 ~~~~a~~~~~~~g~~~~A~~~~~~al~~------------------~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~  100 (292)
T 1qqe_A           39 LCVQAATIYRLRKELNLAGDSFLKAADY------------------QKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (292)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHH------------------HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH------------------HHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3444566788899999999999987652                  122232222 468888899999999999999998


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHCCCCC-ChhchHHHHHHHHhc-CC-----------------CCCCcc-hHHHHHHH
Q 041786          145 QELSDKGFNPPVRSAKQMVNKMIKQGSVP-DLETFNSLIETICKS-GE-----------------LGLCAD-VNTNKISI  204 (260)
Q Consensus       145 ~~m~~~~~~~~~~~a~~l~~~m~~~g~~p-~~~~~~~li~~~~~~-~~-----------------~~~~~~-~~t~~~li  204 (260)
                      ++..+            ++..   .|-.. -..+|+.+-..|... |+                 .+..+. ..+++.+-
T Consensus       101 ~~Al~------------l~~~---~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg  165 (292)
T 1qqe_A          101 ENAIQ------------IFTH---RGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCA  165 (292)
T ss_dssp             HHHHH------------HHHH---TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHH------------HHHH---cCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHH
Confidence            86543            2211   11110 123556666666664 66                 111111 35678888


Q ss_pred             HhhhhhccHHHHHHHHHHHHHCCCCcCCC------c-----------ccHHHHHHHHHHHHh
Q 041786          205 PAVSKEFMIDEAFRLLCNLVEDGHKLFPS------L-----------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       205 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~------~-----------g~~~~a~~~~~~m~~  249 (260)
                      ..|.+.|++++|...|++..+........      .           |++++|...|++...
T Consensus       166 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  227 (292)
T 1qqe_A          166 DLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS  227 (292)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            88999999999999999988764332211      1           889999998887663

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=97.19  E-value=0.0097  Score=42.26  Aligned_cols=101  Identities=9%  Similarity=-0.057  Sum_probs=80.8

Q ss_pred             CCC-HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHH
Q 041786           61 SVF-PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMR  138 (260)
Q Consensus        61 ~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~  138 (260)
                      .|+ ...+..+-..+.+.|++++|+..|+.....                        .| +...|..+-.+|.+.|+++
T Consensus        32 ~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~------------------------~P~~~~~~~~lg~~~~~~g~~~   87 (151)
T 3gyz_A           32 PDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY------------------------DFYNVDYIMGLAAIYQIKEQFQ   87 (151)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------------------------CCCCHHHHHHHHHHHHHHccHH
Confidence            443 567778888999999999999999998863                        24 5678888889999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHH
Q 041786          139 EAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFR  218 (260)
Q Consensus       139 ~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~  218 (260)
                      +|...|++..+.                     .|+                     +...|..+-.+|.+.|++++|..
T Consensus        88 ~Ai~~~~~al~l---------------------~P~---------------------~~~~~~~lg~~~~~lg~~~eA~~  125 (151)
T 3gyz_A           88 QAADLYAVAFAL---------------------GKN---------------------DYTPVFHTGQCQLRLKAPLKAKE  125 (151)
T ss_dssp             HHHHHHHHHHHH---------------------SSS---------------------CCHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhh---------------------CCC---------------------CcHHHHHHHHHHHHcCCHHHHHH
Confidence            999999988762                     222                     34456667778888899999999


Q ss_pred             HHHHHHHCC
Q 041786          219 LLCNLVEDG  227 (260)
Q Consensus       219 ~~~~m~~~~  227 (260)
                      .|+...+..
T Consensus       126 ~~~~al~l~  134 (151)
T 3gyz_A          126 CFELVIQHS  134 (151)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhC
Confidence            999988754

>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=97.17  E-value=0.0083  Score=52.17  Aligned_cols=87  Identities=8%  Similarity=-0.043  Sum_probs=44.0

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCC
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFV  118 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~  118 (260)
                      +...+...+|.+.+++..+.. +-+...|..+-..|.+.|++++|.+.|++..+..                       .
T Consensus        33 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-----------------------p   88 (568)
T 2vsy_A           33 ELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLLQQASDAA-----------------------P   88 (568)
T ss_dssp             HHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------T
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-----------------------C
Confidence            333444445555555543332 1134445555555555555555555555544311                       1


Q ss_pred             CCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          119 PDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       119 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      -+...+..+-..|.+.|++++|.+.|++..+
T Consensus        89 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  119 (568)
T 2vsy_A           89 EHPGIALWLGHALEDAGQAEAAAAAYTRAHQ  119 (568)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1345556666666666666666666665543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.16  E-value=0.018  Score=39.59  Aligned_cols=100  Identities=16%  Similarity=0.007  Sum_probs=78.9

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCC----HhhHHHHHHHHhccCCH
Q 041786           62 VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPD----KRTHTILVNAWCSSGKM  137 (260)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~----~~~~~~li~~~~~~g~~  137 (260)
                      .+...+..+...+.+.|++++|...|++..+.                        .|+    ...|..+-..|.+.|++
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~------------------------~~~~~~~~~~~~~~a~~~~~~~~~   81 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGL------------------------DATPQDQAVLHRNRAACHLKLEDY   81 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS------------------------CCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH------------------------cccchHHHHHHHHHHHHHHHHccH
Confidence            35788889999999999999999999987752                        355    56777888889999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHH
Q 041786          138 REAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAF  217 (260)
Q Consensus       138 ~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~  217 (260)
                      ++|.+.+++..+.                     .|+                     +...|..+-..|...|++++|.
T Consensus        82 ~~A~~~~~~~~~~---------------------~~~---------------------~~~~~~~~a~~~~~~~~~~~A~  119 (148)
T 2dba_A           82 DKAETEASKAIEK---------------------DGG---------------------DVKALYRRSQALEKLGRLDQAV  119 (148)
T ss_dssp             HHHHHHHHHHHHH---------------------TSC---------------------CHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhh---------------------Ccc---------------------CHHHHHHHHHHHHHcCCHHHHH
Confidence            9999999877652                     121                     2344556667788889999999


Q ss_pred             HHHHHHHHCC
Q 041786          218 RLLCNLVEDG  227 (260)
Q Consensus       218 ~~~~~m~~~~  227 (260)
                      ..|++..+..
T Consensus       120 ~~~~~al~~~  129 (148)
T 2dba_A          120 LDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHcC
Confidence            9999887653

>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=97.15  E-value=0.024  Score=39.81  Aligned_cols=63  Identities=11%  Similarity=0.032  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      ...|..+-..+.+.|++++|...|++..+..                       +.+...+..+-..+.+.|++++|.+.
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-----------------------~~~~~~~~~~a~~~~~~~~~~~A~~~   69 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-----------------------PSNAIYYGNRSLAYLRTECYGYALGD   69 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-----------------------TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-----------------------CCChHHHHHHHHHHHHcCCHHHHHHH
Confidence            4567777788889999999999999877532                       12456667777777888888888888


Q ss_pred             HHHHHh
Q 041786          144 LQELSD  149 (260)
Q Consensus       144 ~~~m~~  149 (260)
                      |++..+
T Consensus        70 ~~~a~~   75 (166)
T 1a17_A           70 ATRAIE   75 (166)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776654

>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=97.14  E-value=0.013  Score=55.95  Aligned_cols=153  Identities=10%  Similarity=0.058  Sum_probs=73.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH------HHHHhCCCCCCHhhHHHHHHHHhccCC
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF------VRMIRKGFVPDKRTHTILVNAWCSSGK  136 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~------~~m~~~g~~p~~~~~~~li~~~~~~g~  136 (260)
                      |...|.-++..|.+.|++++|.+.|...++..  +++...+.+..++      +.+..---.++...|..+=..|...|+
T Consensus      1133 D~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI~~~n~ad~~~iGd~le~eg~ 1210 (1630)
T 1xi4_A         1133 DPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFINGPNNAHIQQVGDRCYDEKM 1210 (1630)
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHHhCCCHHHHHHHHHHHHhcCC
Confidence            55566667777777777777777776555433  2221122233333      111111123444555555566666666


Q ss_pred             HHHHHHHHHHHHhCC-------CCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC--------CCCCcchHHHH
Q 041786          137 MREAQEFLQELSDKG-------FNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE--------LGLCADVNTNK  201 (260)
Q Consensus       137 ~~~a~~~~~~m~~~~-------~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~--------~~~~~~~~t~~  201 (260)
                      +++|..+|.......       ...+...|.+.++.-      -+..+|..+-.+|...|+        ..+..+...+.
T Consensus      1211 YeeA~~~Y~kA~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLe 1284 (1630)
T 1xi4_A         1211 YDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELE 1284 (1630)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHH
Confidence            666666666532100       001111222222211      234455544444444443        22333444555


Q ss_pred             HHHHhhhhhccHHHHHHHHHHH
Q 041786          202 ISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       202 ~li~~~~~~g~~~~a~~~~~~m  223 (260)
                      .++..|-+.|.+++|..+++.-
T Consensus      1285 eli~yYe~~G~feEAI~LlE~a 1306 (1630)
T 1xi4_A         1285 ELINYYQDRGYFEELITMLEAA 1306 (1630)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHH
Confidence            6666666777777777666443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=97.13  E-value=0.016  Score=48.73  Aligned_cols=102  Identities=16%  Similarity=0.162  Sum_probs=71.9

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCc-HHHHHHHHHHHHH--------------
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQC-VLLYNSLHVCFVR--------------  111 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~--------------  111 (260)
                      +|.+.+++..+.. +.+...+..+-..|.+.|++++|...|++..+..  |+ ..++..+-.++..              
T Consensus       231 ~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~  307 (472)
T 4g1t_A          231 EGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI--PNNAYLHCQIGCCYRAKVFQVMNLRENGMY  307 (472)
T ss_dssp             HHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHC------
T ss_pred             HHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC--CChHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            7888887765442 2457788999999999999999999999988754  43 4455544433300              


Q ss_pred             ---------------HHh-CCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 041786          112 ---------------MIR-KGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKG  151 (260)
Q Consensus       112 ---------------m~~-~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  151 (260)
                                     ..+ ....| +...+..+-..|.+.|++++|++.|++..+..
T Consensus       308 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~  364 (472)
T 4g1t_A          308 GKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKE  364 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcC
Confidence                           000 01223 45677888899999999999999999887654

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=97.13  E-value=0.0087  Score=49.07  Aligned_cols=193  Identities=10%  Similarity=-0.013  Sum_probs=107.8

Q ss_pred             hhhhcchHHHHHHHHhcccC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCC-Cc-----HHHHHHHHH
Q 041786           39 NLTLISELSMWKTIELMKPD----SLSV-FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQ-QC-----VLLYNSLHV  107 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~-----~~~~~~li~  107 (260)
                      +...+...+|.+.|+...+.    +-.+ ....|..+-..|...|++++|...+++..+.--. ++     ..+++.+-.
T Consensus       113 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~  192 (383)
T 3ulq_A          113 ELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFAT  192 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHH
Confidence            33445556888888876543    2122 3467888889999999999999999887753110 11     122222222


Q ss_pred             HH-------------HH----HHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC
Q 041786          108 CF-------------VR----MIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQ  169 (260)
Q Consensus       108 ~~-------------~~----m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~  169 (260)
                      ++             ++    ..+.+-.+ ...++..+-..|...|++++|.+.|++..+            ++.   +.
T Consensus       193 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~------------~~~---~~  257 (383)
T 3ulq_A          193 NFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIA------------VFE---ES  257 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH------------HHH---HT
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH------------HHH---hh
Confidence            22             11    11111111 113555666666677777777776665443            111   11


Q ss_pred             CC-CCChhchHHHHHHHHhcCC-----------------CCCCcchHHHHHHHHhhhhhcc---HHHHHHHHHHHHHCCC
Q 041786          170 GS-VPDLETFNSLIETICKSGE-----------------LGLCADVNTNKISIPAVSKEFM---IDEAFRLLCNLVEDGH  228 (260)
Q Consensus       170 g~-~p~~~~~~~li~~~~~~~~-----------------~~~~~~~~t~~~li~~~~~~g~---~~~a~~~~~~m~~~~~  228 (260)
                      +. .....++..+-..|.+.|+                 .+.......+..+-..|...|+   +++|..++++.   +.
T Consensus       258 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~  334 (383)
T 3ulq_A          258 NILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---ML  334 (383)
T ss_dssp             TCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TC
T ss_pred             ccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cC
Confidence            22 1224456666677777776                 1111222335666677777787   66666666554   32


Q ss_pred             CcCCCc------------ccHHHHHHHHHHHHh
Q 041786          229 KLFPSL------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       229 ~p~~~~------------g~~~~a~~~~~~m~~  249 (260)
                      .|....            |++++|...|++...
T Consensus       335 ~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          335 YADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            222211            899999999887764

>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=97.12  E-value=0.037  Score=41.39  Aligned_cols=45  Identities=9%  Similarity=-0.062  Sum_probs=30.2

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcC
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFN   94 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   94 (260)
                      +|.+.|....+.|   +...+..|-..|...+++++|+..|++..+.|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g   48 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG   48 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC
Confidence            3455565555543   56667777777777788888888888776543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.12  E-value=0.014  Score=40.45  Aligned_cols=98  Identities=13%  Similarity=-0.089  Sum_probs=75.6

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      ...+..+-..+.+.|++++|...|+......                       +.+...|..+-.+|.+.|++++|...
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-----------------------p~~~~~~~~lg~~~~~~g~~~~A~~~   74 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLD-----------------------HYDARYFLGLGACRQSLGLYEQALQS   74 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-----------------------CccHHHHHHHHHHHHHHhhHHHHHHH
Confidence            4556667788899999999999999887632                       12566777888889999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          144 LQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       144 ~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                      |+.....                     .|+                     +...|..+-.+|...|++++|...|+..
T Consensus        75 ~~~al~~---------------------~p~---------------------~~~~~~~lg~~~~~~g~~~~A~~~~~~a  112 (142)
T 2xcb_A           75 YSYGALM---------------------DIN---------------------EPRFPFHAAECHLQLGDLDGAESGFYSA  112 (142)
T ss_dssp             HHHHHHH---------------------CTT---------------------CTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhc---------------------CCC---------------------CcHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9987752                     121                     2344556667788889999999999988


Q ss_pred             HHC
Q 041786          224 VED  226 (260)
Q Consensus       224 ~~~  226 (260)
                      .+.
T Consensus       113 l~~  115 (142)
T 2xcb_A          113 RAL  115 (142)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            764

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.08  E-value=0.017  Score=42.32  Aligned_cols=85  Identities=9%  Similarity=-0.001  Sum_probs=59.8

Q ss_pred             HHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhH
Q 041786           46 LSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTH  124 (260)
Q Consensus        46 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~  124 (260)
                      .+|.++++.+... .......+..+-..|...|++++|...|++..+.                  ..+.+..| ....+
T Consensus         9 ~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~------------------~~~~~~~~~~~~~~   69 (203)
T 3gw4_A            9 ALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQ------------------AQKSGDHTAEHRAL   69 (203)
T ss_dssp             HHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------HHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH------------------HHHcCCcHHHHHHH
Confidence            3566633333221 1235678888999999999999999999987752                  22233333 34567


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          125 TILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       125 ~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      ..+-..|...|++++|.+.+++...
T Consensus        70 ~~l~~~~~~~g~~~~A~~~~~~al~   94 (203)
T 3gw4_A           70 HQVGMVERMAGNWDAARRCFLEERE   94 (203)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7788889999999999999986553

>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=97.07  E-value=0.016  Score=37.87  Aligned_cols=100  Identities=16%  Similarity=0.048  Sum_probs=77.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      ....|..+...+...|++++|...|+......                       +.+...+..+-..+.+.|++++|..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-----------------------~~~~~~~~~~a~~~~~~~~~~~A~~   59 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-----------------------PHNHVLYSNRSAAYAKKGDYQKAYE   59 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-----------------------CCcHHHHHHHHHHHHhhccHHHHHH
Confidence            35677888889999999999999999887532                       1256677788888999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHH
Q 041786          143 FLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCN  222 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~  222 (260)
                      .+++..+.                     .|+                     +...+..+...+...|++++|...|++
T Consensus        60 ~~~~~~~~---------------------~~~---------------------~~~~~~~~a~~~~~~~~~~~A~~~~~~   97 (118)
T 1elw_A           60 DGCKTVDL---------------------KPD---------------------WGKGYSRKAAALEFLNRFEEAKRTYEE   97 (118)
T ss_dssp             HHHHHHHH---------------------CTT---------------------CHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHh---------------------Ccc---------------------cHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            99877652                     121                     234566667778888999999999998


Q ss_pred             HHHCC
Q 041786          223 LVEDG  227 (260)
Q Consensus       223 m~~~~  227 (260)
                      ..+.+
T Consensus        98 ~~~~~  102 (118)
T 1elw_A           98 GLKHE  102 (118)
T ss_dssp             HHTTC
T ss_pred             HHHcC
Confidence            87643

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=97.06  E-value=0.078  Score=44.43  Aligned_cols=16  Identities=25%  Similarity=0.451  Sum_probs=10.9

Q ss_pred             ccHHHHHHHHHHHHhc
Q 041786          235 GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       235 g~~~~a~~~~~~m~~~  250 (260)
                      |++++|+..|++....
T Consensus       348 ~~~~~A~~~~~kaL~~  363 (472)
T 4g1t_A          348 DQYEEAEYYFQKEFSK  363 (472)
T ss_dssp             TCHHHHHHHHHHHHHS
T ss_pred             ccHHHHHHHHHHHHhc
Confidence            7777777777766544

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=97.05  E-value=0.032  Score=42.05  Aligned_cols=158  Identities=11%  Similarity=0.032  Sum_probs=89.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~  141 (260)
                      +...+-.+...+.+.|++++|+..|+++.+..                     .-.| ....+..+-.+|.+.|++++|+
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~---------------------p~~~~~~~a~~~lg~~~~~~~~~~~A~   61 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRY---------------------PFGPYSQQVQLDLIYAYYKNADLPLAQ   61 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---------------------TTSTTHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---------------------CCChHHHHHHHHHHHHHHhcCCHHHHH
Confidence            34455556667788888888888888877521                     0011 1235556677778888888888


Q ss_pred             HHHHHHHhCCC-CCC-----------------------------------HHHHHHHHHHHHHCCCCCChh-chHHHHHH
Q 041786          142 EFLQELSDKGF-NPP-----------------------------------VRSAKQMVNKMIKQGSVPDLE-TFNSLIET  184 (260)
Q Consensus       142 ~~~~~m~~~~~-~~~-----------------------------------~~~a~~l~~~m~~~g~~p~~~-~~~~li~~  184 (260)
                      ..|++..+..- .+.                                   ..+|...|+...+.-  |+.. .+.+....
T Consensus        62 ~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l  139 (225)
T 2yhc_A           62 AAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRL  139 (225)
T ss_dssp             HHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHH
T ss_pred             HHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHH
Confidence            88887665321 121                                   113333333333221  2211 11110000


Q ss_pred             HHhcCCCCCCcc-hHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc---------------ccHHHHHHHHHHHH
Q 041786          185 ICKSGELGLCAD-VNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL---------------GQFDDAFCFFSEMQ  248 (260)
Q Consensus       185 ~~~~~~~~~~~~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~---------------g~~~~a~~~~~~m~  248 (260)
                       ....     .. ....-.+-..|.+.|++++|...|+++.+..  |+...               |+.++|...++.+.
T Consensus       140 -~~~~-----~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~  211 (225)
T 2yhc_A          140 -VFLK-----DRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDY--PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIA  211 (225)
T ss_dssp             -HHHH-----HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             -HHHH-----HHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence             0000     00 0011234456888999999999999988753  33221               99999999999888


Q ss_pred             hcC
Q 041786          249 IKT  251 (260)
Q Consensus       249 ~~g  251 (260)
                      ..+
T Consensus       212 ~~~  214 (225)
T 2yhc_A          212 ANS  214 (225)
T ss_dssp             HCC
T ss_pred             hhC
Confidence            764

>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=97.05  E-value=0.028  Score=40.52  Aligned_cols=142  Identities=11%  Similarity=-0.049  Sum_probs=93.1

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHH--H------
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVC--F------  109 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~--~------  109 (260)
                      .+...+...+|...|+...+.. +-+...|..+-..+.+.|++++|+..|+......  |+...+..+...  .      
T Consensus        15 ~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~   91 (176)
T 2r5s_A           15 ELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQQAAES   91 (176)
T ss_dssp             HHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHhhcccc
Confidence            3445556668999998876542 1256788899999999999999999999987643  333322221111  0      


Q ss_pred             ------HHHHhCCCCCC-HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHH
Q 041786          110 ------VRMIRKGFVPD-KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLI  182 (260)
Q Consensus       110 ------~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li  182 (260)
                            ++..  ...|+ ...+..+-..+.+.|++++|...|++..+.                     .|+.       
T Consensus        92 ~a~~~~~~al--~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~---------------------~p~~-------  141 (176)
T 2r5s_A           92 PELKRLEQEL--AANPDNFELACELAVQYNQVGRDEEALELLWNILKV---------------------NLGA-------  141 (176)
T ss_dssp             HHHHHHHHHH--HHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT---------------------CTTT-------
T ss_pred             hHHHHHHHHH--HhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHh---------------------Cccc-------
Confidence                  1111  12453 677778888888999999999998887753                     2221       


Q ss_pred             HHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHH
Q 041786          183 ETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLV  224 (260)
Q Consensus       183 ~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~  224 (260)
                                  .+...+..+...+...|+.++|...|++..
T Consensus       142 ------------~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A          142 ------------QDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             ------------TTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             ------------ChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence                        123345566667777778888887777654

>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=97.04  E-value=0.03  Score=38.05  Aligned_cols=100  Identities=11%  Similarity=-0.126  Sum_probs=79.0

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHH
Q 041786           62 VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  141 (260)
                      .+...|..+-..+.+.|++++|...|+......                       +.+...|..+-..|.+.|++++|.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-----------------------~~~~~~~~~l~~~~~~~~~~~~A~   63 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-----------------------PLVAVYYTNRALCYLKMQQPEQAL   63 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-----------------------cCcHHHHHHHHHHHHHhcCHHHHH
Confidence            467888899999999999999999999877632                       124677888888999999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHH
Q 041786          142 EFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLC  221 (260)
Q Consensus       142 ~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~  221 (260)
                      ..|+...+.                     .|+                     +...|..+-..|...|++++|...|+
T Consensus        64 ~~~~~al~~---------------------~p~---------------------~~~~~~~l~~~~~~~~~~~~A~~~~~  101 (137)
T 3q49_B           64 ADCRRALEL---------------------DGQ---------------------SVKAHFFLGQCQLEMESYDEAIANLQ  101 (137)
T ss_dssp             HHHHHHHHH---------------------CTT---------------------CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHh---------------------Cch---------------------hHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            999877652                     121                     34456667778888899999999998


Q ss_pred             HHHHC
Q 041786          222 NLVED  226 (260)
Q Consensus       222 ~m~~~  226 (260)
                      +..+.
T Consensus       102 ~a~~~  106 (137)
T 3q49_B          102 RAYSL  106 (137)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            88754

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=97.04  E-value=0.043  Score=42.20  Aligned_cols=92  Identities=8%  Similarity=-0.056  Sum_probs=63.6

Q ss_pred             hhhhcchHHHHHHHHhcccCCCC-CC-HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCC
Q 041786           39 NLTLISELSMWKTIELMKPDSLS-VF-PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKG  116 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~-~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g  116 (260)
                      +...+...+|.+.|+...+.... |. ...+..+-..|.+.|++++|+..|+...+..  |+                  
T Consensus        25 ~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--p~------------------   84 (261)
T 3qky_A           25 FYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIY--QI------------------   84 (261)
T ss_dssp             HHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT------------------
T ss_pred             HHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHC--CC------------------
Confidence            44455666899999988765311 11 5678888889999999999999999888642  10                  


Q ss_pred             CCCCHhhHHHHHHHHhc--------cCCHHHHHHHHHHHHhC
Q 041786          117 FVPDKRTHTILVNAWCS--------SGKMREAQEFLQELSDK  150 (260)
Q Consensus       117 ~~p~~~~~~~li~~~~~--------~g~~~~a~~~~~~m~~~  150 (260)
                      -......+..+-.++.+        .|++++|...|++..+.
T Consensus        85 ~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~  126 (261)
T 3qky_A           85 DPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR  126 (261)
T ss_dssp             CTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH
Confidence            00112334445555556        89999999999988764

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.03  E-value=0.069  Score=43.31  Aligned_cols=177  Identities=10%  Similarity=-0.058  Sum_probs=101.6

Q ss_pred             hhhcchHHHHHHHHhcccCCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhC
Q 041786           40 LTLISELSMWKTIELMKPDSLSVFP----QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRK  115 (260)
Q Consensus        40 ~~~~~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~  115 (260)
                      ...+....|.+.++......-..+.    ..++.+-..+...|++++|...+++....                  ..+.
T Consensus        25 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~------------------~~~~   86 (373)
T 1hz4_A           25 INDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQM------------------ARQH   86 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH------------------HHHT
T ss_pred             HHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH------------------HHhc
Confidence            3445555788887775443212222    24566677888899999999999987752                  1122


Q ss_pred             CCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCC--CC-hhchHHHHHHHHhcCC-
Q 041786          116 GFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSV--PD-LETFNSLIETICKSGE-  190 (260)
Q Consensus       116 g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~--p~-~~~~~~li~~~~~~~~-  190 (260)
                      |... ....+..+-..+...|++++|.+.+++....            ..   +.+..  |. ...+..+-..+...|+ 
T Consensus        87 ~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~------------~~---~~~~~~~~~~~~~~~~la~~~~~~g~~  151 (373)
T 1hz4_A           87 DVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQL------------IN---EQHLEQLPMHEFLVRIRAQLLWAWARL  151 (373)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------HH---HTTCTTSTHHHHHHHHHHHHHHHTTCH
T ss_pred             CcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH------------HH---HhccccCcHHHHHHHHHHHHHHHhcCH
Confidence            2111 1234566777888999999999999876542            11   11111  11 2233444455555555 


Q ss_pred             --------------C--CCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCC-----------------cccH
Q 041786          191 --------------L--GLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPS-----------------LGQF  237 (260)
Q Consensus       191 --------------~--~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-----------------~g~~  237 (260)
                                    .  +.......|..+-..+...|++++|...+++.....-.+...                 .|+.
T Consensus       152 ~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~  231 (373)
T 1hz4_A          152 DEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDK  231 (373)
T ss_dssp             HHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCH
Confidence                          1  111123456666677777788888888777765431111110                 0777


Q ss_pred             HHHHHHHHHHHh
Q 041786          238 DDAFCFFSEMQI  249 (260)
Q Consensus       238 ~~a~~~~~~m~~  249 (260)
                      ++|...+++...
T Consensus       232 ~~A~~~~~~a~~  243 (373)
T 1hz4_A          232 AAAANWLRHTAK  243 (373)
T ss_dssp             HHHHHHHHHSCC
T ss_pred             HHHHHHHHhCCC
Confidence            777777766553

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=97.02  E-value=0.03  Score=38.14  Aligned_cols=98  Identities=9%  Similarity=-0.070  Sum_probs=76.9

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      ...|.-.=..|.+.|++++|++.|++..+..                       +.+...|..+-.+|.+.|++++|++.
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-----------------------p~~~~~~~~~~~~~~~~~~~~~A~~~   69 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-----------------------PENAILYSNRAACLTKLMEFQRALDD   69 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----------------------CCCHHHHHHHhhHHHhhccHHHHHHH
Confidence            3566667788999999999999999887632                       13567888888999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          144 LQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       144 ~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                      |++..+.                     .|+                     +...|..+-.+|...|++++|...|++.
T Consensus        70 ~~~al~~---------------------~p~---------------------~~~a~~~lg~~~~~~~~~~~A~~~~~~a  107 (126)
T 4gco_A           70 CDTCIRL---------------------DSK---------------------FIKGYIRKAACLVAMREWSKAQRAYEDA  107 (126)
T ss_dssp             HHHHHHH---------------------CTT---------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHh---------------------hhh---------------------hhHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9977652                     121                     3445666777888889999999999988


Q ss_pred             HHC
Q 041786          224 VED  226 (260)
Q Consensus       224 ~~~  226 (260)
                      .+.
T Consensus       108 l~l  110 (126)
T 4gco_A          108 LQV  110 (126)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            774

>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=97.01  E-value=0.028  Score=53.75  Aligned_cols=175  Identities=13%  Similarity=0.061  Sum_probs=93.9

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH-----
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF-----  109 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-----  109 (260)
                      +-..+...+...+|..+|++..     -.....+.++.   ..+++++|.++.++..      +..+|..+-.++     
T Consensus      1055 IA~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G~ 1120 (1630)
T 1xi4_A         1055 IANIAISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGM 1120 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCCC
Confidence            4455555666667777777642     12222333332   5566777777777542      245555554433     


Q ss_pred             -HHHHhC-CCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC--HHHHHH-----HHHHHHHCCCCCChhchHH
Q 041786          110 -VRMIRK-GFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPP--VRSAKQ-----MVNKMIKQGSVPDLETFNS  180 (260)
Q Consensus       110 -~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~a~~-----l~~~m~~~g~~p~~~~~~~  180 (260)
                       ++-.+. --.-|...|..++.+|.+.|++++|.+.+...++..-.+.  ...+..     -++.+...--.|+...|..
T Consensus      1121 ~kEAIdsYiKAdD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~~Idt~LafaYAKl~rleele~fI~~~n~ad~~~ 1200 (1630)
T 1xi4_A         1121 VKEAIDSYIKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFINGPNNAHIQQ 1200 (1630)
T ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCHHHHHHHHhCCCHHHHHH
Confidence             111110 1124677788899999999999999999986555432211  111110     0111111112344455555


Q ss_pred             HHHHHHhcCC----CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          181 LIETICKSGE----LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       181 li~~~~~~~~----~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                      +-..|-..|+    ...--....|..+...|.+.|++++|.+.+++.
T Consensus      1201 iGd~le~eg~YeeA~~~Y~kA~ny~rLA~tLvkLge~q~AIEaarKA 1247 (1630)
T 1xi4_A         1201 VGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKA 1247 (1630)
T ss_pred             HHHHHHhcCCHHHHHHHHHhhhHHHHHHHHHHHhCCHHHHHHHHHHh
Confidence            5555555555    111111346777777777777777777777654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=96.99  E-value=0.013  Score=41.60  Aligned_cols=90  Identities=6%  Similarity=-0.152  Sum_probs=72.9

Q ss_pred             HhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCC
Q 041786           37 RLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKG  116 (260)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g  116 (260)
                      ..+...+...+|.+.|+...+.. +-+...|..+-.+|.+.|++++|+..|++..+.                       
T Consensus        44 ~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l-----------------------   99 (151)
T 3gyz_A           44 YDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFAL-----------------------   99 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhh-----------------------
Confidence            33455666669999999987653 236788999999999999999999999998863                       


Q ss_pred             CCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 041786          117 FVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKG  151 (260)
Q Consensus       117 ~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  151 (260)
                       .| +...|..+-.+|.+.|++++|...|++..+..
T Consensus       100 -~P~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          100 -GKNDYTPVFHTGQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             -SSSCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             -CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence             24 45678888899999999999999999887643

>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=96.99  E-value=0.017  Score=38.67  Aligned_cols=105  Identities=11%  Similarity=0.108  Sum_probs=78.5

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      ...|..+...+.+.|++++|...|++..+..                       +.+...+..+-..|.+.|++++|...
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-----------------------~~~~~~~~~la~~~~~~~~~~~A~~~   60 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-----------------------PTNMTYITNQAAVYFEKGDYNKCREL   60 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-----------------------CccHHHHHHHHHHHHHhccHHHHHHH
Confidence            4567888889999999999999999887532                       23566778888899999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCCCCCC-hhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHH
Q 041786          144 LQELSDKGFNPPVRSAKQMVNKMIKQGSVPD-LETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCN  222 (260)
Q Consensus       144 ~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~-~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~  222 (260)
                      +++.....                     |+ ...+..               ....|..+-..|.+.|++++|...|++
T Consensus        61 ~~~~~~~~---------------------~~~~~~~~~---------------~~~~~~~la~~~~~~~~~~~A~~~~~~  104 (131)
T 1elr_A           61 CEKAIEVG---------------------RENREDYRQ---------------IAKAYARIGNSYFKEEKYKDAIHFYNK  104 (131)
T ss_dssp             HHHHHHHH---------------------HHSTTCHHH---------------HHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHhhc---------------------cccchhHHH---------------HHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            99776521                     10 000000               134566777888899999999999999


Q ss_pred             HHHCC
Q 041786          223 LVEDG  227 (260)
Q Consensus       223 m~~~~  227 (260)
                      ..+..
T Consensus       105 ~~~~~  109 (131)
T 1elr_A          105 SLAEH  109 (131)
T ss_dssp             HHHHC
T ss_pred             HHHhC
Confidence            88754

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=96.97  E-value=0.044  Score=42.14  Aligned_cols=64  Identities=19%  Similarity=0.186  Sum_probs=52.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCC----HhhHHHHHHHHhccCCHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPD----KRTHTILVNAWCSSGKMR  138 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~----~~~~~~li~~~~~~g~~~  138 (260)
                      +...+-.+-..+.+.|++++|+..|+++.+..                        |+    ...+..+-..|.+.|+++
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~------------------------p~~~~~~~a~~~lg~~~~~~~~~~   69 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG------------------------RTHEWAADAQFYLARAYYQNKEYL   69 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC------------------------SCSTTHHHHHHHHHHHHHHTTCHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC------------------------CCCcchHHHHHHHHHHHHHhCcHH
Confidence            56677778888999999999999999988632                        32    456677788899999999


Q ss_pred             HHHHHHHHHHhC
Q 041786          139 EAQEFLQELSDK  150 (260)
Q Consensus       139 ~a~~~~~~m~~~  150 (260)
                      +|...|++..+.
T Consensus        70 ~A~~~~~~~l~~   81 (261)
T 3qky_A           70 LAASEYERFIQI   81 (261)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988764

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=96.96  E-value=0.034  Score=37.00  Aligned_cols=88  Identities=10%  Similarity=-0.016  Sum_probs=65.8

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      .+...+....|.+.++...+.. +.+...|..+...+...|++++|...++...+..                       
T Consensus        21 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-----------------------   76 (131)
T 2vyi_A           21 EQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-----------------------   76 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------
T ss_pred             HHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-----------------------
Confidence            3444455557888887765442 2357788888888999999999999998877531                       


Q ss_pred             CCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          118 VPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       118 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      ..+...+..+-..|.+.|++++|...|++..+
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  108 (131)
T 2vyi_A           77 PAYSKAYGRMGLALSSLNKHVEAVAYYKKALE  108 (131)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Confidence            12466778888899999999999999998765

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=96.94  E-value=0.024  Score=44.71  Aligned_cols=148  Identities=13%  Similarity=-0.075  Sum_probs=97.7

Q ss_pred             HHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHH-H--
Q 041786           33 RTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVC-F--  109 (260)
Q Consensus        33 ~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~--  109 (260)
                      ..+-..+...+...+|.+.|+...+.. +-+...+..+...+.+.|++++|...|+......  |+.......... +  
T Consensus       121 ~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~~~~l~~  197 (287)
T 3qou_A          121 AQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVAQIELLX  197 (287)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHHHHHHHh
Confidence            334444556677779999999876543 1257788999999999999999999999987653  444322222211 1  


Q ss_pred             --------HHHHh-CCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchH
Q 041786          110 --------VRMIR-KGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFN  179 (260)
Q Consensus       110 --------~~m~~-~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~  179 (260)
                              ....+ ....| +...+..+-..+...|++++|.+.|.+..+.                     .|+.    
T Consensus       198 ~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~---------------------~p~~----  252 (287)
T 3qou_A          198 QAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRX---------------------DLTA----  252 (287)
T ss_dssp             HHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------------CTTG----
T ss_pred             hcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc---------------------cccc----
Confidence                    11111 11234 4677788888899999999999999987763                     2221    


Q ss_pred             HHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          180 SLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       180 ~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                                     .+...+..+...|...|+.++|...|++-
T Consensus       253 ---------------~~~~a~~~l~~~~~~~g~~~~a~~~~r~a  281 (287)
T 3qou_A          253 ---------------ADGQTRXTFQEILAALGTGDALASXYRRQ  281 (287)
T ss_dssp             ---------------GGGHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             ---------------ccchHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence                           12445666666677777777777776654

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=96.93  E-value=0.0076  Score=49.31  Aligned_cols=204  Identities=12%  Similarity=-0.005  Sum_probs=118.4

Q ss_pred             chhHHHHHhhhhhcchHHHHHHHHhcc----cCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcC----CCCc-H
Q 041786           30 YAERTLNRLNLTLISELSMWKTIELMK----PDSLSV-FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFN----CQQC-V   99 (260)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~a~~~~~~m~----~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~~~-~   99 (260)
                      .....+-..+...+...+|.+.++...    ..+-.| ....|..+-..|...|++++|...|++..+..    -.+. .
T Consensus        48 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  127 (406)
T 3sf4_A           48 AIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEA  127 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchH
Confidence            466666666666677666666665531    223222 38888888888888888888888887766431    1111 1


Q ss_pred             HHHHHHHHHH----H---------------------------------HHHhCCCCC-CHhhHHHHHHHHhccCCHHHHH
Q 041786          100 LLYNSLHVCF----V---------------------------------RMIRKGFVP-DKRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus       100 ~~~~~li~~~----~---------------------------------~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~  141 (260)
                      .++..+-.++    +                                 .....+-.| ....+..+-..|...|++++|.
T Consensus       128 ~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  207 (406)
T 3sf4_A          128 RALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAV  207 (406)
T ss_dssp             HHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHH
T ss_pred             HHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHH
Confidence            2333332221    0                                 011112122 2346777888889999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCCCC-CChhchHHHHHHHHhcCC-----------------CCCCc-chHHHHH
Q 041786          142 EFLQELSDKGFNPPVRSAKQMVNKMIKQGSV-PDLETFNSLIETICKSGE-----------------LGLCA-DVNTNKI  202 (260)
Q Consensus       142 ~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~-p~~~~~~~li~~~~~~~~-----------------~~~~~-~~~t~~~  202 (260)
                      +.|++..+.            ...   .+.. ....+|..+-..|...|+                 .+..+ ...++..
T Consensus       208 ~~~~~al~~------------~~~---~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  272 (406)
T 3sf4_A          208 IAHEQRLLI------------AKE---FGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYS  272 (406)
T ss_dssp             HHHHHHHHH------------HHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHH------------HHh---cCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHH
Confidence            998876532            111   1100 012255556666666665                 11111 1456777


Q ss_pred             HHHhhhhhccHHHHHHHHHHHHHCCCC----cCCCc------------ccHHHHHHHHHHHH
Q 041786          203 SIPAVSKEFMIDEAFRLLCNLVEDGHK----LFPSL------------GQFDDAFCFFSEMQ  248 (260)
Q Consensus       203 li~~~~~~g~~~~a~~~~~~m~~~~~~----p~~~~------------g~~~~a~~~~~~m~  248 (260)
                      +-..|...|++++|...|++..+....    +....            |++++|...+++..
T Consensus       273 la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  334 (406)
T 3sf4_A          273 LGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHL  334 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            778888888998888888877643211    11011            88888888887654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=96.92  E-value=0.073  Score=40.01  Aligned_cols=182  Identities=10%  Similarity=-0.044  Sum_probs=100.8

Q ss_pred             hhhhcchHHHHHHHHhcccCCC-CCC-HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcH--HHHHHHHHHHHHHHh
Q 041786           39 NLTLISELSMWKTIELMKPDSL-SVF-PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCV--LLYNSLHVCFVRMIR  114 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~-~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~li~~~~~m~~  114 (260)
                      +...+...+|.+.|+.+.+... .|. ...+..+..+|.+.|++++|+..|++..+..-....  ..+..+-.++..+-.
T Consensus        14 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~   93 (225)
T 2yhc_A           14 KLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDD   93 (225)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhh
Confidence            3445556689999998865421 222 467888889999999999999999999875421111  122222222222111


Q ss_pred             CCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC---
Q 041786          115 KGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGF-NPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE---  190 (260)
Q Consensus       115 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~---  190 (260)
                      .    ....|..+-..+...|+.++|...|++..+..- .+....+......+...    .......+-..|.+.|+   
T Consensus        94 ~----~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~----~~~~~~~~a~~~~~~~~~~~  165 (225)
T 2yhc_A           94 S----ALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRLVFLKDR----LAKYEYSVAEYYTERGAWVA  165 (225)
T ss_dssp             ------------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHTCHHH
T ss_pred             h----hhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHH----HHHHHHHHHHHHHHcCcHHH
Confidence            0    011122233344557899999999999886531 22222222222211110    00011233444555555   


Q ss_pred             --------CCCCcc----hHHHHHHHHhhhhhccHHHHHHHHHHHHHCCC
Q 041786          191 --------LGLCAD----VNTNKISIPAVSKEFMIDEAFRLLCNLVEDGH  228 (260)
Q Consensus       191 --------~~~~~~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~  228 (260)
                              ....|+    ...+..+..+|.+.|+.++|...++.+...+.
T Consensus       166 A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~  215 (225)
T 2yhc_A          166 VVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSS  215 (225)
T ss_dssp             HHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCS
T ss_pred             HHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence                    112232    35677888999999999999999999887653

>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=96.91  E-value=0.033  Score=37.48  Aligned_cols=98  Identities=16%  Similarity=0.006  Sum_probs=76.6

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      ...|..+-..+.+.|++++|+..|++..+..                       +.+...|..+-.+|.+.|++++|+..
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-----------------------p~~~~~~~~~a~~~~~~~~~~~A~~~   60 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-----------------------PEDARGYSNRAAALAKLMSFPEAIAD   60 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-----------------------CCChHHHHHHHHHHHHhcCHHHHHHH
Confidence            4567777888999999999999999887632                       12567888888999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          144 LQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       144 ~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                      |++..+.                     .|+                     +...|..+-..|...|++++|...|++.
T Consensus        61 ~~~al~~---------------------~p~---------------------~~~~~~~lg~~~~~~~~~~~A~~~~~~a   98 (126)
T 3upv_A           61 CNKAIEK---------------------DPN---------------------FVRAYIRKATAQIAVKEYASALETLDAA   98 (126)
T ss_dssp             HHHHHHH---------------------CTT---------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHh---------------------CCC---------------------cHHHHHHHHHHHHHHhCHHHHHHHHHHH
Confidence            9987752                     122                     2445666667788888999999999888


Q ss_pred             HHC
Q 041786          224 VED  226 (260)
Q Consensus       224 ~~~  226 (260)
                      .+.
T Consensus        99 l~~  101 (126)
T 3upv_A           99 RTK  101 (126)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            764

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=96.91  E-value=0.026  Score=36.53  Aligned_cols=94  Identities=12%  Similarity=-0.083  Sum_probs=71.5

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHh
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIR  114 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~  114 (260)
                      +-..+...+...+|.+.|+...+.. ..+...|..+-..+.+.|++++|...|++..+..  |                 
T Consensus        12 ~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~-----------------   71 (112)
T 2kck_A           12 EGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI--E-----------------   71 (112)
T ss_dssp             HHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--C-----------------
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--c-----------------
Confidence            3334445556668888888875543 2357788899999999999999999999887632  0                 


Q ss_pred             CCCCCCHhhHHHHHHHHhcc-CCHHHHHHHHHHHHhC
Q 041786          115 KGFVPDKRTHTILVNAWCSS-GKMREAQEFLQELSDK  150 (260)
Q Consensus       115 ~g~~p~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~  150 (260)
                        -..+...+..+-..|.+. |++++|.+.+......
T Consensus        72 --~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           72 --DEYNKDVWAAKADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             --CTTCHHHHHHHHHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             --ccchHHHHHHHHHHHHHHhCCHHHHHHHHHHHhhc
Confidence              011467888889999999 9999999999988764

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=96.90  E-value=0.032  Score=37.44  Aligned_cols=87  Identities=11%  Similarity=-0.062  Sum_probs=68.7

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCC
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFV  118 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~  118 (260)
                      +...+....|.+.|+...+.. +.+...|..+...|.+.|++++|+..|++..+..                       .
T Consensus        26 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-----------------------~   81 (133)
T 2lni_A           26 CFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-----------------------P   81 (133)
T ss_dssp             HHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-----------------------T
T ss_pred             HHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-----------------------C
Confidence            344455558888888876543 2367889999999999999999999999887632                       1


Q ss_pred             CCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          119 PDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       119 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      .+...+..+-..|.+.|++++|.+.|++..+
T Consensus        82 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           82 TFIKGYTRKAAALEAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            2467788888899999999999999998765

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=96.88  E-value=0.035  Score=36.94  Aligned_cols=99  Identities=16%  Similarity=-0.026  Sum_probs=77.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      +...|..+...+...|++++|...|++..+..                       ..+...+..+...+...|++++|.+
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-----------------------~~~~~~~~~~a~~~~~~~~~~~A~~   67 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-----------------------PANAVYFCNRAAAYSKLGNYAGAVQ   67 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-----------------------CCCHHHHHHHHHHHHHhhchHHHHH
Confidence            45678888899999999999999999877531                       1256778888889999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHH
Q 041786          143 FLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCN  222 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~  222 (260)
                      .++...+.                     .|+                     +...+..+-..|.+.|++++|...|++
T Consensus        68 ~~~~~~~~---------------------~~~---------------------~~~~~~~~~~~~~~~~~~~~A~~~~~~  105 (131)
T 2vyi_A           68 DCERAICI---------------------DPA---------------------YSKAYGRMGLALSSLNKHVEAVAYYKK  105 (131)
T ss_dssp             HHHHHHHH---------------------CTT---------------------CHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhc---------------------Ccc---------------------CHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            99877652                     121                     234455666778888899999999988


Q ss_pred             HHHC
Q 041786          223 LVED  226 (260)
Q Consensus       223 m~~~  226 (260)
                      ..+.
T Consensus       106 ~~~~  109 (131)
T 2vyi_A          106 ALEL  109 (131)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            8765

>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=96.84  E-value=0.016  Score=39.59  Aligned_cols=102  Identities=10%  Similarity=0.045  Sum_probs=75.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHH
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      ..+.-|=..+.+.|++++|+..|++..+.                        .| +...|+.+-.+|.+.|++++|++.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~------------------------~p~~~~~~~nlg~~~~~~~~~~~A~~~   64 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIEL------------------------DPSNITFYNNKAAVYFEEKKFAECVQF   64 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------CTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh------------------------CCCCHHHHHhHHHHHHHhhhHHHHHHH
Confidence            45566667889999999999999988763                        23 467788888999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCCCCC-ChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHH
Q 041786          144 LQELSDKGFNPPVRSAKQMVNKMIKQGSVP-DLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCN  222 (260)
Q Consensus       144 ~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p-~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~  222 (260)
                      |++..+.                     .| +...+..+..+               |..+-..+...|++++|...|++
T Consensus        65 ~~~al~~---------------------~~~~~~~~~~~a~~---------------~~~lg~~~~~~~~~~~A~~~~~k  108 (127)
T 4gcn_A           65 CEKAVEV---------------------GRETRADYKLIAKA---------------MSRAGNAFQKQNDLSLAVQWFHR  108 (127)
T ss_dssp             HHHHHHH---------------------HHHTTCCHHHHHHH---------------HHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHh---------------------CcccchhhHHHHHH---------------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            9876642                     11 12233333334               44444678889999999999988


Q ss_pred             HHHC
Q 041786          223 LVED  226 (260)
Q Consensus       223 m~~~  226 (260)
                      ....
T Consensus       109 al~~  112 (127)
T 4gcn_A          109 SLSE  112 (127)
T ss_dssp             HHHH
T ss_pred             HHhh
Confidence            7764

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=96.81  E-value=0.017  Score=45.56  Aligned_cols=27  Identities=26%  Similarity=0.336  Sum_probs=20.7

Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHH
Q 041786          122 RTHTILVNAWCSSGKMREAQEFLQELS  148 (260)
Q Consensus       122 ~~~~~li~~~~~~g~~~~a~~~~~~m~  148 (260)
                      ..+..+...|.+.|++++|...+++..
T Consensus       224 ~~~~~l~~~~~~~g~~~~A~~~~~~al  250 (338)
T 3ro2_A          224 RAYSNLGNAYIFLGEFETASEYYKKTL  250 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            366777778888888888888887654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=96.74  E-value=0.025  Score=48.69  Aligned_cols=147  Identities=9%  Similarity=-0.060  Sum_probs=85.9

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCc-HHHHHHHHHHHHH
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSVF--PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQC-VLLYNSLHVCFVR  111 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~  111 (260)
                      +..+....+....|.++|+...+.  .|+  ...|..+...+.+.|++++|+.+|+...+..  |+ ...|-        
T Consensus       327 ~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~--~~~~~~~~--------  394 (530)
T 2ooe_A          327 YADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA--RTRHHVYV--------  394 (530)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT--TCCTHHHH--------
T ss_pred             HHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc--CCchHHHH--------
Confidence            333444456666899999998764  444  3589999999999999999999999887632  11 11111        


Q ss_pred             HHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-
Q 041786          112 MIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-  190 (260)
Q Consensus       112 m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-  190 (260)
                                  ..+++. +...|+.++|..+|+...+..                    +-+...|..++..+.+.|+ 
T Consensus       395 ------------~~a~~~-~~~~~~~~~A~~~~e~al~~~--------------------p~~~~~~~~~~~~~~~~g~~  441 (530)
T 2ooe_A          395 ------------TAALME-YYCSKDKSVAFKIFELGLKKY--------------------GDIPEYVLAYIDYLSHLNED  441 (530)
T ss_dssp             ------------HHHHHH-HHHTCCHHHHHHHHHHHHHHH--------------------TTCHHHHHHHHHHHTTTTCH
T ss_pred             ------------HHHHHH-HHHcCChhHHHHHHHHHHHHC--------------------CCCHHHHHHHHHHHHhCCCH
Confidence                        111111 123455555555555443310                    0123333333333333333 


Q ss_pred             -------------CCCCc--chHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          191 -------------LGLCA--DVNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       191 -------------~~~~~--~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                                   ....|  ....|...+......|+.+.+..++.++.+.
T Consensus       442 ~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          442 NNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             HHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                         01122  2346777777777889999999998887754

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=96.71  E-value=0.019  Score=49.21  Aligned_cols=71  Identities=14%  Similarity=0.173  Sum_probs=50.8

Q ss_pred             CCCCCHHHHHHHHH----------HHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC----CHhhH
Q 041786           59 SLSVFPQTLSLIIE----------EFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP----DKRTH  124 (260)
Q Consensus        59 g~~~~~~~~~~li~----------~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p----~~~~~  124 (260)
                      +.+|+..++..++.          .+...|++++|+.++++..+.                   .+.-+-|    ...++
T Consensus       294 ~~~~s~e~v~~~l~~a~~~le~a~~~~~qg~~~eA~~l~~~aL~~-------------------~~~~lg~~Hp~~a~~~  354 (490)
T 3n71_A          294 DPKPSQEVVKEMIQFSKDTLEKIDKARSEGLYHEVVKLCRECLEK-------------------QEPVFADTNLYVLRLL  354 (490)
T ss_dssp             SSCCCHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-------------------HTTTBCTTSHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-------------------HHHhcCCCCHHHHHHH
Confidence            44566666554433          355789999999999887752                   2222223    34688


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHH
Q 041786          125 TILVNAWCSSGKMREAQEFLQELS  148 (260)
Q Consensus       125 ~~li~~~~~~g~~~~a~~~~~~m~  148 (260)
                      +.|...|...|++++|+.++++..
T Consensus       355 ~nLa~~y~~~g~~~eA~~~~~~aL  378 (490)
T 3n71_A          355 SIASEVLSYLQAYEEASHYARRMV  378 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHH
Confidence            999999999999999999998654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=96.71  E-value=0.046  Score=36.67  Aligned_cols=97  Identities=14%  Similarity=0.087  Sum_probs=70.6

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCH----hhHHHHHHHHhccCCHHHHHHH
Q 041786           68 SLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDK----RTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        68 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      -.+-..+.+.|++++|...|+...+..                        |+.    ..+..+-..|.+.|++++|...
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~------------------------p~~~~~~~~~~~lg~~~~~~~~~~~A~~~   61 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELY------------------------PNGVYTPNALYWLGESYYATRNFQLAEAQ   61 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC------------------------SSSTTHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHC------------------------CCCcccHHHHHHHHHHHHHhccHHHHHHH
Confidence            345567888999999999999887632                        332    3666777888999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          144 LQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       144 ~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                      |++..+.                     .|+...                  ....+..+-..|...|+.++|...|++.
T Consensus        62 ~~~~~~~---------------------~p~~~~------------------~~~~~~~la~~~~~~g~~~~A~~~~~~~  102 (129)
T 2xev_A           62 FRDLVSR---------------------YPTHDK------------------AAGGLLKLGLSQYGEGKNTEAQQTLQQV  102 (129)
T ss_dssp             HHHHHHH---------------------CTTSTT------------------HHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHH---------------------CCCCcc------------------cHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9987752                     122110                  1233455566788889999999999998


Q ss_pred             HHCC
Q 041786          224 VEDG  227 (260)
Q Consensus       224 ~~~~  227 (260)
                      .+..
T Consensus       103 ~~~~  106 (129)
T 2xev_A          103 ATQY  106 (129)
T ss_dssp             HHHS
T ss_pred             HHHC
Confidence            8753

>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=96.70  E-value=0.028  Score=45.43  Aligned_cols=132  Identities=10%  Similarity=-0.020  Sum_probs=78.7

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~  141 (260)
                      +...|..+-..|.+.|++++|+..|++..+..-.........         .....| ....|..+-.+|.+.|++++|+
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~---------~~~~~~~~~~~~~nla~~~~~~g~~~~A~  216 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEE---------AQKAQALRLASHLNLAMCHLKLQAFSAAI  216 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHH---------HHHHHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHH---------HHHHHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            356788888899999999999999998876321000000000         000000 1478888899999999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCCc-chHHHHHHHHhhhh
Q 041786          142 EFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLCA-DVNTNKISIPAVSK  209 (260)
Q Consensus       142 ~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~-~~~t~~~li~~~~~  209 (260)
                      ..|++..+..                    +.+...|..+-.+|...|+           ....| +...+..+-..+.+
T Consensus       217 ~~~~~al~~~--------------------p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~  276 (336)
T 1p5q_A          217 ESCNKALELD--------------------SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQR  276 (336)
T ss_dssp             HHHHHHHHHC--------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC--------------------CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence            9999877531                    1234455555555555555           11222 23455555555666


Q ss_pred             hccHHHH-HHHHHHH
Q 041786          210 EFMIDEA-FRLLCNL  223 (260)
Q Consensus       210 ~g~~~~a-~~~~~~m  223 (260)
                      .|+.++| ...|..|
T Consensus       277 ~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          277 IRRQLAREKKLYANM  291 (336)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            6666655 3344444

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=96.65  E-value=0.051  Score=36.90  Aligned_cols=90  Identities=7%  Similarity=-0.076  Sum_probs=72.5

Q ss_pred             HHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhC
Q 041786           36 NRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRK  115 (260)
Q Consensus        36 ~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~  115 (260)
                      -..+...+...+|.+.|++..+.. +.+...|..+-.+|.+.|++++|+..|++..+..                     
T Consensus        20 G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~---------------------   77 (126)
T 4gco_A           20 GNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD---------------------   77 (126)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---------------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh---------------------
Confidence            344556667779999998876543 2367889999999999999999999999887632                     


Q ss_pred             CCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          116 GFVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       116 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                        +.+...|..+-.+|...|++++|.+.|++..+
T Consensus        78 --p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           78 --SKFIKGYIRKAACLVAMREWSKAQRAYEDALQ  109 (126)
T ss_dssp             --TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             --hhhhHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence              12466788888999999999999999998776

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=96.64  E-value=0.14  Score=41.64  Aligned_cols=190  Identities=8%  Similarity=-0.021  Sum_probs=99.7

Q ss_pred             hhcchHHHHHHHHhcccCCC-CC----CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCC-----CC-cHHHHHHHHHHH
Q 041786           41 TLISELSMWKTIELMKPDSL-SV----FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNC-----QQ-CVLLYNSLHVCF  109 (260)
Q Consensus        41 ~~~~~~~a~~~~~~m~~~g~-~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-----~~-~~~~~~~li~~~  109 (260)
                      ..+...+|.+.|++..+.-. .+    ....|..+-..|...|+++.|...+++..+...     .+ ...+++.+-.++
T Consensus       113 ~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y  192 (378)
T 3q15_A          113 DQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNY  192 (378)
T ss_dssp             HTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHH
Confidence            34455588888877644311 12    256788888999999999999999988765311     11 112222222222


Q ss_pred             -------------HH----HHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCC
Q 041786          110 -------------VR----MIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGS  171 (260)
Q Consensus       110 -------------~~----m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~  171 (260)
                                   .+    ..+.+-.+ ...+++.+-..|...|++++|.+.|++...            ++...   +.
T Consensus       193 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~------------~~~~~---~~  257 (378)
T 3q15_A          193 DDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAK------------VSREK---VP  257 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH------------HHHHH---CG
T ss_pred             HHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH------------HHHhh---CC
Confidence                         11    11111111 123455555566666666666666664432            11111   11


Q ss_pred             CCChhchHHHHHHHHhcCC-----------------CCCCcchHHHHHHHHhhhhhcc---HHHHHHHHHHHHHCCCCcC
Q 041786          172 VPDLETFNSLIETICKSGE-----------------LGLCADVNTNKISIPAVSKEFM---IDEAFRLLCNLVEDGHKLF  231 (260)
Q Consensus       172 ~p~~~~~~~li~~~~~~~~-----------------~~~~~~~~t~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~p~  231 (260)
                      +....++..+-..|.+.|+                 .+.......++.+-..|...|+   +++|...+++   .+..|+
T Consensus       258 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~  334 (378)
T 3q15_A          258 DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAY  334 (378)
T ss_dssp             GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHH
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhH
Confidence            1224455566666666666                 1122223345555555666666   5556555554   222222


Q ss_pred             CCc------------ccHHHHHHHHHHHH
Q 041786          232 PSL------------GQFDDAFCFFSEMQ  248 (260)
Q Consensus       232 ~~~------------g~~~~a~~~~~~m~  248 (260)
                      ...            |+.++|...|++..
T Consensus       335 ~~~~~~~la~~y~~~g~~~~A~~~~~~al  363 (378)
T 3q15_A          335 IEACARSAAAVFESSCHFEQAAAFYRKVL  363 (378)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            111            88888888877664

>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=96.64  E-value=0.022  Score=38.03  Aligned_cols=92  Identities=11%  Similarity=0.030  Sum_probs=69.5

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      .+...+....|.+.|+...+.. +.+...|..+...|.+.|++++|...|++..+..                  ..  .
T Consensus        13 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~------------------~~--~   71 (131)
T 1elr_A           13 DAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG------------------RE--N   71 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH------------------HH--S
T ss_pred             HHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc------------------cc--c
Confidence            3444556668888888875543 3367888899999999999999999999887531                  00  1


Q ss_pred             CCC----HhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          118 VPD----KRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       118 ~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      .++    ...|..+-..|.+.|++++|.+.|+...+.
T Consensus        72 ~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           72 REDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            122    567788888999999999999999988764

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=96.62  E-value=0.13  Score=41.59  Aligned_cols=174  Identities=11%  Similarity=-0.061  Sum_probs=103.9

Q ss_pred             hhhhcchHHHHHHHHhccc----CCCC--C-CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHH
Q 041786           39 NLTLISELSMWKTIELMKP----DSLS--V-FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVR  111 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~----~g~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  111 (260)
                      +...+...+|.+.+++..+    .+..  | ....+..+-..+...|++++|...+++.....                 
T Consensus       103 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-----------------  165 (373)
T 1hz4_A          103 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVL-----------------  165 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-----------------
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh-----------------
Confidence            4444555577777766532    2322  2 24566777888999999999999999877532                 


Q ss_pred             HHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchH-----HHHHHHH
Q 041786          112 MIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFN-----SLIETIC  186 (260)
Q Consensus       112 m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~-----~li~~~~  186 (260)
                       .+.|.......+..+-..+...|++++|.+.+++......               ..+. |  ..+.     .....+.
T Consensus       166 -~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~---------------~~~~-~--~~~~~~~~~~~~~~~~  226 (373)
T 1hz4_A          166 -SSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLG---------------NGKY-H--SDWISNANKVRVIYWQ  226 (373)
T ss_dssp             -TTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT---------------TSCC-C--HHHHHHHHHHHHHHHH
T ss_pred             -hccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHh---------------ccCc-c--hhHHHHHHHHHHHHHH
Confidence             1112212235677788889999999999999987654210               0111 0  1111     1222244


Q ss_pred             hcCC-----------CCCCc-----chHHHHHHHHhhhhhccHHHHHHHHHHHHHC----CCCcCCC-c-----------
Q 041786          187 KSGE-----------LGLCA-----DVNTNKISIPAVSKEFMIDEAFRLLCNLVED----GHKLFPS-L-----------  234 (260)
Q Consensus       187 ~~~~-----------~~~~~-----~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~~-~-----------  234 (260)
                      ..|+           ....+     ....+..+...+...|+.++|...+++....    |..+... .           
T Consensus       227 ~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~  306 (373)
T 1hz4_A          227 MTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQA  306 (373)
T ss_dssp             HTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHh
Confidence            5555           11111     1224566777888889999999888877543    2111111 1           


Q ss_pred             ccHHHHHHHHHHHH
Q 041786          235 GQFDDAFCFFSEMQ  248 (260)
Q Consensus       235 g~~~~a~~~~~~m~  248 (260)
                      |+.++|...+++..
T Consensus       307 g~~~~A~~~l~~al  320 (373)
T 1hz4_A          307 GRKSDAQRVLLDAL  320 (373)
T ss_dssp             TCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            88888888877654

>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=96.56  E-value=0.02  Score=40.20  Aligned_cols=90  Identities=10%  Similarity=-0.069  Sum_probs=71.6

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHh
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIR  114 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~  114 (260)
                      +-..+...+...+|.+.|+...... +.+...|..+-.+|.+.|++++|+..|+.....                     
T Consensus        27 ~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l---------------------   84 (148)
T 2vgx_A           27 LAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVM---------------------   84 (148)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------------
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc---------------------
Confidence            3444556667779999998876543 236788888999999999999999999988763                     


Q ss_pred             CCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          115 KGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       115 ~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                         .| +...|..+-.+|...|++++|.+.|+...+
T Consensus        85 ---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           85 ---DIXEPRFPFHAAECLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             ---STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ---CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               23 456777788899999999999999998765

>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=96.56  E-value=0.019  Score=40.42  Aligned_cols=91  Identities=12%  Similarity=0.100  Sum_probs=61.6

Q ss_pred             HHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHH
Q 041786           34 TLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMI  113 (260)
Q Consensus        34 ~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~  113 (260)
                      .+-.++...+....|.+.|+...+.. +-+...|..+-..|.+.|++++|+..|+...+.                    
T Consensus        36 ~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--------------------   94 (150)
T 4ga2_A           36 YFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAVECYRRSVEL--------------------   94 (150)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--------------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--------------------
Confidence            34455666666668888887765542 125677778888888888888888888877652                    


Q ss_pred             hCCCCC-CHhhHHHHHHHHhccCCHHHHHHH-HHHHHh
Q 041786          114 RKGFVP-DKRTHTILVNAWCSSGKMREAQEF-LQELSD  149 (260)
Q Consensus       114 ~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~-~~~m~~  149 (260)
                          .| +...|..+-..|.+.|+.++|.+. +++..+
T Consensus        95 ----~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~  128 (150)
T 4ga2_A           95 ----NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK  128 (150)
T ss_dssp             ----CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH
T ss_pred             ----CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence                24 356777777788888888765554 455544

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=96.56  E-value=0.29  Score=41.42  Aligned_cols=196  Identities=10%  Similarity=0.022  Sum_probs=113.2

Q ss_pred             hcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH--------
Q 041786           42 LISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGK----HGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF--------  109 (260)
Q Consensus        42 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--------  109 (260)
                      ......|.+.|+...+.|   +...+..|-..|..    .++.++|...|++..+.|   +...+..|-.++        
T Consensus        56 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~  129 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKV  129 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC
T ss_pred             CcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCC
Confidence            345558888888876664   56778888888888    889999999999988765   333333333222        


Q ss_pred             ---------HHHHhCCCCCCHhhHHHHHHHHhc----cCCHHHHHHHHHHHHhCC-----------------CCCCHHHH
Q 041786          110 ---------VRMIRKGFVPDKRTHTILVNAWCS----SGKMREAQEFLQELSDKG-----------------FNPPVRSA  159 (260)
Q Consensus       110 ---------~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~-----------------~~~~~~~a  159 (260)
                               ++..+.|   +...+..|-..|..    .++.++|.+.|++..+.|                 +..+..+|
T Consensus       130 ~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A  206 (490)
T 2xm6_A          130 DKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMYSRGLGVERNDAIS  206 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCCcCHHHH
Confidence                     2222222   34445555555655    667888888887665442                 34555567


Q ss_pred             HHHHHHHHHCCCCCChhchHHHHHHHHh----cCC-----------CCCCcchHHHHHHHHhhhh----hccHHHHHHHH
Q 041786          160 KQMVNKMIKQGSVPDLETFNSLIETICK----SGE-----------LGLCADVNTNKISIPAVSK----EFMIDEAFRLL  220 (260)
Q Consensus       160 ~~l~~~m~~~g~~p~~~~~~~li~~~~~----~~~-----------~~~~~~~~t~~~li~~~~~----~g~~~~a~~~~  220 (260)
                      ...|....+.|   +...+..+-..|..    .++           .. ..+...+..+-..|..    .++.++|...|
T Consensus       207 ~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~-~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~  282 (490)
T 2xm6_A          207 AQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAE-QGNSIAQFRLGYILEQGLAGAKEPLKALEWY  282 (490)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTTSSCCHHHHHHHH
T ss_pred             HHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH-CCCHHHHHHHHHHHHCCCCCCCCHHHHHHHH
Confidence            77777666654   34445555544443    222           00 0122333333334444    67777777777


Q ss_pred             HHHHHCCCCcCCCc--------------ccHHHHHHHHHHHHhcC
Q 041786          221 CNLVEDGHKLFPSL--------------GQFDDAFCFFSEMQIKT  251 (260)
Q Consensus       221 ~~m~~~~~~p~~~~--------------g~~~~a~~~~~~m~~~g  251 (260)
                      +...+.|.. +...              ++.++|+..|++..+.|
T Consensus       283 ~~a~~~~~~-~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~  326 (490)
T 2xm6_A          283 RKSAEQGNS-DGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG  326 (490)
T ss_dssp             HHHHTTTCH-HHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCH-HHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC
Confidence            776655421 1111              36667777776665544

>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=96.53  E-value=0.057  Score=48.22  Aligned_cols=142  Identities=15%  Similarity=0.005  Sum_probs=91.3

Q ss_pred             hhhcchHHHHHHHHhcc--------cCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHH
Q 041786           40 LTLISELSMWKTIELMK--------PDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVR  111 (260)
Q Consensus        40 ~~~~~~~~a~~~~~~m~--------~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  111 (260)
                      ...+...+|.+.++...        +. -..+...|..+-..|.+.|++++|+..|++..+.+                 
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-----------------  463 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-----------------  463 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-----------------
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-----------------
Confidence            44555568888888875        22 12356788888899999999999999999887632                 


Q ss_pred             HHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCC
Q 041786          112 MIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGEL  191 (260)
Q Consensus       112 m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~  191 (260)
                            .-+...|..+-.+|.+.|++++|++.|++..+..  |+                  +...|..+-..|.+.|+.
T Consensus       464 ------p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~--P~------------------~~~~~~~lg~~~~~~g~~  517 (681)
T 2pzi_A          464 ------GWRWRLVWYRAVAELLTGDYDSATKHFTEVLDTF--PG------------------ELAPKLALAATAELAGNT  517 (681)
T ss_dssp             ------CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TT------------------CSHHHHHHHHHHHHHTCC
T ss_pred             ------cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CC------------------ChHHHHHHHHHHHHcCCh
Confidence                  1245677777778888888888888888776532  11                  223333333333333331


Q ss_pred             C----------CCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          192 G----------LCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       192 ~----------~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                      .          ..| +...|..+-..|.+.|+.++|...|++..+
T Consensus       518 ~~~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  562 (681)
T 2pzi_A          518 DEHKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTLDEVPP  562 (681)
T ss_dssp             CTTCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCT
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHHHhhcc
Confidence            0          122 345566666677777777777777766543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=96.53  E-value=0.023  Score=39.42  Aligned_cols=68  Identities=15%  Similarity=0.089  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC-CCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF-VPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      ..++..+-..|...|++++|...+++..+..                  .+.+- ..-...+..+-..|...|++++|.+
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~------------------~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~   70 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIA------------------KEFGDKAAERIAYSNLGNAYIFLGEFETASE   70 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH------------------HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH------------------HHhCCchHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            4567888889999999999999999877521                  11111 1112467778888999999999999


Q ss_pred             HHHHHHh
Q 041786          143 FLQELSD  149 (260)
Q Consensus       143 ~~~~m~~  149 (260)
                      .+++..+
T Consensus        71 ~~~~a~~   77 (164)
T 3ro3_A           71 YYKKTLL   77 (164)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9987653

>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=96.50  E-value=0.15  Score=37.49  Aligned_cols=85  Identities=8%  Similarity=-0.117  Sum_probs=68.8

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCC
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFV  118 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~  118 (260)
                      +...+...+|.+.|+...    .|+...|..+-..|.+.|++++|+..|++..+..                       +
T Consensus        16 ~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-----------------------~   68 (213)
T 1hh8_A           16 AADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-----------------------K   68 (213)
T ss_dssp             HHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------T
T ss_pred             HHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----------------------c
Confidence            334455568888888764    5688899999999999999999999999877532                       1


Q ss_pred             CCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          119 PDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       119 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      .+...|..+-..|.+.|++++|.+.|++..+.
T Consensus        69 ~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  100 (213)
T 1hh8_A           69 HLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQ  100 (213)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             cchHHHHHHHHHHHHcccHHHHHHHHHHHHHh
Confidence            35677888889999999999999999988763

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=96.48  E-value=0.087  Score=35.20  Aligned_cols=87  Identities=16%  Similarity=-0.022  Sum_probs=65.4

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhC
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVFP---QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRK  115 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~  115 (260)
                      +...+...+|.+.|+...+.... +.   ..+..+-..|.+.|++++|...|+...+..                     
T Consensus        12 ~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~---------------------   69 (129)
T 2xev_A           12 ALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY---------------------   69 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---------------------
T ss_pred             HHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC---------------------
Confidence            33445556888888887654211 22   577788889999999999999999887632                     


Q ss_pred             CCCCC----HhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          116 GFVPD----KRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       116 g~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                         |+    ...+..+-.++.+.|++++|...|+...+.
T Consensus        70 ---p~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           70 ---PTHDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             ---TTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ---CCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence               33    445667778889999999999999988764

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=96.47  E-value=0.055  Score=36.40  Aligned_cols=95  Identities=14%  Similarity=-0.023  Sum_probs=72.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHH
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFL  144 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~  144 (260)
                      .+..+-..+.+.|++++|+..|+...+.                        .| +...|..+-.++.+.|++++|+..|
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~------------------------~P~~~~a~~~lg~~~~~~g~~~~A~~~~   74 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQK------------------------EPEREEAWRSLGLTQAENEKDGLAIIAL   74 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------STTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHH------------------------CCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3455667888999999999999988763                        24 5667777888889999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHH
Q 041786          145 QELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLV  224 (260)
Q Consensus       145 ~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~  224 (260)
                      ++..+.                     .|+                     +...+..+-..|...|++++|...|++..
T Consensus        75 ~~al~l---------------------~P~---------------------~~~~~~~la~~~~~~g~~~~A~~~~~~al  112 (121)
T 1hxi_A           75 NHARML---------------------DPK---------------------DIAVHAALAVSHTNEHNANAALASLRAWL  112 (121)
T ss_dssp             HHHHHH---------------------CTT---------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHh---------------------CCC---------------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            987752                     222                     23455666677888899999999998877


Q ss_pred             HC
Q 041786          225 ED  226 (260)
Q Consensus       225 ~~  226 (260)
                      +.
T Consensus       113 ~~  114 (121)
T 1hxi_A          113 LS  114 (121)
T ss_dssp             C-
T ss_pred             Hh
Confidence            53

>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=96.46  E-value=0.14  Score=36.55  Aligned_cols=115  Identities=5%  Similarity=0.059  Sum_probs=83.8

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHH
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTI  126 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~  126 (260)
                      .|.+.++...+.. +.+...|..+-..|...|++++|...|++..+..                       ..+...+..
T Consensus        28 ~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-----------------------p~~~~~~~~   83 (177)
T 2e2e_A           28 AQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-----------------------GENAELYAA   83 (177)
T ss_dssp             CCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-----------------------CSCHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-----------------------CCCHHHHHH
Confidence            5555665544332 2367889999999999999999999999887531                       124556666


Q ss_pred             HHHH-HhccCCH--HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHH
Q 041786          127 LVNA-WCSSGKM--REAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKIS  203 (260)
Q Consensus       127 li~~-~~~~g~~--~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~l  203 (260)
                      +-.. |.+.|++  ++|...|++..+.                     .|+                     +...+..+
T Consensus        84 la~~l~~~~~~~~~~~A~~~~~~al~~---------------------~p~---------------------~~~~~~~l  121 (177)
T 2e2e_A           84 LATVLYYQASQHMTAQTRAMIDKALAL---------------------DSN---------------------EITALMLL  121 (177)
T ss_dssp             HHHHHHHHTTTCCCHHHHHHHHHHHHH---------------------CTT---------------------CHHHHHHH
T ss_pred             HHHHHHHhcCCcchHHHHHHHHHHHHh---------------------CCC---------------------cHHHHHHH
Confidence            6677 7788998  9999999887752                     122                     23445566


Q ss_pred             HHhhhhhccHHHHHHHHHHHHHCC
Q 041786          204 IPAVSKEFMIDEAFRLLCNLVEDG  227 (260)
Q Consensus       204 i~~~~~~g~~~~a~~~~~~m~~~~  227 (260)
                      -..|...|++++|...|++..+..
T Consensus       122 a~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A          122 ASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHcccHHHHHHHHHHHHhhC
Confidence            677888899999999999988764

>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=96.42  E-value=0.035  Score=38.96  Aligned_cols=106  Identities=8%  Similarity=-0.024  Sum_probs=76.4

Q ss_pred             HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC----------
Q 041786          121 KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE----------  190 (260)
Q Consensus       121 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~----------  190 (260)
                      ...|..+-..+...|++++|...|++..+..                    +.+...+..+...+...|+          
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--------------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~   72 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN--------------------PSNAIYYGNRSLAYLRTECYGYALGDATR   72 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--------------------CCChHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3456677788889999999999999876531                    1245566666667777776          


Q ss_pred             -CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc--------------ccHHHHHHHHHHHH
Q 041786          191 -LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL--------------GQFDDAFCFFSEMQ  248 (260)
Q Consensus       191 -~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~--------------g~~~~a~~~~~~m~  248 (260)
                       ....| +...|..+-..+...|++++|...|++..+..  |....              |++++|+..++...
T Consensus        73 a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           73 AIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence             11223 46678888888999999999999999988653  22211              88888888887654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.42  E-value=0.11  Score=35.44  Aligned_cols=89  Identities=11%  Similarity=-0.175  Sum_probs=69.9

Q ss_pred             HhhhhhcchHHHHHHHHhcccCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHH
Q 041786           37 RLNLTLISELSMWKTIELMKPDSLSVF----PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRM  112 (260)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m  112 (260)
                      ..+...+....|.+.|+...+.  .|+    ...|..+-..|.+.|++++|+..|++..+..                  
T Consensus        36 ~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~------------------   95 (148)
T 2dba_A           36 NELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD------------------   95 (148)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT------------------
T ss_pred             HHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC------------------
Confidence            3344555666899999887665  355    6788888999999999999999999877531                  


Q ss_pred             HhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          113 IRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       113 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                           ..+...|..+-..|.+.|++++|...|++..+.
T Consensus        96 -----~~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A           96 -----GGDVKALYRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             -----SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -----ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence                 124667778888999999999999999987763

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=96.39  E-value=0.061  Score=37.15  Aligned_cols=88  Identities=8%  Similarity=-0.053  Sum_probs=69.4

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      .+...+...+|.+.|+...... +.+...|..+-..|.+.|++++|+..|+......                       
T Consensus        27 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-----------------------   82 (142)
T 2xcb_A           27 NQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-----------------------   82 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------
T ss_pred             HHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-----------------------
Confidence            3445566669999998876543 2367888889999999999999999999887632                       


Q ss_pred             CCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          118 VPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       118 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      +-+...|..+-.+|...|++++|...|+...+
T Consensus        83 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           83 INEPRFPFHAAECHLQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            12456677788899999999999999998765

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=96.30  E-value=0.071  Score=41.95  Aligned_cols=156  Identities=10%  Similarity=-0.076  Sum_probs=100.0

Q ss_pred             HhhhhhcchHHHHHHHHhccc----CCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHH
Q 041786           37 RLNLTLISELSMWKTIELMKP----DSLSVF-PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVR  111 (260)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~m~~----~g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  111 (260)
                      .++...+...+|.+.|....+    .|-.+. ..+|+.+-..|.+.|++++|+..|++..+.                  
T Consensus        45 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l------------------  106 (292)
T 1qqe_A           45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQI------------------  106 (292)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH------------------
Confidence            344445555566666654422    232222 578999999999999999999999987752                  


Q ss_pred             HHhCCCCC-CHhhHHHHHHHHhcc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCC-hhchHHHHHHHHhc
Q 041786          112 MIRKGFVP-DKRTHTILVNAWCSS-GKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPD-LETFNSLIETICKS  188 (260)
Q Consensus       112 m~~~g~~p-~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~-~~~~~~li~~~~~~  188 (260)
                      ..+.|-.. -..+++.+-..|... |++++|+..|++..+            ++.   ..+..+. ..+|..+-..|.+.
T Consensus       107 ~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~------------~~~---~~~~~~~~~~~~~~lg~~~~~~  171 (292)
T 1qqe_A          107 FTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGE------------WYA---QDQSVALSNKCFIKCADLKALD  171 (292)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH------------HHH---HTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHH------------HHH---hCCChHHHHHHHHHHHHHHHHh
Confidence            11122111 135777888889986 999999999987553            221   1111111 24566777777777


Q ss_pred             CC-----------CCCCcc---h-----HHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          189 GE-----------LGLCAD---V-----NTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       189 ~~-----------~~~~~~---~-----~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                      |+           ....|+   .     ..|..+...+...|+.++|...|++..+
T Consensus       172 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  227 (292)
T 1qqe_A          172 GQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS  227 (292)
T ss_dssp             TCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             CCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            77           111111   1     1566777788899999999999988654

>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=96.30  E-value=0.11  Score=40.69  Aligned_cols=63  Identities=10%  Similarity=-0.087  Sum_probs=50.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~  141 (260)
                      +...+..+-..+.+.|++++|+..|++..+.                        .| +...|..+-..|.+.|++++|.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~------------------------~p~~~~~~~~la~~~~~~~~~~~A~   58 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR------------------------NPLVAVYYTNRALCYLKMQQPEQAL   58 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------CSCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------------------------CCccHHHHHHHHHHHHHhcCHHHHH
Confidence            4667788888999999999999999988763                        23 5667777888888888899888


Q ss_pred             HHHHHHHh
Q 041786          142 EFLQELSD  149 (260)
Q Consensus       142 ~~~~~m~~  149 (260)
                      ..+++..+
T Consensus        59 ~~~~~al~   66 (281)
T 2c2l_A           59 ADCRRALE   66 (281)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHHHH
Confidence            88887665

>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=96.29  E-value=0.14  Score=36.53  Aligned_cols=113  Identities=10%  Similarity=0.005  Sum_probs=79.8

Q ss_pred             hhhhhHHHHHHHHccc---chhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHH-HHhcCCh--HHHHHHH
Q 041786           14 YFAAVNHIANIVRHDI---YAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEE-FGKHGLI--DNAVEVF   87 (260)
Q Consensus        14 ~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~~~~--~~a~~~~   87 (260)
                      +..++..+...+..+.   .....+-.++...+....|.+.|+...+.. +.+...|..+... |.+.|++  ++|...|
T Consensus        26 ~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~A~~~~  104 (177)
T 2e2e_A           26 PEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQTRAMI  104 (177)
T ss_dssp             -CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHHHHHHH
Confidence            3344444555444433   333445555666777779999998876543 1356778888888 7789998  9999999


Q ss_pred             HHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786           88 NKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus        88 ~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      ++..+..                       +-+...+..+-..|.+.|++++|...|++..+.
T Consensus       105 ~~al~~~-----------------------p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          105 DKALALD-----------------------SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHC-----------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHhC-----------------------CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            9887632                       123567777888999999999999999988764

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=96.28  E-value=0.16  Score=39.84  Aligned_cols=129  Identities=10%  Similarity=-0.059  Sum_probs=75.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHH
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFL  144 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  144 (260)
                      ..+...+..+...|++++|.+.+++..+..-.. ....                .....+..+...+...|++++|...|
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~-~~~~----------------~~~~~~~~~~~~~~~~~~~~~A~~~~  138 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYH-PEFQ----------------QFLQWQYYVAAYVLKKVDYEYCILEL  138 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCC-HHHH----------------HHHHHHHHHHHHHHTSSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCC-hhHH----------------HHHHHHHHHHHHHhcCCCHHHHHHHH
Confidence            344566778889999999999998776532111 0000                00112233445566777888888887


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHCCCCCC--hhchHHHHHHHHhcCC-----------------CCCCc--chHHHHHH
Q 041786          145 QELSDKGFNPPVRSAKQMVNKMIKQGSVPD--LETFNSLIETICKSGE-----------------LGLCA--DVNTNKIS  203 (260)
Q Consensus       145 ~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~--~~~~~~li~~~~~~~~-----------------~~~~~--~~~t~~~l  203 (260)
                      ++..+....                ...+.  ..+|+.+-..|...|+                 ....+  ...+|..+
T Consensus       139 ~~al~~~~~----------------~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nl  202 (293)
T 2qfc_A          139 KKLLNQQLT----------------GIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNH  202 (293)
T ss_dssp             HHHHTTCCC----------------SSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHhc----------------CCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhH
Confidence            766542110                00111  2245555555555555                 11111  22577888


Q ss_pred             HHhhhhhccHHHHHHHHHHHHHC
Q 041786          204 IPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       204 i~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      -..|.+.|++++|...+++..+.
T Consensus       203 g~~y~~~~~y~~Al~~~~kal~~  225 (293)
T 2qfc_A          203 AKALYLDSRYEESLYQVNKAIEI  225 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH
Confidence            88899999999999999887643

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=96.23  E-value=0.062  Score=42.31  Aligned_cols=56  Identities=5%  Similarity=0.036  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHH
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQ  145 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  145 (260)
                      .+-.+...+...|++++|.++|+.+...+                        |+....-.+-..+.+.+++++|+..|+
T Consensus       104 l~LayA~~L~~~g~y~eA~~~l~~~~~~~------------------------p~~~~~~~~a~l~~~~~r~~dA~~~l~  159 (282)
T 4f3v_A          104 ITMGFAACEAAQGNYADAMEALEAAPVAG------------------------SEHLVAWMKAVVYGAAERWTDVIDQVK  159 (282)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTSSCCTT------------------------CHHHHHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhcC------------------------CchHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            44556778889999999999999887532                        332233333346667777777777775

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=96.21  E-value=0.078  Score=37.51  Aligned_cols=89  Identities=12%  Similarity=0.005  Sum_probs=70.6

Q ss_pred             HhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCC
Q 041786           37 RLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKG  116 (260)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g  116 (260)
                      ..+...+...+|.+.|+...+.. +-+...|..+-..|.+.|++++|+..|++..+..                      
T Consensus        19 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~----------------------   75 (164)
T 3sz7_A           19 NAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD----------------------   75 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----------------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC----------------------
Confidence            34445556668888998876543 2367889999999999999999999999888632                      


Q ss_pred             CCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          117 FVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       117 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                       .-+...|..+-..|.+.|++++|.+.|++..+
T Consensus        76 -p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           76 -PKYSKAWSRLGLARFDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence             12467888888999999999999999998765

>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=96.21  E-value=0.063  Score=42.60  Aligned_cols=28  Identities=7%  Similarity=0.118  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTA   92 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (260)
                      ..|+.....|...|++++|...|.+..+
T Consensus        37 ~~~~~a~~~~~~~g~~~~A~~~~~~al~   64 (307)
T 2ifu_A           37 SEYAKAAVAFKNAKQLEQAKDAYLQEAE   64 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3566677788899999999999988765

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=96.20  E-value=0.077  Score=43.34  Aligned_cols=157  Identities=13%  Similarity=0.093  Sum_probs=83.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCC-Cc----HHHHHHHHHHH-------------H----HHHhCCC-CCC
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQ-QC----VLLYNSLHVCF-------------V----RMIRKGF-VPD  120 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~li~~~-------------~----~m~~~g~-~p~  120 (260)
                      ..+++.+-..|...|++++|...|++..+..-. ++    ..++..+-.++             +    .....+. ...
T Consensus       184 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~  263 (383)
T 3ulq_A          184 LQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSL  263 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhH
Confidence            456666666666666666666666665532100 11    11233332222             1    1112233 233


Q ss_pred             HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCC-CCCHH--HHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcc-
Q 041786          121 KRTHTILVNAWCSSGKMREAQEFLQELSDKGF-NPPVR--SAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCAD-  196 (260)
Q Consensus       121 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~--~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~-  196 (260)
                      ..++..+-..|.+.|++++|.+.+++..+... .++..  .....+..+-..  ..+...+...+..+-+.   +..|+ 
T Consensus       264 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~al~~~~~~---~~~~~~  338 (383)
T 3ulq_A          264 PQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLS--GPDEEAIQGFFDFLESK---MLYADL  338 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTS--SCCHHHHHHHHHHHHHT---TCHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHC---cCHHHH
Confidence            56788889999999999999999987654210 00110  111111111111  01112233333333333   23333 


Q ss_pred             hHHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          197 VNTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       197 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                      ...+..+-..|...|+.++|...|++..+
T Consensus       339 ~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          339 EDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34677788899999999999999988764

>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=96.18  E-value=0.048  Score=38.27  Aligned_cols=77  Identities=10%  Similarity=0.014  Sum_probs=59.3

Q ss_pred             HHHHHHHhcccCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhH
Q 041786           47 SMWKTIELMKPDSLSVF-PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTH  124 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~  124 (260)
                      .|...+......  .|+ ...+-.+-..|.+.|++++|++.|++..+.                        .| +...|
T Consensus        15 ~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~------------------------~p~~~~a~   68 (150)
T 4ga2_A           15 RYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV------------------------QERDPKAH   68 (150)
T ss_dssp             HHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------CTTCHHHH
T ss_pred             HHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------------------------CCCCHHHH
Confidence            566666554433  233 345566788999999999999999998863                        24 56788


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          125 TILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       125 ~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      ..+-..|.+.|++++|+..|++..+
T Consensus        69 ~~lg~~~~~~~~~~~A~~~~~~al~   93 (150)
T 4ga2_A           69 RFLGLLYELEENTDKAVECYRRSVE   93 (150)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCchHHHHHHHHHHHH
Confidence            8888999999999999999998775

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=96.14  E-value=0.1  Score=42.50  Aligned_cols=101  Identities=14%  Similarity=0.141  Sum_probs=62.8

Q ss_pred             CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcc
Q 041786          120 DKRTHTILVNAWCSSGKMREAQEFLQELSDKGF---NPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCAD  196 (260)
Q Consensus       120 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~---~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~  196 (260)
                      ...++..+-..|.+.|++++|.+.+++..+...   .+.......++..+-..  ..+...+...+..+-+.+   ..++
T Consensus       260 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~--~~~~~~~~~al~~~~~~~---~~~~  334 (378)
T 3q15_A          260 LPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKE--TVDERKIHDLLSYFEKKN---LHAY  334 (378)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSS--SCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHhCC---ChhH
Confidence            366778888999999999999999998765321   12222333333333221  122233444444444432   2233


Q ss_pred             -hHHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          197 -VNTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       197 -~~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                       ...+..+-..|...|+.++|...|++..+
T Consensus       335 ~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          335 IEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             34566788889999999999999987654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=96.14  E-value=0.017  Score=38.51  Aligned_cols=80  Identities=11%  Similarity=0.048  Sum_probs=62.5

Q ss_pred             HHHHHHHhcccCCC--CCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhH
Q 041786           47 SMWKTIELMKPDSL--SVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTH  124 (260)
Q Consensus        47 ~a~~~~~~m~~~g~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~  124 (260)
                      +|.+.|+...+.+.  +-+...|..+-..|.+.|++++|+..|++..+..                       +-+...+
T Consensus         8 ~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-----------------------p~~~~~~   64 (117)
T 3k9i_A            8 QAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-----------------------PNHQALR   64 (117)
T ss_dssp             CCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHH
T ss_pred             HHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----------------------CCchHHH
Confidence            66777777665531  2246778888899999999999999999987632                       1246677


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          125 TILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       125 ~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      ..+-.++.+.|++++|.+.|++...
T Consensus        65 ~~l~~~~~~~g~~~~A~~~~~~al~   89 (117)
T 3k9i_A           65 VFYAMVLYNLGRYEQGVELLLKIIA   89 (117)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7888899999999999999998765

>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=96.13  E-value=0.083  Score=47.15  Aligned_cols=133  Identities=11%  Similarity=-0.106  Sum_probs=79.1

Q ss_pred             chhhhhHHHHHHH--------Hcc---cchhHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChH
Q 041786           13 DYFAAVNHIANIV--------RHD---IYAERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLID   81 (260)
Q Consensus        13 ~~~~~~~~~~~~~--------~~~---~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~   81 (260)
                      .+..++..+.+.+        ..+   ......+-..+...+...+|.+.|+...+.. .-+...|..+-..|.+.|+++
T Consensus       406 ~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~  484 (681)
T 2pzi_A          406 QPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLTGDYD  484 (681)
T ss_dssp             CHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHTCHH
T ss_pred             CHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHcCCHH
Confidence            3445556666655        222   2333444455666777779999999886543 125788888999999999999


Q ss_pred             HHHHHHHHhhhcCCCC-cHHHHHHHHHHHHHHHhC----------CCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 041786           82 NAVEVFNKCTAFNCQQ-CVLLYNSLHVCFVRMIRK----------GFVP-DKRTHTILVNAWCSSGKMREAQEFLQELS  148 (260)
Q Consensus        82 ~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~m~~~----------g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  148 (260)
                      +|+..|++..+..  | +...|..+-.++..+.+.          .+.| +...|..+-.+|.+.|++++|.+.|++..
T Consensus       485 ~A~~~~~~al~l~--P~~~~~~~~lg~~~~~~g~~~~~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al  561 (681)
T 2pzi_A          485 SATKHFTEVLDTF--PGELAPKLALAATAELAGNTDEHKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTLDEVP  561 (681)
T ss_dssp             HHHHHHHHHHHHS--TTCSHHHHHHHHHHHHHTCCCTTCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCChHHHHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHHHhhc
Confidence            9999999988753  3 233333333333111000          0122 23445555556666666666666665444

>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=96.12  E-value=0.029  Score=44.03  Aligned_cols=87  Identities=9%  Similarity=-0.106  Sum_probs=68.5

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      .+...+...+|.+.|+...+.. +-+...|..+-..|.+.|++++|+..+++..+.                        
T Consensus        13 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~------------------------   67 (281)
T 2c2l_A           13 RLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL------------------------   67 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh------------------------
Confidence            3444556668888888876542 226788999999999999999999999987752                        


Q ss_pred             CC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          118 VP-DKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       118 ~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      .| +...+..+-.+|.+.|++++|...|++..+
T Consensus        68 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           68 DGQSVKAHFFLGQCQLEMESYDEAIANLQRAYS  100 (281)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            23 456778888899999999999999987654

>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=96.11  E-value=0.35  Score=37.78  Aligned_cols=86  Identities=7%  Similarity=-0.020  Sum_probs=50.0

Q ss_pred             cchHHHHHHHHhcccC-CCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           43 ISELSMWKTIELMKPD-SLSVFP----QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        43 ~~~~~a~~~~~~m~~~-g~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      +...+|.+++++..+. ...|+.    ..|..+...+...+++++|+..|++..+...                     -
T Consensus        89 ~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~---------------------~  147 (293)
T 3u3w_A           89 KRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQL---------------------T  147 (293)
T ss_dssp             TCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCC---------------------C
T ss_pred             hhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhc---------------------c
Confidence            3334566666555432 112221    1222344555555666666666666554211                     1


Q ss_pred             CCC----HhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          118 VPD----KRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       118 ~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      .++    ..+++.+-..|.+.|++++|...|++..+
T Consensus       148 ~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~  183 (293)
T 3u3w_A          148 GIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILK  183 (293)
T ss_dssp             CSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            122    33688889999999999999999997653

>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=96.11  E-value=0.14  Score=34.18  Aligned_cols=87  Identities=15%  Similarity=-0.056  Sum_probs=68.8

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCC
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFV  118 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~  118 (260)
                      +...+...+|.+.|+...+.. +.+...|..+-..|.+.|++++|+..|++..+..                       +
T Consensus        14 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-----------------------p   69 (126)
T 3upv_A           14 YFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-----------------------P   69 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------T
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-----------------------C
Confidence            444555668888888875543 2357889999999999999999999999887632                       1


Q ss_pred             CCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          119 PDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       119 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      -+...|..+-.++...|++++|.+.|++..+
T Consensus        70 ~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           70 NFVRAYIRKATAQIAVKEYASALETLDAART  100 (126)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHhCHHHHHHHHHHHHH
Confidence            2466788888899999999999999998765

>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=96.07  E-value=0.37  Score=37.65  Aligned_cols=105  Identities=10%  Similarity=-0.018  Sum_probs=63.3

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCC----hhchHHHHHHHHhcCC-----------
Q 041786          126 ILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPD----LETFNSLIETICKSGE-----------  190 (260)
Q Consensus       126 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~----~~~~~~li~~~~~~~~-----------  190 (260)
                      .+...+...|++++|...|++..+...                  -.++    ..+|+.+-..|...|+           
T Consensus       120 ~l~~~~~~~~~~~~Ai~~~~~al~~~~------------------~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~a  181 (293)
T 3u3w_A          120 YVAAYVLKKVDYEYCILELKKLLNQQL------------------TGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQI  181 (293)
T ss_dssp             HHHHHHTTSSCHHHHHHHHHHHHHTCC------------------CCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHcccCHHHHHHHHHHHHHHhc------------------ccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            344445555666666666666554211                  1112    2256777777777776           


Q ss_pred             ------C-CCCcc-hHHHHHHHHhhhhhccHHHHHHHHHHHHHCC----CCcCCCc------------c-cHHHHHHHHH
Q 041786          191 ------L-GLCAD-VNTNKISIPAVSKEFMIDEAFRLLCNLVEDG----HKLFPSL------------G-QFDDAFCFFS  245 (260)
Q Consensus       191 ------~-~~~~~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~----~~p~~~~------------g-~~~~a~~~~~  245 (260)
                            . +..+. ..+|..+-..|.+.|++++|...+++..+..    ..+....            | ..++|...++
T Consensus       182 l~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~  261 (293)
T 3u3w_A          182 LKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYK  261 (293)
T ss_dssp             HHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHH
Confidence                  1 33333 3478888899999999999999988776432    1111111            6 4688888887


Q ss_pred             HHH
Q 041786          246 EMQ  248 (260)
Q Consensus       246 ~m~  248 (260)
                      +..
T Consensus       262 ~Al  264 (293)
T 3u3w_A          262 KAS  264 (293)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            665

>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=95.99  E-value=0.08  Score=35.92  Aligned_cols=96  Identities=6%  Similarity=-0.068  Sum_probs=68.3

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHh
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIR  114 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~  114 (260)
                      +-..+...+...+|++.|+...+.. +-+...|+.+-.+|.+.|++++|++.|++..+..  |                .
T Consensus        14 lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~--~----------------~   74 (127)
T 4gcn_A           14 LGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVG--R----------------E   74 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--H----------------H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhC--c----------------c
Confidence            4445556666678999998876542 2357889999999999999999999999877521  0                0


Q ss_pred             CCCC-C-CHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          115 KGFV-P-DKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       115 ~g~~-p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      .... + -..+|..+=.++...|++++|++.|++...
T Consensus        75 ~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           75 TRADYKLIAKAMSRAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cchhhHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            0000 0 123566667788889999999999997665

>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=95.98  E-value=0.15  Score=34.34  Aligned_cols=91  Identities=9%  Similarity=-0.092  Sum_probs=70.7

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHh
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIR  114 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~  114 (260)
                      +-..+...+....|.+.|....+.. +.+...|..+-..|.+.|++++|...|+...+..                    
T Consensus        15 ~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--------------------   73 (137)
T 3q49_B           15 QGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD--------------------   73 (137)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------------
T ss_pred             HHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--------------------
Confidence            3344455566668888888875543 2357889999999999999999999999887632                    


Q ss_pred             CCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          115 KGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       115 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                         +-+...|..+-..|.+.|++++|...|++..+
T Consensus        74 ---p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           74 ---GQSVKAHFFLGQCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             ---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ---chhHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence               12466788888999999999999999997764

>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=95.96  E-value=0.17  Score=32.73  Aligned_cols=89  Identities=12%  Similarity=-0.087  Sum_probs=69.0

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      .+...+...+|.+.|+...+.. +.+...|..+...+.+.|++++|...+++..+..                       
T Consensus        13 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-----------------------   68 (118)
T 1elw_A           13 KALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-----------------------   68 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-----------------------
T ss_pred             HHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-----------------------
Confidence            3444555668888888875543 2367888889999999999999999999887532                       


Q ss_pred             CCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          118 VPDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       118 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      +.+...+..+-..+.+.|++++|.+.|+...+.
T Consensus        69 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           69 PDWGKGYSRKAAALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHc
Confidence            124667888888999999999999999987753

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=95.95  E-value=0.1  Score=34.27  Aligned_cols=79  Identities=11%  Similarity=0.061  Sum_probs=61.0

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHH
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTI  126 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~  126 (260)
                      .|.+.|+...+.. +-+...|..+-..|.+.|++++|+..|++..+..                       +.+...|..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-----------------------p~~~~~~~~   58 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-----------------------PTYSVAWKW   58 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-----------------------CCcHHHHHH
Confidence            3555666654432 2357888999999999999999999999887632                       124567788


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHh
Q 041786          127 LVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       127 li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      +-..|.+.|++++|...|++..+
T Consensus        59 la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A           59 LGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            88899999999999999997764

>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=95.91  E-value=0.19  Score=43.52  Aligned_cols=79  Identities=13%  Similarity=0.014  Sum_probs=52.7

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHH
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHT  125 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~  125 (260)
                      +|.+.+++..+.. +-+...|..+-..|.+.|++++|...|++..+.                        .| +...|.
T Consensus         7 ~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~------------------------~p~~~~~~~   61 (568)
T 2vsy_A            7 RELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL------------------------HPGHPEAVA   61 (568)
T ss_dssp             ---------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT------------------------STTCHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------------------------CCCCHHHHH
Confidence            5666666654432 124778888889999999999999999987752                        23 466778


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          126 ILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       126 ~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      .+-..|.+.|++++|.+.|++..+.
T Consensus        62 ~lg~~~~~~g~~~~A~~~~~~al~~   86 (568)
T 2vsy_A           62 RLGRVRWTQQRHAEAAVLLQQASDA   86 (568)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            8888889999999999999987653

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=95.88  E-value=0.23  Score=36.76  Aligned_cols=114  Identities=11%  Similarity=-0.046  Sum_probs=76.7

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH-----
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF-----  109 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-----  109 (260)
                      +-..+...+...+|.+.|+...+.. +-+...|..+-..|.+.|++++|+..|++..+.. +-+...|..+-.++     
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhH
Confidence            4445666677779999998876653 2357889999999999999999999999998764 22355666555433     


Q ss_pred             ------HHHHhCCCCCCHhh--HHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          110 ------VRMIRKGFVPDKRT--HTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       110 ------~~m~~~g~~p~~~~--~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                            ....+.-+.|+...  +...-.++...|++++|+..|++..+.
T Consensus       138 ~~~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  186 (208)
T 3urz_A          138 QEKKKLETDYKKLSSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR  186 (208)
T ss_dssp             HHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence                  11112223444433  333344556678999999999988763

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=95.84  E-value=0.12  Score=33.43  Aligned_cols=65  Identities=14%  Similarity=0.021  Sum_probs=54.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      +...|..+-..+.+.|++++|+..|++..+..                       +.+...|..+-.+|.+.|++++|.+
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-----------------------p~~~~~~~~lg~~~~~~g~~~~A~~   59 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-----------------------PQNPVGYSNKAMALIKLGEYTQAIQ   59 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-----------------------CCCHHHHHHHHHHHHHhcCHHHHHH
Confidence            46678888899999999999999999887632                       1256778888889999999999999


Q ss_pred             HHHHHHhC
Q 041786          143 FLQELSDK  150 (260)
Q Consensus       143 ~~~~m~~~  150 (260)
                      .|++..+.
T Consensus        60 ~~~~al~~   67 (111)
T 2l6j_A           60 MCQQGLRY   67 (111)
T ss_dssp             HHHHHHTS
T ss_pred             HHHHHHHh
Confidence            99988763

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=95.79  E-value=0.072  Score=35.83  Aligned_cols=87  Identities=13%  Similarity=-0.001  Sum_probs=69.3

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      .+...+...+|...|+...+.. +-+...|..+-..+.+.|++++|+..|++..+.                        
T Consensus        26 ~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l------------------------   80 (121)
T 1hxi_A           26 SMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARML------------------------   80 (121)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------------------------
Confidence            3445556668999998876543 226788888889999999999999999988763                        


Q ss_pred             CC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          118 VP-DKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       118 ~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      .| +...+..+-..|.+.|++++|...|++..+
T Consensus        81 ~P~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           81 DPKDIAVHAALAVSHTNEHNANAALASLRAWLL  113 (121)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            24 456777888899999999999999998765

>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=95.73  E-value=0.12  Score=41.73  Aligned_cols=94  Identities=9%  Similarity=-0.085  Sum_probs=72.9

Q ss_pred             HHHHHhhhhhcchHHHHHHHHhcccCCCCCC--------------HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCc
Q 041786           33 RTLNRLNLTLISELSMWKTIELMKPDSLSVF--------------PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQC   98 (260)
Q Consensus        33 ~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~--------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~   98 (260)
                      ..+-..+...+...+|.+.|+...+..-...              ...|..+-.+|.+.|++++|+..|++..+..    
T Consensus       151 ~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~----  226 (336)
T 1p5q_A          151 KERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD----  226 (336)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----
Confidence            3444455566677789999988765432211              5889999999999999999999999888632    


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786           99 VLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus        99 ~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                                         +.+...|..+-.+|.+.|++++|...|++..+
T Consensus       227 -------------------p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  258 (336)
T 1p5q_A          227 -------------------SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  258 (336)
T ss_dssp             -------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -------------------CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                               12567788888999999999999999998776

>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=95.66  E-value=0.75  Score=41.03  Aligned_cols=90  Identities=8%  Similarity=0.031  Sum_probs=52.7

Q ss_pred             HHH-HHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC------
Q 041786           47 SMW-KTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP------  119 (260)
Q Consensus        47 ~a~-~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p------  119 (260)
                      .|. ++++.-... ++.+...|-..+...-+.|++++|.++|+.+.+...           ..++.. ..+. |      
T Consensus       361 ~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~-----------~~~~~~-~~~~-p~~~~~~  426 (679)
T 4e6h_A          361 TVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIH-----------LDLAAL-MEDD-PTNESAI  426 (679)
T ss_dssp             THHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH-----------HHHHHH-HHHS-TTCHHHH
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH-----------HHhhhh-hhcc-Ccchhhh
Confidence            554 666655432 223455566677777777888888888877664210           000000 0001 2      


Q ss_pred             ------CHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          120 ------DKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       120 ------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                            ....|...++...+.|.++.|..+|....+.
T Consensus       427 ~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~  463 (679)
T 4e6h_A          427 NQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRL  463 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHT
T ss_pred             hhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                  1236777777777788888888888887664

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=95.61  E-value=0.11  Score=33.35  Aligned_cols=63  Identities=17%  Similarity=0.115  Sum_probs=53.7

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~  141 (260)
                      +...|..+-..|.+.|++++|+..|++..+..                        | +...|..+-.+|.+.|++++|.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~------------------------p~~~~a~~~lg~~~~~~g~~~~A~   61 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD------------------------PDYVGTYYHLGKLYERLDRTDDAI   61 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS------------------------TTCTHHHHHHHHHHHHTTCHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------------------------CCcHHHHHHHHHHHHHcCCHHHHH
Confidence            56788899999999999999999999988632                        3 4567888899999999999999


Q ss_pred             HHHHHHHh
Q 041786          142 EFLQELSD  149 (260)
Q Consensus       142 ~~~~~m~~  149 (260)
                      +.|++..+
T Consensus        62 ~~~~~al~   69 (100)
T 3ma5_A           62 DTYAQGIE   69 (100)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99997654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=95.56  E-value=0.21  Score=30.81  Aligned_cols=64  Identities=22%  Similarity=0.288  Sum_probs=52.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      +...|..+-..+.+.|++++|...|++..+..                       +.+...+..+-..|.+.|++++|..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-----------------------~~~~~~~~~l~~~~~~~~~~~~A~~   64 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-----------------------PNNAEAWYNLGNAYYKQGDYDEAIE   64 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-----------------------CCCHHHHHHHHHHHHHHhhHHHHHH
Confidence            35677888889999999999999999877532                       1245677788889999999999999


Q ss_pred             HHHHHHh
Q 041786          143 FLQELSD  149 (260)
Q Consensus       143 ~~~~m~~  149 (260)
                      .|++..+
T Consensus        65 ~~~~a~~   71 (91)
T 1na3_A           65 YYQKALE   71 (91)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9998775

>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=95.48  E-value=0.29  Score=34.89  Aligned_cols=118  Identities=14%  Similarity=-0.065  Sum_probs=74.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCC-CcHHHHHHHHHHHHHHHhCCCC-CCHhhHHHHHHHHhccCCHHHHHH
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQ-QCVLLYNSLHVCFVRMIRKGFV-PDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~m~~~g~~-p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      ..+...-..+.+.|++++|+..|++..+..-. |+..             ..... .+...|+.+-.++.+.|++++|+.
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~-------------a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~   78 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEE-------------AFDHAGFDAFCHAGLAEALAGLRSFDEALH   78 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTS-------------CCCHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchh-------------hhhhccchHHHHHHHHHHHHHCCCHHHHHH
Confidence            34555566778899999999999988763210 0000             00000 023388889999999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHH
Q 041786          143 FLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCN  222 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~  222 (260)
                      .+++..+            +|+.-.  .+.|+  -...++.++               ...-.++...|++++|...|++
T Consensus        79 ~~~kAL~------------l~n~~~--e~~pd--~~~A~~~~~---------------~~rG~aL~~lgr~eEAl~~y~k  127 (159)
T 2hr2_A           79 SADKALH------------YFNRRG--ELNQD--EGKLWISAV---------------YSRALALDGLGRGAEAMPEFKK  127 (159)
T ss_dssp             HHHHHHH------------HHHHHC--CTTST--HHHHHHHHH---------------HHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHH------------hhhccc--cCCCc--hHHHHHHHH---------------HhHHHHHHHCCCHHHHHHHHHH
Confidence            9986553            333211  12232  122222332               4555788899999999999998


Q ss_pred             HHHC
Q 041786          223 LVED  226 (260)
Q Consensus       223 m~~~  226 (260)
                      ..+.
T Consensus       128 Alel  131 (159)
T 2hr2_A          128 VVEM  131 (159)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            8753

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=95.43  E-value=0.32  Score=35.13  Aligned_cols=137  Identities=10%  Similarity=-0.075  Sum_probs=88.6

Q ss_pred             HHHhhhhhcchHHHHHHHHhccc----CCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH
Q 041786           35 LNRLNLTLISELSMWKTIELMKP----DSLSV-FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF  109 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~----~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  109 (260)
                      +-..+...+...+|.+.+++..+    .|..+ ....+..+-..|...|++++|...|++..+.                
T Consensus        32 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~----------------   95 (203)
T 3gw4_A           32 LGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEEREL----------------   95 (203)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----------------
T ss_pred             HHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH----------------
Confidence            33444455555577777766533    23333 3567888888999999999999999987752                


Q ss_pred             HHHHhCCCCC--CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHh
Q 041786          110 VRMIRKGFVP--DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICK  187 (260)
Q Consensus       110 ~~m~~~g~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~  187 (260)
                        ..+.+-.|  ....+..+-..+...|++++|...+++....            ..   +.+   +..           
T Consensus        96 --~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~------------~~---~~~---~~~-----------  144 (203)
T 3gw4_A           96 --LASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVY------------AQ---QAD---DQV-----------  144 (203)
T ss_dssp             --HHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH------------HH---HTT---CHH-----------
T ss_pred             --HHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH------------HH---hcc---chH-----------
Confidence              22223122  2456777888899999999999999876531            11   111   110           


Q ss_pred             cCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          188 SGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       188 ~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                             .-..++..+-..+...|++++|...+++..+
T Consensus       145 -------~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          145 -------AIACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             -------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -------HHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence                   1123455666778888999999888877654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=95.38  E-value=0.72  Score=35.96  Aligned_cols=152  Identities=6%  Similarity=-0.079  Sum_probs=96.5

Q ss_pred             hhhhcchHHHHHHHHhcccCCCC-CC----HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHH
Q 041786           39 NLTLISELSMWKTIELMKPDSLS-VF----PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMI  113 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~-~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~  113 (260)
                      +...+...+|.+.+....+.... ++    ...+..+...+...|++++|+..|++..+...                  
T Consensus        85 ~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~------------------  146 (293)
T 2qfc_A           85 LCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQL------------------  146 (293)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCC------------------
T ss_pred             HHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHh------------------
Confidence            34445555788887765443221 11    12334455667788999999999998764211                  


Q ss_pred             hCCCCCC--HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCC--ChhchHHHHHHHHhcC
Q 041786          114 RKGFVPD--KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVP--DLETFNSLIETICKSG  189 (260)
Q Consensus       114 ~~g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p--~~~~~~~li~~~~~~~  189 (260)
                       ....+.  ..+|+.+-..|...|++++|...|++..+            ++.   ..+-.+  ...+|..+-..|.+.|
T Consensus       147 -~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~------------~~~---~~~~~~~~~~~~~~nlg~~y~~~~  210 (293)
T 2qfc_A          147 -TGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILK------------QLE---ALHDNEEFDVKVRYNHAKALYLDS  210 (293)
T ss_dssp             -CSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH------------HHH---HSCCCHHHHHHHHHHHHHHHHHTT
T ss_pred             -cCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH------------HHH---hcCccccchHHHHHhHHHHHHHHh
Confidence             111122  45788889999999999999999997653            111   111111  1246777777777777


Q ss_pred             C-----------------CCCCc-chHHHHHHHHhhhhhccHHHH-HHHHHHHH
Q 041786          190 E-----------------LGLCA-DVNTNKISIPAVSKEFMIDEA-FRLLCNLV  224 (260)
Q Consensus       190 ~-----------------~~~~~-~~~t~~~li~~~~~~g~~~~a-~~~~~~m~  224 (260)
                      +                 .+... -..+|..+-..|.+.|+.++| ...|++..
T Consensus       211 ~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          211 RYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            7                 11111 256788888889999999999 77676654

>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=95.35  E-value=0.15  Score=40.31  Aligned_cols=127  Identities=6%  Similarity=-0.004  Sum_probs=78.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      ...|+.+-..|.+.|++++|+..|++..+.                  ..+.|-.. -..+++.+-..|.+ |++++|++
T Consensus        76 a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l------------------~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           76 AKAFEQAGMMLKDLQRMPEAVQYIEKASVM------------------YVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHHHTTCGGGGHHHHHHHHHH------------------HHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHH------------------HHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            457888889999999999999999987642                  11122111 13466667777777 88888888


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCCCCC-ChhchHHHHHHHHhcCC-----------------CCCCcc-hHHHHHH
Q 041786          143 FLQELSDKGFNPPVRSAKQMVNKMIKQGSVP-DLETFNSLIETICKSGE-----------------LGLCAD-VNTNKIS  203 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p-~~~~~~~li~~~~~~~~-----------------~~~~~~-~~t~~~l  203 (260)
                      .|++...            ++..   .|..+ ...++..+-..|.+.|+                 .+..+. ...+..+
T Consensus       137 ~~~~Al~------------~~~~---~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  201 (307)
T 2ifu_A          137 LYQQAAA------------VFEN---EERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQ  201 (307)
T ss_dssp             HHHHHHH------------HHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHH------------HHHh---CCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHH
Confidence            8876543            2211   11100 12345555556666665                 111122 2255566


Q ss_pred             HHhhhhhccHHHHHHHHHHHH
Q 041786          204 IPAVSKEFMIDEAFRLLCNLV  224 (260)
Q Consensus       204 i~~~~~~g~~~~a~~~~~~m~  224 (260)
                      ...+...|+.++|...|++..
T Consensus       202 g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          202 VLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHHHh
Confidence            666777788888888888876

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.35  E-value=0.36  Score=39.81  Aligned_cols=168  Identities=12%  Similarity=0.057  Sum_probs=90.7

Q ss_pred             HHHHhcCChHHHHHHHHHhhhcCCCCcHH-HHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786           72 EEFGKHGLIDNAVEVFNKCTAFNCQQCVL-LYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      ..+.+.|++++|++.|....+..-..... ........  .     ..--...+..+...|.+.|++++|.+.+......
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~--~-----~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~   84 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDK--R-----RNEQETSILELGQLYVTMGAKDKLREFIPHSTEY   84 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSH--H-----HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHH--H-----hhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            45678899999999999887643111000 00000000  0     0000123677889999999999999999876542


Q ss_pred             -CCCCCHHHHHHHHHHHHHCCCCCCh-----hchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHH
Q 041786          151 -GFNPPVRSAKQMVNKMIKQGSVPDL-----ETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLV  224 (260)
Q Consensus       151 -~~~~~~~~a~~l~~~m~~~g~~p~~-----~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~  224 (260)
                       +..++...+..+...+......++.     ..|...+......++  ......++..+...|...|++++|..++++..
T Consensus        85 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~  162 (434)
T 4b4t_Q           85 MMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKR--VFLKHSLSIKLATLHYQKKQYKDSLALINDLL  162 (434)
T ss_dssp             HHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSC--CSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCc--cHHHHHHHHHHHHHHHHccChHHHHHHHHHHH
Confidence             1112222121222222111111111     122223333333321  12235567788888899999999999988876


Q ss_pred             HCCCCcCCCc----------------ccHHHHHHHHHHHH
Q 041786          225 EDGHKLFPSL----------------GQFDDAFCFFSEMQ  248 (260)
Q Consensus       225 ~~~~~p~~~~----------------g~~~~a~~~~~~m~  248 (260)
                      ..-...+...                |++++|..+++...
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al  202 (434)
T 4b4t_Q          163 REFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAAR  202 (434)
T ss_dssp             HHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Confidence            4422222222                88888888887655

>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=95.30  E-value=0.22  Score=36.36  Aligned_cols=113  Identities=12%  Similarity=-0.049  Sum_probs=72.2

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCC-CcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQ-QCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      ...+..+-..+.+.|++++|+..|++..+..-. |+...  ..+....      .......|..+-.+|.+.|++++|+.
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~--~~~~~~~------~~~~~~~~~~la~~~~~~~~~~~A~~  109 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDD--QILLDKK------KNIEISCNLNLATCYNKNKDYPKAID  109 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCC--HHHHHHH------HHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccch--hhHHHHH------HHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            345667778888999999999999988763200 00000  0000000      00013677788888999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHH
Q 041786          143 FLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCN  222 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~  222 (260)
                      .++...+.                     .|+                     +...|..+-.+|...|++++|...|++
T Consensus       110 ~~~~al~~---------------------~p~---------------------~~~~~~~lg~~~~~~~~~~~A~~~~~~  147 (198)
T 2fbn_A          110 HASKVLKI---------------------DKN---------------------NVKALYKLGVANMYFGFLEEAKENLYK  147 (198)
T ss_dssp             HHHHHHHH---------------------STT---------------------CHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHh---------------------Ccc---------------------cHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            99987652                     121                     233455556667777888888888877


Q ss_pred             HHHC
Q 041786          223 LVED  226 (260)
Q Consensus       223 m~~~  226 (260)
                      ..+.
T Consensus       148 al~~  151 (198)
T 2fbn_A          148 AASL  151 (198)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=95.26  E-value=0.056  Score=35.90  Aligned_cols=88  Identities=17%  Similarity=0.147  Sum_probs=61.9

Q ss_pred             hcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCC
Q 041786           76 KHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNP  154 (260)
Q Consensus        76 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  154 (260)
                      ..|++++|+..|++..+.+..                     .| +...|..+-..|.+.|++++|...|++..+.    
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~---------------------~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~----   56 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQ---------------------GKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQ----   56 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCC---------------------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----
T ss_pred             CCCcHHHHHHHHHHHHHcCCC---------------------CccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh----
Confidence            357788888888887753210                     13 3567778888999999999999999987752    


Q ss_pred             CHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          155 PVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       155 ~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                                       .|+                     +...+..+-.+|.+.|++++|...|++....
T Consensus        57 -----------------~p~---------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~   90 (117)
T 3k9i_A           57 -----------------FPN---------------------HQALRVFYAMVLYNLGRYEQGVELLLKIIAE   90 (117)
T ss_dssp             -----------------CTT---------------------CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -----------------CCC---------------------chHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                             122                     2445666777888999999999999988764

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=95.11  E-value=0.079  Score=36.56  Aligned_cols=114  Identities=15%  Similarity=0.038  Sum_probs=71.5

Q ss_pred             HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCC-CChhchHHHHHHHHhcCC---------
Q 041786          121 KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSV-PDLETFNSLIETICKSGE---------  190 (260)
Q Consensus       121 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~-p~~~~~~~li~~~~~~~~---------  190 (260)
                      ..++..+-..|...|++++|...+++..+.            ...   .+-. .-...+..+-..|...|+         
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~------------~~~---~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~   73 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLI------------AKE---FGDKAAERIAYSNLGNAYIFLGEFETASEYYK   73 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------HHH---HTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHH------------HHH---hCCchHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            346777888889999999999999876542            111   0000 001244555555555555         


Q ss_pred             --------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHC----CCCcCCCc------------ccHHHHHHHHH
Q 041786          191 --------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVED----GHKLFPSL------------GQFDDAFCFFS  245 (260)
Q Consensus       191 --------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~~~------------g~~~~a~~~~~  245 (260)
                              .+..+ ....+..+-..+...|++++|...+++..+.    +..+....            |+.++|...++
T Consensus        74 ~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  153 (164)
T 3ro3_A           74 KTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAE  153 (164)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHH
Confidence                    11111 2456777788889999999999999887643    11111111            89999999988


Q ss_pred             HHHh
Q 041786          246 EMQI  249 (260)
Q Consensus       246 ~m~~  249 (260)
                      +...
T Consensus       154 ~a~~  157 (164)
T 3ro3_A          154 KHLE  157 (164)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=95.09  E-value=1.3  Score=37.34  Aligned_cols=197  Identities=10%  Similarity=0.027  Sum_probs=107.7

Q ss_pred             hcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH--------
Q 041786           42 LISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGK----HGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF--------  109 (260)
Q Consensus        42 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--------  109 (260)
                      ......|.+.|+...+.|   +...+..|-..|..    .+++++|...|++..+.|   +...+..+-.++        
T Consensus        92 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~  165 (490)
T 2xm6_A           92 PQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTR  165 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCC
Confidence            334457778887776654   55666667777776    678888888888877755   223333332222        


Q ss_pred             ---------HHHHhCCCCCCHhhHHHHHHHHhc----cCCHHHHHHHHHHHHhCC-----------------CCCCHHHH
Q 041786          110 ---------VRMIRKGFVPDKRTHTILVNAWCS----SGKMREAQEFLQELSDKG-----------------FNPPVRSA  159 (260)
Q Consensus       110 ---------~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~-----------------~~~~~~~a  159 (260)
                               ++..+.|   +...+..|-..|.+    .++.++|.+.|++..+.|                 +..+..+|
T Consensus       166 d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~g~~~~~~~A  242 (490)
T 2xm6_A          166 DYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSGDELGQLHLADMYYFGIGVTQDYTQS  242 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHH
Confidence                     2222222   45555566666665    677777777777654432                 35566677


Q ss_pred             HHHHHHHHHCCCCCChhchHHHHHHHHh----cCC---------CCC-CcchHHHHHHHHhhhhh-----ccHHHHHHHH
Q 041786          160 KQMVNKMIKQGSVPDLETFNSLIETICK----SGE---------LGL-CADVNTNKISIPAVSKE-----FMIDEAFRLL  220 (260)
Q Consensus       160 ~~l~~~m~~~g~~p~~~~~~~li~~~~~----~~~---------~~~-~~~~~t~~~li~~~~~~-----g~~~~a~~~~  220 (260)
                      ..+|....+.|   +...+..+-..|..    .++         ... .-+...+..|-..|...     ++.++|...|
T Consensus       243 ~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~  319 (490)
T 2xm6_A          243 RVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWY  319 (490)
T ss_dssp             HHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHH
T ss_pred             HHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHH
Confidence            77777766554   33344444444443    222         000 01233344444445444     6777777777


Q ss_pred             HHHHHCCCCcCCCc-----------ccHHHHHHHHHHHHhc
Q 041786          221 CNLVEDGHKLFPSL-----------GQFDDAFCFFSEMQIK  250 (260)
Q Consensus       221 ~~m~~~~~~p~~~~-----------g~~~~a~~~~~~m~~~  250 (260)
                      ++..+.|...-...           .+.++|+..|+...+.
T Consensus       320 ~~a~~~~~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~  360 (490)
T 2xm6_A          320 TKSAEQGDATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK  360 (490)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC
Confidence            77666542110000           2566666666665543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=95.05  E-value=0.11  Score=41.87  Aligned_cols=136  Identities=7%  Similarity=-0.052  Sum_probs=73.0

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      ...|..+-..+.+.|++++|...|++.....  |+...+...-...+....    .....|..+-.+|.+.|++++|+..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~----l~~~~~~nla~~~~~~g~~~~A~~~  252 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFMFQLYGKYQDMALA----VKNPCHLNIAACLIKLKRYDEAIGH  252 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHHHTCCHHHHHHHHH----HHTHHHHHHHHHHHTTTCCHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchhhhhcccHHHHHHH----HHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            3456667778888999999999999877532  332211100000000000    0113778888899999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          144 LQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       144 ~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                      |++..+.                     .|+                     +...|..+-.+|...|++++|...|++.
T Consensus       253 ~~~al~~---------------------~p~---------------------~~~a~~~lg~a~~~~g~~~~A~~~l~~a  290 (338)
T 2if4_A          253 CNIVLTE---------------------EEK---------------------NPKALFRRGKAKAELGQMDSARDDFRKA  290 (338)
T ss_dssp             HHHHHHH---------------------CTT---------------------CHHHHHHHHHHHHTTTCHHHHHHHHHHT
T ss_pred             HHHHHHh---------------------CCC---------------------CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9977652                     121                     3344556666777888888888888876


Q ss_pred             HHCCCCcCCCc-------------ccHHHHHHHHHHHHh
Q 041786          224 VEDGHKLFPSL-------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       224 ~~~~~~p~~~~-------------g~~~~a~~~~~~m~~  249 (260)
                      .+.  .|+...             +..+.+..+|+.|..
T Consensus       291 l~l--~p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~  327 (338)
T 2if4_A          291 QKY--APDDKAIRRELRALAEQEKALYQKQKEMYKGIFK  327 (338)
T ss_dssp             TC-------------------------------------
T ss_pred             HHH--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            543  232211             555666677776653

>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=95.00  E-value=0.24  Score=41.64  Aligned_cols=95  Identities=6%  Similarity=-0.136  Sum_probs=66.4

Q ss_pred             cCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCC----HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCC
Q 041786           77 HGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPD----KRTHTILVNAWCSSGKMREAQEFLQELSDKGF  152 (260)
Q Consensus        77 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  152 (260)
                      .|++++|+.++++..+                   +.+.-+-|+    ..+++.|..+|...|++++|+.++++..+   
T Consensus       311 ~g~~~eA~~~~~~~L~-------------------i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~---  368 (433)
T 3qww_A          311 YKSPSELLEICELSQE-------------------KMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIK---  368 (433)
T ss_dssp             TSCHHHHHHHHHHHHH-------------------HHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---
T ss_pred             ccCHHHHHHHHHHHHH-------------------HhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHH---
Confidence            4677888888877664                   222222232    46889999999999999999999997653   


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcc-hHHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          153 NPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCAD-VNTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       153 ~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                               ++...  .|                     ...|+ ..+++.|-..|...|+.++|..+|++..+
T Consensus       369 ---------i~~~~--lG---------------------~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          369 ---------PYSKH--YP---------------------VYSLNVASMWLKLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             ---------HHHHH--SC---------------------SSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ---------HHHHH--cC---------------------CCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence                     22221  11                     11244 34688888889999999999999987654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=94.70  E-value=0.5  Score=33.05  Aligned_cols=110  Identities=14%  Similarity=0.042  Sum_probs=76.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcC------CCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFN------CQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKM  137 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  137 (260)
                      ...+...-..+.+.|++++|+..|.+....-      -.|+...+..+           -.-+...|..+-.+|.+.|++
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~nla~~~~~~~~~   79 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVEL-----------DRKNIPLYANMSQCYLNIGDL   79 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHH-----------HHTHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHH-----------HHHHHHHHHHHHHHHHhcCcH
Confidence            4556677788899999999999999877520      00111100000           012346788888899999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHH
Q 041786          138 REAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAF  217 (260)
Q Consensus       138 ~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~  217 (260)
                      ++|+..++.....                     .|+                     +...|..+-.+|...|++++|.
T Consensus        80 ~~A~~~~~~al~~---------------------~p~---------------------~~~a~~~~g~~~~~~g~~~~A~  117 (162)
T 3rkv_A           80 HEAEETSSEVLKR---------------------EET---------------------NEKALFRRAKARIAAWKLDEAE  117 (162)
T ss_dssp             HHHHHHHHHHHHH---------------------STT---------------------CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhc---------------------CCc---------------------chHHHHHHHHHHHHHhcHHHHH
Confidence            9999999987652                     122                     2445666667888889999999


Q ss_pred             HHHHHHHHC
Q 041786          218 RLLCNLVED  226 (260)
Q Consensus       218 ~~~~~m~~~  226 (260)
                      ..|++..+.
T Consensus       118 ~~~~~al~l  126 (162)
T 3rkv_A          118 EDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            999988775

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=94.67  E-value=1.2  Score=34.92  Aligned_cols=127  Identities=10%  Similarity=-0.090  Sum_probs=86.7

Q ss_pred             HhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCC
Q 041786           37 RLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKG  116 (260)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g  116 (260)
                      .++...+...+|.++|+.+...+  |+....-.+-..+.+.+++++|+..|+......                      
T Consensus       110 ~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~----------------------  165 (282)
T 4f3v_A          110 ACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP----------------------  165 (282)
T ss_dssp             HHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS----------------------
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC----------------------
Confidence            44555666669999999987654  443355556668899999999999998544310                      


Q ss_pred             CCCC--HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCC
Q 041786          117 FVPD--KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLC  194 (260)
Q Consensus       117 ~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~  194 (260)
                       .|.  ...+..+=.++.+.|++++|++.|++.....                   ..|..                   
T Consensus       166 -d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~-------------------~~P~~-------------------  206 (282)
T 4f3v_A          166 -DKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSP-------------------AGEAC-------------------  206 (282)
T ss_dssp             -CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTST-------------------TTTTT-------------------
T ss_pred             -CcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCC-------------------CCccc-------------------
Confidence             111  2345566778899999999999999765321                   00211                   


Q ss_pred             cchHHHHHHHHhhhhhccHHHHHHHHHHHHHCC
Q 041786          195 ADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDG  227 (260)
Q Consensus       195 ~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~  227 (260)
                       ........-.++.+.|+.++|..+|+++....
T Consensus       207 -~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          207 -ARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             -HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             -cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence             11223334456788899999999999998754

>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=94.43  E-value=0.8  Score=40.82  Aligned_cols=163  Identities=10%  Similarity=0.032  Sum_probs=98.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHH-HHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAV-EVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~-~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  141 (260)
                      +...|-.....+.+.|+.++|. ++|+.....                       ++.+...|-..+...-+.|+++.|.
T Consensus       342 ~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-----------------------~P~s~~Lwl~~a~~ee~~~~~e~aR  398 (679)
T 4e6h_A          342 APEIWFNMANYQGEKNTDSTVITKYLKLGQQC-----------------------IPNSAVLAFSLSEQYELNTKIPEIE  398 (679)
T ss_dssp             CHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-----------------------CTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-----------------------CCCCHHHHHHHHHHHHHhCCHHHHH
Confidence            4455555555566666666675 777665431                       2234455666777777888888888


Q ss_pred             HHHHHHHhCC---------CCC----------------------------CHHHHHHHHHHHHHC-C-CCCChhchHHHH
Q 041786          142 EFLQELSDKG---------FNP----------------------------PVRSAKQMVNKMIKQ-G-SVPDLETFNSLI  182 (260)
Q Consensus       142 ~~~~~m~~~~---------~~~----------------------------~~~~a~~l~~~m~~~-g-~~p~~~~~~~li  182 (260)
                      ++|+.+....         ..|                            +...|..+|....+. + ..+......+.+
T Consensus       399 ~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~l  478 (679)
T 4e6h_A          399 TTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYI  478 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHH
Confidence            8888776531         012                            122788888887765 2 122222222333


Q ss_pred             HHHHhcCC-------------CCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc-------------cc
Q 041786          183 ETICKSGE-------------LGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL-------------GQ  236 (260)
Q Consensus       183 ~~~~~~~~-------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-------------g~  236 (260)
                      .-  +.+.             ..+.-+...|...+.-....|+.+.|..+|+........+....             |+
T Consensus       479 E~--~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~  556 (679)
T 4e6h_A          479 EY--HISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGS  556 (679)
T ss_dssp             HH--TTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCC
T ss_pred             HH--HhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC
Confidence            32  2221             11122345566777777788999999999998876543221111             88


Q ss_pred             HHHHHHHHHHHHhc
Q 041786          237 FDDAFCFFSEMQIK  250 (260)
Q Consensus       237 ~~~a~~~~~~m~~~  250 (260)
                      .+.+.++.++|...
T Consensus       557 ~~~~~~v~~R~~~~  570 (679)
T 4e6h_A          557 LNSVRTLEKRFFEK  570 (679)
T ss_dssp             SHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            89999999888765

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=94.38  E-value=0.13  Score=44.07  Aligned_cols=132  Identities=8%  Similarity=-0.056  Sum_probs=88.6

Q ss_pred             cchHHHHHHHHhccc---C--CC-CC-CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhC
Q 041786           43 ISELSMWKTIELMKP---D--SL-SV-FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRK  115 (260)
Q Consensus        43 ~~~~~a~~~~~~m~~---~--g~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~  115 (260)
                      +...+|+.++++..+   .  |- .| ...+++.|...|...|++++|+.++++..+.                 .....
T Consensus       323 g~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i-----------------~~~~l  385 (490)
T 3n71_A          323 GLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDG-----------------YMKLY  385 (490)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------------HHHHS
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH-----------------HHHHc
Confidence            344466666644321   1  21 12 3578999999999999999999999987752                 01112


Q ss_pred             C-CCCC-HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCC
Q 041786          116 G-FVPD-KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGL  193 (260)
Q Consensus       116 g-~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~  193 (260)
                      | --|+ ..+++.|-..|...|++++|+.++++..            +++...  .|  ||                   
T Consensus       386 G~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al------------~i~~~~--lG--~~-------------------  430 (490)
T 3n71_A          386 HHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAY------------AILLVT--HG--PS-------------------  430 (490)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH------------HHHHHH--TC--TT-------------------
T ss_pred             CCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH------------HHHHHH--hC--CC-------------------
Confidence            2 1233 5688999999999999999999998644            333332  11  11                   


Q ss_pred             Ccc-hHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          194 CAD-VNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       194 ~~~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      .|+ ..+.+.+-.++...|++++|+.+|..+++.
T Consensus       431 Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          431 HPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            132 234566667888899999999999998764

>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=94.34  E-value=0.79  Score=33.24  Aligned_cols=90  Identities=11%  Similarity=-0.091  Sum_probs=67.8

Q ss_pred             HhhhhhcchHHHHHHHHhcccCCC-CCC--------------HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHH
Q 041786           37 RLNLTLISELSMWKTIELMKPDSL-SVF--------------PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLL  101 (260)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~m~~~g~-~~~--------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~  101 (260)
                      ..+...+...+|.+.|+...+..- .|+              ...|..+-..|.+.|++++|+..++...+..       
T Consensus        46 ~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-------  118 (198)
T 2fbn_A           46 NEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-------  118 (198)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-------
Confidence            334455566689998888755321 121              2788888899999999999999999887631       


Q ss_pred             HHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          102 YNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       102 ~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                                      ..+...+..+-.+|.+.|++++|.+.|++..+
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                            13566778888899999999999999998765

>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=94.24  E-value=0.52  Score=39.72  Aligned_cols=78  Identities=10%  Similarity=-0.085  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      ...|..+-..|.+.|++++|+..|++..+..  |+...+..-..  .+.    -.-....|..+-.+|.+.|++++|+..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~--~~~----~~~~~~~~~nla~~~~~~g~~~~A~~~  339 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL--EMEYGLSEKES--KAS----ESFLLAAFLNLAMCYLKLREYTKAVEC  339 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TTCCSCCHHHH--HHH----HHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccCChHHH--HHH----HHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            4567778889999999999999999887531  00000000000  000    000146788888899999999999999


Q ss_pred             HHHHHh
Q 041786          144 LQELSD  149 (260)
Q Consensus       144 ~~~m~~  149 (260)
                      |++..+
T Consensus       340 ~~~al~  345 (457)
T 1kt0_A          340 CDKALG  345 (457)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            998775

>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=94.21  E-value=0.15  Score=42.87  Aligned_cols=88  Identities=9%  Similarity=-0.034  Sum_probs=62.3

Q ss_pred             chHHHHHHHHhccc---C--CC-CCC-HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCC
Q 041786           44 SELSMWKTIELMKP---D--SL-SVF-PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKG  116 (260)
Q Consensus        44 ~~~~a~~~~~~m~~---~--g~-~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g  116 (260)
                      ...+|+.++++..+   .  |- .|+ ..+++.|...|...|++++|+.++++..+.                 .....|
T Consensus       313 ~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i-----------------~~~~lG  375 (433)
T 3qww_A          313 SPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKP-----------------YSKHYP  375 (433)
T ss_dssp             CHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------------HHHHSC
T ss_pred             CHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHH-----------------HHHHcC
Confidence            34466666655322   2  21 122 578999999999999999999999988752                 111122


Q ss_pred             -CCCC-HhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 041786          117 -FVPD-KRTHTILVNAWCSSGKMREAQEFLQELS  148 (260)
Q Consensus       117 -~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~  148 (260)
                       --|+ ..+++.|-..|...|++++|+.++++..
T Consensus       376 ~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          376 VYSLNVASMWLKLGRLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             SSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence             2233 4688999999999999999999998654

>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=94.05  E-value=0.23  Score=42.20  Aligned_cols=55  Identities=11%  Similarity=0.034  Sum_probs=36.9

Q ss_pred             HHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786           72 EEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      ..+.+.|++++|++.|++..+..  |                     -+...|..+-.+|.+.|++++|++.+++..+
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~--p---------------------~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   68 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELN--P---------------------SNAIYYGNRSLAYLRTECYGYALGDATRAIE   68 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHC--T---------------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC--C---------------------ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            34567899999999999887642  1                     1345556666666666666666666665554

>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=93.99  E-value=0.52  Score=39.52  Aligned_cols=103  Identities=13%  Similarity=0.001  Sum_probs=72.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC----CHhhHHHHHHHHhccCCHHHHHHHH
Q 041786           69 LIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP----DKRTHTILVNAWCSSGKMREAQEFL  144 (260)
Q Consensus        69 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p----~~~~~~~li~~~~~~g~~~~a~~~~  144 (260)
                      ..+..+.+.|++++|+.++++..+..                   +.-+.|    ...+++.|...|...|++++|+.++
T Consensus       292 ~~ie~~~~~g~~~~a~~~~~~~L~~~-------------------~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~  352 (429)
T 3qwp_A          292 KKIEELKAHWKWEQVLAMCQAIISSN-------------------SERLPDINIYQLKVLDCAMDACINLGLLEEALFYG  352 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTCS-------------------SCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHhc-------------------cCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHH
Confidence            33566777889999999998877531                   111222    3468899999999999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcc-hHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          145 QELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCAD-VNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       145 ~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~-~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                      ++...            ++...  .|                     ...|+ ..+++.|-..|...|++++|..++++.
T Consensus       353 ~~~L~------------i~~~~--lg---------------------~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~A  397 (429)
T 3qwp_A          353 TRTME------------PYRIF--FP---------------------GSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLA  397 (429)
T ss_dssp             HHHHH------------HHHHH--SC---------------------SSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHH------------hHHHH--cC---------------------CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            86653            22221  11                     12243 346778888899999999999998876


Q ss_pred             HH
Q 041786          224 VE  225 (260)
Q Consensus       224 ~~  225 (260)
                      .+
T Consensus       398 l~  399 (429)
T 3qwp_A          398 FD  399 (429)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>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=93.39  E-value=0.65  Score=39.12  Aligned_cols=92  Identities=8%  Similarity=-0.062  Sum_probs=70.4

Q ss_pred             HHHhhhhhcchHHHHHHHHhcccCCCCCC--------------HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHH
Q 041786           35 LNRLNLTLISELSMWKTIELMKPDSLSVF--------------PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVL  100 (260)
Q Consensus        35 ~~~~~~~~~~~~~a~~~~~~m~~~g~~~~--------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~  100 (260)
                      .-..+...+....|.+.|+...+..-...              ...|..+-.+|.+.|++++|+..|++..+..      
T Consensus       274 ~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~------  347 (457)
T 1kt0_A          274 KGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD------  347 (457)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS------
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC------
Confidence            34445556666688888887654321111              5788899999999999999999999988632      


Q ss_pred             HHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          101 LYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       101 ~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                                       .-+...|..+-.+|.+.|++++|+..|++..+
T Consensus       348 -----------------p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~  379 (457)
T 1kt0_A          348 -----------------SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE  379 (457)
T ss_dssp             -----------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             -----------------CccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence                             12567788888999999999999999998876

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.26  E-value=2.9  Score=34.21  Aligned_cols=145  Identities=11%  Similarity=-0.011  Sum_probs=84.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhcC-CCCcHHH---HHHHH-HHH-----------------HHHHhCCCCCC-Hh
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCTAFN-CQQCVLL---YNSLH-VCF-----------------VRMIRKGFVPD-KR  122 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~---~~~li-~~~-----------------~~m~~~g~~p~-~~  122 (260)
                      .+..|...|.+.|++++|.+.+......- ..++..+   ....+ ..+                 ......+..+. ..
T Consensus        57 al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  136 (434)
T 4b4t_Q           57 SILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHS  136 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHH
Confidence            47788899999999999999998876531 1122111   11111 111                 11222333333 45


Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCC-ChhchHHHHHHHHhcCC-----------
Q 041786          123 THTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVP-DLETFNSLIETICKSGE-----------  190 (260)
Q Consensus       123 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p-~~~~~~~li~~~~~~~~-----------  190 (260)
                      ++..+...|...|++++|..++++....-               ...+-.| ....|..+...|...|+           
T Consensus       137 ~~~~la~~~~~~g~~~~A~~~l~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  201 (434)
T 4b4t_Q          137 LSIKLATLHYQKKQYKDSLALINDLLREF---------------KKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAA  201 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHH---------------TTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccChHHHHHHHHHHHHHH---------------HhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHH
Confidence            67778888999999999999888765321               0111111 12355556666666665           


Q ss_pred             ------CCCCcc--hHHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          191 ------LGLCAD--VNTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       191 ------~~~~~~--~~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                            ....+.  ...+..+...+...|++++|...|.+..+
T Consensus       202 l~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          202 RTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence                  111111  34566666677777888888777666543

>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=93.01  E-value=1.3  Score=36.19  Aligned_cols=112  Identities=13%  Similarity=-0.038  Sum_probs=74.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHH
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      ..|..+-..+.+.|++++|+..|++..+.-  +...   .. ...+..  ....| +...|..+-.+|.+.|++++|++.
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~--~~~~---~~-~~~~~~--~~~~~~~~~~~~nla~~~~~~g~~~~A~~~  295 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYV--EGSR---AA-AEDADG--AKLQPVALSCVLNIGACKLKMSDWQGAVDS  295 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHHH---HH-SCHHHH--GGGHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHh--hcCc---cc-cChHHH--HHHHHHHHHHHHHHHHHHHhccCHHHHHHH
Confidence            457777888999999999999999877510  0000   00 000000  01222 456788888899999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          144 LQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       144 ~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                      +++..+.                     .|+                     +...|..+-.+|...|++++|...|++.
T Consensus       296 ~~~al~~---------------------~p~---------------------~~~a~~~lg~~~~~~g~~~eA~~~l~~A  333 (370)
T 1ihg_A          296 CLEALEI---------------------DPS---------------------NTKALYRRAQGWQGLKEYDQALADLKKA  333 (370)
T ss_dssp             HHHHHTT---------------------CTT---------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHh---------------------Cch---------------------hHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            9987752                     221                     2344555667778888999999999888


Q ss_pred             HHC
Q 041786          224 VED  226 (260)
Q Consensus       224 ~~~  226 (260)
                      .+.
T Consensus       334 l~l  336 (370)
T 1ihg_A          334 QEI  336 (370)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            765

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=92.99  E-value=0.75  Score=29.31  Aligned_cols=65  Identities=20%  Similarity=0.109  Sum_probs=49.8

Q ss_pred             CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHH
Q 041786          120 DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNT  199 (260)
Q Consensus       120 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t  199 (260)
                      +...+..+-..|.+.|++++|+..|++..+.                     .|+                     +...
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---------------------~p~---------------------~~~a   43 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVET---------------------DPD---------------------YVGT   43 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------------STT---------------------CTHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---------------------CCC---------------------cHHH
Confidence            4567788888999999999999999987752                     121                     2345


Q ss_pred             HHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          200 NKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       200 ~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      |..+-.+|...|++++|...|++..+.
T Consensus        44 ~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A           44 YYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            666777788888999999998887643

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=92.71  E-value=1.1  Score=31.28  Aligned_cols=64  Identities=16%  Similarity=0.062  Sum_probs=53.5

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      ...|..+-.+|.+.|++++|+..++...+..                       +.+...|..+-.+|...|++++|...
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-----------------------p~~~~a~~~~g~~~~~~g~~~~A~~~  119 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKRE-----------------------ETNEKALFRRAKARIAAWKLDEAEED  119 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-----------------------TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-----------------------CcchHHHHHHHHHHHHHhcHHHHHHH
Confidence            4678888999999999999999999887632                       12467788888999999999999999


Q ss_pred             HHHHHhC
Q 041786          144 LQELSDK  150 (260)
Q Consensus       144 ~~~m~~~  150 (260)
                      |+.....
T Consensus       120 ~~~al~l  126 (162)
T 3rkv_A          120 LKLLLRN  126 (162)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            9987763

>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=91.91  E-value=1.1  Score=37.99  Aligned_cols=84  Identities=7%  Similarity=-0.128  Sum_probs=55.1

Q ss_pred             hcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCH
Q 041786           42 LISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDK  121 (260)
Q Consensus        42 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~  121 (260)
                      .+...+|.+.+++..+.. +-+...|..+-..|.+.|++++|+..|++..+..                       .-+.
T Consensus        19 ~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-----------------------p~~~   74 (477)
T 1wao_1           19 AKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-----------------------KKYI   74 (477)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-----------------------TTCH
T ss_pred             hCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-----------------------CCCH
Confidence            334446777776654432 1246778888888888888888888888776531                       1234


Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          122 RTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       122 ~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      ..|..+-.+|.+.|++++|.+.|++..+
T Consensus        75 ~~~~~lg~~~~~~g~~~eA~~~~~~al~  102 (477)
T 1wao_1           75 KGYYRRAASNMALGKFRAALRDYETVVK  102 (477)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5666666677777777777777776554

>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=91.33  E-value=0.25  Score=41.49  Aligned_cols=89  Identities=11%  Similarity=-0.056  Sum_probs=63.0

Q ss_pred             cchHHHHHHHHhcccC---CCCC----CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhC
Q 041786           43 ISELSMWKTIELMKPD---SLSV----FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRK  115 (260)
Q Consensus        43 ~~~~~a~~~~~~m~~~---g~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~  115 (260)
                      +...+|+++++...+.   -+.|    ...+++.|...|...|++++|+.++++..+.                 .....
T Consensus       301 g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i-----------------~~~~l  363 (429)
T 3qwp_A          301 WKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEP-----------------YRIFF  363 (429)
T ss_dssp             TCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-----------------HHHHS
T ss_pred             ccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHh-----------------HHHHc
Confidence            3444777777665322   1222    2568899999999999999999999987751                 01111


Q ss_pred             C-CCCC-HhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 041786          116 G-FVPD-KRTHTILVNAWCSSGKMREAQEFLQELS  148 (260)
Q Consensus       116 g-~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~  148 (260)
                      | --|+ ..+++.|-..|...|++++|+.++++..
T Consensus       364 g~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          364 PGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            2 2233 4688899999999999999999998644

>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=91.22  E-value=3.4  Score=30.37  Aligned_cols=58  Identities=9%  Similarity=-0.130  Sum_probs=43.1

Q ss_pred             HHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcC----ChHHHHHHHHHhhhcC
Q 041786           33 RTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHG----LIDNAVEVFNKCTAFN   94 (260)
Q Consensus        33 ~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~~   94 (260)
                      ..+-.++.......+|.+.|+...+.|   +...+..|-..|.. +    +.++|...|++..+.|
T Consensus        22 ~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g   83 (212)
T 3rjv_A           22 YYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG   83 (212)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC
Confidence            334444555566679999999887765   56777777777877 6    8999999999887643

>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=91.03  E-value=2.8  Score=29.72  Aligned_cols=94  Identities=14%  Similarity=0.005  Sum_probs=65.0

Q ss_pred             hhhhcchHHHHHHHHhcccCCCC-C-----C-----HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHH
Q 041786           39 NLTLISELSMWKTIELMKPDSLS-V-----F-----PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHV  107 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~-~-----~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  107 (260)
                      ....+...+|.+.|+...+..-. |     +     ...|+.+-.++.+.|++++|+..|+...+.        ||    
T Consensus        21 l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l--------~n----   88 (159)
T 2hr2_A           21 QLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHY--------FN----   88 (159)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--------HH----
T ss_pred             HHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--------hh----
Confidence            33445555777777765433111 0     2     238889999999999999999999988752        11    


Q ss_pred             HHHHHHhCCCCCC-HhhH----HHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          108 CFVRMIRKGFVPD-KRTH----TILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       108 ~~~~m~~~g~~p~-~~~~----~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                           ....+.|+ ...|    ...=.++...|++++|+..|++..+
T Consensus        89 -----~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           89 -----RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             -----HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -----ccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence                 11223565 3466    7777889999999999999997654

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=90.90  E-value=3.3  Score=37.15  Aligned_cols=129  Identities=13%  Similarity=-0.013  Sum_probs=72.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH--HHHHh-CCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF--VRMIR-KGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--~~m~~-~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      ....++..+.+.|.+++|+++.++-.        .-+..-+.+.  +...+ ...-.+...|..|-..+.+.|+++.|++
T Consensus       631 ~~~~~~~~l~~~~~~~~a~~~~~~~~--------~~f~~~l~~~~~~~A~~~~~~~~~~~~W~~la~~al~~~~~~~A~~  702 (814)
T 3mkq_A          631 SLTKIARFLEGQEYYEEALNISPDQD--------QKFELALKVGQLTLARDLLTDESAEMKWRALGDASLQRFNFKLAIE  702 (814)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHCCCHH--------HHHHHHHHHTCHHHHHHHHTTCCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChHHheecCCCcc--------hheehhhhcCCHHHHHHHHHhhCcHhHHHHHHHHHHHcCCHHHHHH
Confidence            33667777777777777776553211        1111112111  11111 1122467899999999999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHH
Q 041786          143 FLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCN  222 (260)
Q Consensus       143 ~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~  222 (260)
                      +|..+...      ..+..++..   .|   +..-...+.......|         -++.-...|.+.|++++|.++|.+
T Consensus       703 ~y~~~~d~------~~l~~l~~~---~~---~~~~~~~~~~~a~~~~---------~~~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          703 AFTNAHDL------ESLFLLHSS---FN---NKEGLVTLAKDAETTG---------KFNLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHHHHTCH------HHHHHHHHH---TT---CHHHHHHHHHHHHHTT---------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHccCh------hhhHHHHHH---cC---CHHHHHHHHHHHHHcC---------chHHHHHHHHHcCCHHHHHHHHHH
Confidence            99987642      122222221   11   2233333333333333         234455567777888888887765


Q ss_pred             H
Q 041786          223 L  223 (260)
Q Consensus       223 m  223 (260)
                      +
T Consensus       762 ~  762 (814)
T 3mkq_A          762 S  762 (814)
T ss_dssp             T
T ss_pred             c
Confidence            4

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=90.84  E-value=1.6  Score=27.64  Aligned_cols=66  Identities=15%  Similarity=0.035  Sum_probs=50.2

Q ss_pred             CCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchH
Q 041786          119 PDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVN  198 (260)
Q Consensus       119 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~  198 (260)
                      ++...|..+-..+.+.|++++|.+.|++..+.                     .|+                     +..
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~---------------------~p~---------------------~~~   39 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITA---------------------QPQ---------------------NPV   39 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH---------------------CTT---------------------CHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---------------------CCC---------------------CHH
Confidence            34566777888899999999999999987652                     222                     234


Q ss_pred             HHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          199 TNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       199 t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      .|..+-.+|.+.|++++|...|++..+.
T Consensus        40 ~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A           40 GYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            5666667788888999999999988764

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=90.07  E-value=1.7  Score=27.07  Aligned_cols=57  Identities=23%  Similarity=0.282  Sum_probs=45.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHh-hHHHHHHHHhccCCHHHHHHHHHHH
Q 041786           70 IIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKR-THTILVNAWCSSGKMREAQEFLQEL  147 (260)
Q Consensus        70 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~-~~~~li~~~~~~g~~~~a~~~~~~m  147 (260)
                      ....+.+.|++++|...|++..+.                        .| +.. .|..+-..|.+.|++++|.+.|++.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~------------------------~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a   61 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQT------------------------EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSA   61 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH------------------------CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH------------------------CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            345677889999999999988763                        24 345 7777888899999999999999987


Q ss_pred             HhC
Q 041786          148 SDK  150 (260)
Q Consensus       148 ~~~  150 (260)
                      .+.
T Consensus        62 l~~   64 (99)
T 2kc7_A           62 IEL   64 (99)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            763

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=89.83  E-value=3.9  Score=28.76  Aligned_cols=94  Identities=12%  Similarity=0.040  Sum_probs=63.3

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcC---ChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC--CH
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHG---LIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP--DK  121 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p--~~  121 (260)
                      .+.+-|.+-.+.|. ++..+.-.+-.++++.+   ++++++.+|++..+..                       .|  +.
T Consensus        16 ~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-----------------------~p~~~r   71 (152)
T 1pc2_A           16 KFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-----------------------SKEEQR   71 (152)
T ss_dssp             HHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-----------------------CHHHHH
T ss_pred             HHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-----------------------CccchH
Confidence            34445554444443 67888878888888888   6679999999877532                       13  12


Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 041786          122 RTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKM  166 (260)
Q Consensus       122 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m  166 (260)
                      ..+-.|--+|.+.|++++|.+.++...+.  .|+...|..+...+
T Consensus        72 d~lY~LAv~~~kl~~Y~~A~~y~~~lL~i--eP~n~QA~~Lk~~i  114 (152)
T 1pc2_A           72 DYVFYLAVGNYRLKEYEKALKYVRGLLQT--EPQNNQAKELERLI  114 (152)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhc--CCCCHHHHHHHHHH
Confidence            22333445669999999999999998864  67776666664443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=89.48  E-value=2.3  Score=30.74  Aligned_cols=125  Identities=14%  Similarity=0.102  Sum_probs=75.3

Q ss_pred             HHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 041786           72 EEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKG  151 (260)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  151 (260)
                      ....+.|+++.|.++.+++.                            +...|..|=....+.|+++-|+++|......+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l~----------------------------~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D~~   64 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKLN----------------------------DSITWERLIQEALAQGNASLAEMIYQTQHSFD   64 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHHC----------------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHTTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHhC----------------------------CHHHHHHHHHHHHHcCChHHHHHHHHHhCCHH
Confidence            34567889999988876542                            56788889999999999999999888665321


Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcC
Q 041786          152 FNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLF  231 (260)
Q Consensus       152 ~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  231 (260)
                            .. .++..  -.|   |..-+..+.......|         -+|.-...+.-.|+++++.++|.+   .|..|.
T Consensus        65 ------~L-~~Ly~--~tg---~~e~L~kla~iA~~~g---------~~n~af~~~l~lGdv~~~i~lL~~---~~r~~e  120 (177)
T 3mkq_B           65 ------KL-SFLYL--VTG---DVNKLSKMQNIAQTRE---------DFGSMLLNTFYNNSTKERSSIFAE---GGSLPL  120 (177)
T ss_dssp             ------HH-HHHHH--HHT---CHHHHHHHHHHHHHTT---------CHHHHHHHHHHHTCHHHHHHHHHH---TTCHHH
T ss_pred             ------HH-HHHHH--HhC---CHHHHHHHHHHHHHCc---------cHHHHHHHHHHcCCHHHHHHHHHH---CCChHH
Confidence                  00 00000  000   1222222222222222         356666677778888888888744   333333


Q ss_pred             CCc-----ccHHHHHHHHHHHH
Q 041786          232 PSL-----GQFDDAFCFFSEMQ  248 (260)
Q Consensus       232 ~~~-----g~~~~a~~~~~~m~  248 (260)
                      ...     |..+.|.++.+++.
T Consensus       121 A~~~A~t~g~~~~a~~~~~~~~  142 (177)
T 3mkq_B          121 AYAVAKANGDEAAASAFLEQAE  142 (177)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HHHHHHHcCcHHHHHHHHHHhC
Confidence            322     77788888877764

>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=89.39  E-value=3.7  Score=33.43  Aligned_cols=63  Identities=13%  Similarity=0.017  Sum_probs=53.4

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~  141 (260)
                      +...|..+-.+|.+.|++++|+..+++..+.                        .| +...|..+-.+|.+.|++++|.
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~------------------------~p~~~~a~~~lg~~~~~~g~~~eA~  327 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEI------------------------DPSNTKALYRRAQGWQGLKEYDQAL  327 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT------------------------CTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHh------------------------CchhHHHHHHHHHHHHHccCHHHHH
Confidence            4678888999999999999999999988752                        23 4667788888999999999999


Q ss_pred             HHHHHHHh
Q 041786          142 EFLQELSD  149 (260)
Q Consensus       142 ~~~~~m~~  149 (260)
                      +.|++..+
T Consensus       328 ~~l~~Al~  335 (370)
T 1ihg_A          328 ADLKKAQE  335 (370)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998775

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=89.10  E-value=0.92  Score=28.42  Aligned_cols=78  Identities=14%  Similarity=0.077  Sum_probs=54.8

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchH-HHHHHHH
Q 041786          127 LVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVN-TNKISIP  205 (260)
Q Consensus       127 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~-t~~~li~  205 (260)
                      .-..+.+.|++++|.+.|++..+.                     .|+                     +.. .|..+-.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~---------------------~p~---------------------~~~~~~~~lg~   43 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQT---------------------EPV---------------------GKDEAYYLMGN   43 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH---------------------CSS---------------------THHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH---------------------CCC---------------------cHHHHHHHHHH
Confidence            345677889999999999887652                     122                     233 5556667


Q ss_pred             hhhhhccHHHHHHHHHHHHHCCCCcCCCc----ccHHHHHHHHHHHH
Q 041786          206 AVSKEFMIDEAFRLLCNLVEDGHKLFPSL----GQFDDAFCFFSEMQ  248 (260)
Q Consensus       206 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~----g~~~~a~~~~~~m~  248 (260)
                      .|...|++++|...|++..+..  |+...    +.+.++...|++..
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~a~~~~~~~~   88 (99)
T 2kc7_A           44 AYRKLGDWQKALNNYQSAIELN--PDSPALQARKMVMDILNFYNKDM   88 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC--TTSTHHHHHHHHHHHHHHHCCTT
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHHHHHHHh
Confidence            7888899999999999988754  33332    66777777776554

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=89.06  E-value=2.2  Score=34.16  Aligned_cols=87  Identities=11%  Similarity=-0.087  Sum_probs=64.4

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCH------------------HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcH
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFP------------------QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCV   99 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~------------------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~   99 (260)
                      .+...+....|.+.|+...+.  .|+.                  ..|..+-.+|.+.|++++|+..|+...+..     
T Consensus       188 ~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-----  260 (338)
T 2if4_A          188 SLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTEE-----  260 (338)
T ss_dssp             HTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHHC-----
T ss_pred             HHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----
Confidence            334444555777777765433  2332                  278888899999999999999999877532     


Q ss_pred             HHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          100 LLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       100 ~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                                        .-+...|..+-.+|...|++++|+..|++..+
T Consensus       261 ------------------p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~  292 (338)
T 2if4_A          261 ------------------EKNPKALFRRGKAKAELGQMDSARDDFRKAQK  292 (338)
T ss_dssp             ------------------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             ------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                              12567788888999999999999999997764

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=88.99  E-value=2.5  Score=25.50  Aligned_cols=64  Identities=23%  Similarity=0.144  Sum_probs=48.4

Q ss_pred             HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHH
Q 041786          121 KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTN  200 (260)
Q Consensus       121 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~  200 (260)
                      ...+..+-..+.+.|++++|...|++..+.                     .|+                     +...+
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~---------------------~~~---------------------~~~~~   46 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL---------------------DPN---------------------NAEAW   46 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------------CTT---------------------CHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhc---------------------CCC---------------------CHHHH
Confidence            456777788899999999999999877642                     121                     23445


Q ss_pred             HHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          201 KISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       201 ~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      ..+-..|.+.|++++|...|++..+.
T Consensus        47 ~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A           47 YNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            56667788889999999999988764

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=88.15  E-value=1.6  Score=28.24  Aligned_cols=60  Identities=8%  Similarity=-0.030  Sum_probs=46.6

Q ss_pred             hHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 041786           32 ERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTA   92 (260)
Q Consensus        32 ~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (260)
                      ...+-..+...+...+|.+.|+...+.. +.+...|..+-..|.+.|++++|...|++..+
T Consensus        22 ~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A           22 RFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444555666777779999998876543 23577889999999999999999999998775

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=87.93  E-value=8.7  Score=30.40  Aligned_cols=67  Identities=12%  Similarity=0.048  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC------------CCC----CcchHHHHHHHHhhhhhccHHHHHHHHH
Q 041786          158 SAKQMVNKMIKQGSVPDLETFNSLIETICKSGE------------LGL----CADVNTNKISIPAVSKEFMIDEAFRLLC  221 (260)
Q Consensus       158 ~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~------------~~~----~~~~~t~~~li~~~~~~g~~~~a~~~~~  221 (260)
                      ++++.+....+... -|...|+-+-..+.+.|+            ...    ..+...+..+...|.+.|+.++|.++++
T Consensus       204 eEl~~~~~aI~~~p-~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~  282 (306)
T 3dra_A          204 EELNYVKDKIVKCP-QNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYD  282 (306)
T ss_dssp             HHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCC-CCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Confidence            34444444444432 255666666666666665            011    2355677788888888889999999988


Q ss_pred             HHHH
Q 041786          222 NLVE  225 (260)
Q Consensus       222 ~m~~  225 (260)
                      .+.+
T Consensus       283 ~l~~  286 (306)
T 3dra_A          283 LLKS  286 (306)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            8775

>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=87.83  E-value=2.2  Score=27.67  Aligned_cols=38  Identities=16%  Similarity=0.262  Sum_probs=34.1

Q ss_pred             HHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          112 MIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       112 m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      +....+.|+..+..+.++||.|.+++..|.++|+-.+.
T Consensus        36 l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           36 LVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             HTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            34567889999999999999999999999999998875

>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=87.03  E-value=2.3  Score=30.17  Aligned_cols=78  Identities=17%  Similarity=0.148  Sum_probs=50.6

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCC----------hHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCC
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGL----------IDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKG  116 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g  116 (260)
                      +|.+.++...+.. +-+...|+.+=.++.+.++          +++|+..|++..+.                       
T Consensus        20 eA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l-----------------------   75 (158)
T 1zu2_A           20 QIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI-----------------------   75 (158)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH-----------------------
T ss_pred             HHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh-----------------------
Confidence            5666666654432 2256777766666666655          45888888877763                       


Q ss_pred             CCCC-HhhHHHHHHHHhcc-----------CCHHHHHHHHHHHHh
Q 041786          117 FVPD-KRTHTILVNAWCSS-----------GKMREAQEFLQELSD  149 (260)
Q Consensus       117 ~~p~-~~~~~~li~~~~~~-----------g~~~~a~~~~~~m~~  149 (260)
                       .|+ ...|..+=.+|...           |++++|.+.|++..+
T Consensus        76 -dP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~  119 (158)
T 1zu2_A           76 -DPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD  119 (158)
T ss_dssp             -CTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CcCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHH
Confidence             243 34555566666554           589999999998776

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=86.80  E-value=4.5  Score=25.89  Aligned_cols=70  Identities=7%  Similarity=-0.060  Sum_probs=55.0

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhC--CCCCCHhhHHHHHHHHhccCCHHH
Q 041786           62 VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRK--GFVPDKRTHTILVNAWCSSGKMRE  139 (260)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~--g~~p~~~~~~~li~~~~~~g~~~~  139 (260)
                      .+...+-.|-..+.+.+++..|...|+...+.                  ....  +-.+...++..|-.+|.+.|+++.
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~------------------~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~   64 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQ------------------LDEGEISTIDKVSVLDYLSYAVYQQGDLDK   64 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------HHTTCCCSSCHHHHHHHHHHHHHHTTCHHH
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHh------------------hhccCCCcccHHHHHHHHHHHHHHccCHHH
Confidence            46667778888999999999999999987752                  1111  112456788899999999999999


Q ss_pred             HHHHHHHHHh
Q 041786          140 AQEFLQELSD  149 (260)
Q Consensus       140 a~~~~~~m~~  149 (260)
                      |...+++..+
T Consensus        65 A~~~~~~al~   74 (104)
T 2v5f_A           65 ALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998875

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=86.35  E-value=14  Score=31.28  Aligned_cols=97  Identities=11%  Similarity=0.012  Sum_probs=59.8

Q ss_pred             HHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHH------HHHHHhC------
Q 041786           48 MWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVC------FVRMIRK------  115 (260)
Q Consensus        48 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~------~~~m~~~------  115 (260)
                      +..+++..... ++.+...|-..+.-+.+.|+++.|..+|+.....  +.+...|......      ++.+.+.      
T Consensus       198 v~~~ye~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~y~~~~e~~~~~~~l~~~~~~~~~  274 (493)
T 2uy1_A          198 MHFIHNYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLYYGLVMDEEAVYGDLKRKYSMGEA  274 (493)
T ss_dssp             HHHHHHHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHTTCTHHHHHHHHHTC----
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHHHHhhcchhHHHHHHHHHHHhhcc
Confidence            44566665442 2345677888888888999999999999999887  3333333322111      1111111      


Q ss_pred             ---CC---CCCHhhHHHHHHHHhccCCHHHHHHHHHHH
Q 041786          116 ---GF---VPDKRTHTILVNAWCSSGKMREAQEFLQEL  147 (260)
Q Consensus       116 ---g~---~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  147 (260)
                         +.   ......|-..++...+.+.++.|..+|+..
T Consensus       275 ~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A  312 (493)
T 2uy1_A          275 ESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL  312 (493)
T ss_dssp             ------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             chhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh
Confidence               00   011245666667776778899999999887

>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=85.73  E-value=12  Score=29.59  Aligned_cols=91  Identities=13%  Similarity=0.050  Sum_probs=65.2

Q ss_pred             CCCC---HhhHHHHHHHHhc-----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhc
Q 041786          117 FVPD---KRTHTILVNAWCS-----SGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKS  188 (260)
Q Consensus       117 ~~p~---~~~~~~li~~~~~-----~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~  188 (260)
                      +.|+   ...|..+-..|.+     .|+.++|.+.|++-.+-                     .|+.             
T Consensus       192 LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~L---------------------nP~~-------------  237 (301)
T 3u64_A          192 LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRY---------------------CSAH-------------  237 (301)
T ss_dssp             HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHH---------------------CCTT-------------
T ss_pred             hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHh---------------------CCCC-------------
Confidence            4465   5677788888888     59999999999987762                     2211             


Q ss_pred             CCCCCCcchHHHHHHHHhhhh-hccHHHHHHHHHHHHHCCCC--cCCCc---ccHHHHHHHHHHHH
Q 041786          189 GELGLCADVNTNKISIPAVSK-EFMIDEAFRLLCNLVEDGHK--LFPSL---GQFDDAFCFFSEMQ  248 (260)
Q Consensus       189 ~~~~~~~~~~t~~~li~~~~~-~g~~~~a~~~~~~m~~~~~~--p~~~~---g~~~~a~~~~~~m~  248 (260)
                             +..++...-..+++ .|+.+++.+.+++.......  |+...   +.-++|..++.+..
T Consensus       238 -------~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~~~q~eA~~LL~~~~  296 (301)
T 3u64_A          238 -------DPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLVILSQKRARWLKAHVQ  296 (301)
T ss_dssp             -------CSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHHHHHHHHHHHHHTHH
T ss_pred             -------CchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHHHHHHHHHHHHHHhH
Confidence                   24445555566777 48999999999999988776  55444   77778877776554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=84.79  E-value=16  Score=30.42  Aligned_cols=84  Identities=6%  Similarity=0.026  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHhcC---ChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH--------------HHHHhCCCCCCHhhHHHHH
Q 041786           66 TLSLIIEEFGKHG---LIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF--------------VRMIRKGFVPDKRTHTILV  128 (260)
Q Consensus        66 ~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--------------~~m~~~g~~p~~~~~~~li  128 (260)
                      .+..|-..|.+.|   +.++|+..|+...+.|.. +...+..+-.++              ....+.- .-+...+..|-
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g~~~a~~~Lg  255 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PGYPASWVSLA  255 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GGSTHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CCCHHHHHHHH
Confidence            7777888888888   889999999988887733 333222222222              1111111 22333344343


Q ss_pred             HH-H--hccCCHHHHHHHHHHHHhCC
Q 041786          129 NA-W--CSSGKMREAQEFLQELSDKG  151 (260)
Q Consensus       129 ~~-~--~~~g~~~~a~~~~~~m~~~~  151 (260)
                      .. |  ...++.++|.+.|++..+.|
T Consensus       256 ~~~~~~~~~~d~~~A~~~~~~Aa~~g  281 (452)
T 3e4b_A          256 QLLYDFPELGDVEQMMKYLDNGRAAD  281 (452)
T ss_dssp             HHHHHSGGGCCHHHHHHHHHHHHHTT
T ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHCC
Confidence            33 2  44678888888877766543

>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=84.59  E-value=9.5  Score=30.05  Aligned_cols=85  Identities=13%  Similarity=0.118  Sum_probs=63.1

Q ss_pred             HHHHHHHhcccCCCCCC---HHHHHHHHHHHHh-----cCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCC
Q 041786           47 SMWKTIELMKPDSLSVF---PQTLSLIIEEFGK-----HGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFV  118 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~---~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~  118 (260)
                      .|..+++...+.  .|+   -..|..|-..|.+     .|+.++|.+.|++..+.                        .
T Consensus       181 ~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~L------------------------n  234 (301)
T 3u64_A          181 AAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRY------------------------C  234 (301)
T ss_dssp             HHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHH------------------------C
T ss_pred             HHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHh------------------------C
Confidence            444444444333  455   4578899999999     49999999999998873                        3


Q ss_pred             CC--HhhHHHHHHHHhcc-CCHHHHHHHHHHHHhCCCC--CCHH
Q 041786          119 PD--KRTHTILVNAWCSS-GKMREAQEFLQELSDKGFN--PPVR  157 (260)
Q Consensus       119 p~--~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~~~~--~~~~  157 (260)
                      |+  ..++...-..+++. |+.+.|.+.+++..+....  |+..
T Consensus       235 P~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~  278 (301)
T 3u64_A          235 SAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNK  278 (301)
T ss_dssp             CTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCH
T ss_pred             CCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChh
Confidence            63  56666778888885 9999999999998887655  5543

>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=84.16  E-value=6.6  Score=25.49  Aligned_cols=70  Identities=10%  Similarity=0.069  Sum_probs=51.4

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHH-HHHHHHhCCC
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHV-CFVRMIRKGF  117 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~-~~~~m~~~g~  117 (260)
                      +..+-+..+....+.|++....+.+.+|.|..++..|.++|+-++.+-- +...+|..++. ..-.+.+.|+
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~-~~~~iY~~~lqElkPtl~ELGI   98 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG-PHKEIYPYVIQELRPTLNELGI   98 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT-TCTTHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc-CchhhHHHHHHHHhhHHHHhCC
Confidence            5555666667778899999999999999999999999999999886521 22445666663 2234444454

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=84.08  E-value=17  Score=32.49  Aligned_cols=47  Identities=9%  Similarity=-0.098  Sum_probs=29.6

Q ss_pred             hhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 041786           40 LTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTA   92 (260)
Q Consensus        40 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (260)
                      ..++....|+++.+.+      .+...|..|-..+.+.++++.|.+.|..+..
T Consensus       663 l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d  709 (814)
T 3mkq_A          663 LKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD  709 (814)
T ss_dssp             HHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC
T ss_pred             hhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC
Confidence            3344444555554333      2456777777777777777777777776654

>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=82.64  E-value=4.8  Score=27.69  Aligned_cols=39  Identities=15%  Similarity=0.254  Sum_probs=34.9

Q ss_pred             HHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          111 RMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       111 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      .+....+.|+..+..+.+++|-|.+++..|.++|+-.+.
T Consensus        78 ~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~  116 (152)
T 2y69_E           78 TLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD  116 (152)
T ss_dssp             HHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            345567899999999999999999999999999998875

>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=81.70  E-value=10  Score=31.04  Aligned_cols=58  Identities=14%  Similarity=0.030  Sum_probs=43.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 041786           69 LIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELS  148 (260)
Q Consensus        69 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  148 (260)
                      .++..+.+.|+.++|...+..+...                       -+.+...|-.+|.++.++|+..+|.+.|+...
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~~-----------------------~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r  232 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTFE-----------------------HPYREPLWTQLITAYYLSDRQSDALGAYRRVK  232 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH-----------------------STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh-----------------------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3445566677777777766665542                       12467789999999999999999999999876


Q ss_pred             h
Q 041786          149 D  149 (260)
Q Consensus       149 ~  149 (260)
                      +
T Consensus       233 ~  233 (388)
T 2ff4_A          233 T  233 (388)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=81.51  E-value=9.5  Score=31.14  Aligned_cols=65  Identities=12%  Similarity=0.043  Sum_probs=51.4

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHH
Q 041786           61 SVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREA  140 (260)
Q Consensus        61 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a  140 (260)
                      ..+...|..+-..+.-.|++++|...+++....                        .|+...|..+=..+.-.|++++|
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~L------------------------n~s~~a~~llG~~~~~~G~~~eA  329 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDL------------------------EMSWLNYVLLGKVYEMKGMNREA  329 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH------------------------CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc------------------------CCCHHHHHHHHHHHHHCCCHHHH
Confidence            456778888777777779999999999988763                        26776776667778889999999


Q ss_pred             HHHHHHHHh
Q 041786          141 QEFLQELSD  149 (260)
Q Consensus       141 ~~~~~~m~~  149 (260)
                      .+.|++...
T Consensus       330 ~e~~~~Alr  338 (372)
T 3ly7_A          330 ADAYLTAFN  338 (372)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999987665

>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=81.02  E-value=10  Score=25.54  Aligned_cols=42  Identities=5%  Similarity=-0.115  Sum_probs=26.5

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhc
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAF   93 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   93 (260)
                      +|.+.|+...+.| .|+..    |-..|...+.+++|.+.|++..+.
T Consensus        13 ~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~   54 (138)
T 1klx_A           13 KAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL   54 (138)
T ss_dssp             HHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC
Confidence            6777777766666 23333    555566666777787777776653

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	260
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.53
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.35
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.18
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.1
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.75
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	97.35
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.18
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.08
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	96.96
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	96.94
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.9
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	96.82
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.81
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	96.56
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	96.47
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	96.39
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	96.37
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	96.36
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	96.34
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.27
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	96.2
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	96.18
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.17
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	96.02
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	95.68
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	95.61
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	95.57
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	95.46
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	94.22
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	94.14
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	93.88
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	93.77
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	93.42
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	93.28
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	93.19
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	92.11
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	91.37
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	90.48
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	90.43
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	89.53
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	87.77
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	86.74
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	85.77
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	85.55
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	85.52

>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=98.53  E-value=1.6e-05  Score=62.76  Aligned_cols=231  Identities=13%  Similarity=0.043  Sum_probs=143.8

Q ss_pred             chhhhhHHHHHHHHcccch---hHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 041786           13 DYFAAVNHIANIVRHDIYA---ERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNK   89 (260)
Q Consensus        13 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~   89 (260)
                      .+..+...+...++.++..   ...+-.++...+...+|.+.|+...+.. +-+...|..+...|.+.|++++|+..+..
T Consensus        14 ~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A~~~~~~   92 (388)
T d1w3ba_          14 DFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRH   92 (388)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcccccccccccc
Confidence            3445566666666555432   3444455666777779999999876543 22578899999999999999999999998


Q ss_pred             hhhcCCCCcHHHHHHHHHHH------------------------------------------------------------
Q 041786           90 CTAFNCQQCVLLYNSLHVCF------------------------------------------------------------  109 (260)
Q Consensus        90 m~~~~~~~~~~~~~~li~~~------------------------------------------------------------  109 (260)
                      ..+.................                                                            
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  172 (388)
T d1w3ba_          93 ALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAW  172 (388)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchhHHH
Confidence            88754322211111111000                                                            


Q ss_pred             --------------------HHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCC---------------C
Q 041786          110 --------------------VRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGF---------------N  153 (260)
Q Consensus       110 --------------------~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~---------------~  153 (260)
                                          ++..  ...| +...|..+-..+...|++++|...+......+.               .
T Consensus       173 ~~l~~~~~~~~~~~~A~~~~~~al--~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  250 (388)
T d1w3ba_         173 SNLGCVFNAQGEIWLAIHHFEKAV--TLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQ  250 (388)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHH--HHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HhhcccccccCcHHHHHHHHHHHH--HhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHC
Confidence                                0000  1123 234555566666677777777777766554322               1


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC------------CCCCcchHHHHHHHHhhhhhccHHHHHHHHH
Q 041786          154 PPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE------------LGLCADVNTNKISIPAVSKEFMIDEAFRLLC  221 (260)
Q Consensus       154 ~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~  221 (260)
                      .+..+|...|+...+.. +-+...|..+...|...|+            .....+...+..+...+.+.|++++|...|+
T Consensus       251 ~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  329 (388)
T d1w3ba_         251 GLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYR  329 (388)
T ss_dssp             TCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCCCHHHHHHHHH
Confidence            22236777777766543 2245677777777777776            2233455677777788888888888888888


Q ss_pred             HHHHCCCCcCCCc------------ccHHHHHHHHHHHHh
Q 041786          222 NLVEDGHKLFPSL------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       222 ~m~~~~~~p~~~~------------g~~~~a~~~~~~m~~  249 (260)
                      +..+.  .|+...            |++++|+..|++..+
T Consensus       330 ~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         330 KALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            87653  344332            888888888887764

>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=98.35  E-value=6.8e-05  Score=58.23  Aligned_cols=184  Identities=14%  Similarity=0.026  Sum_probs=134.4

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCC
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFV  118 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~  118 (260)
                      +...+...+|.+.|+...+.. +-+...|..+-..|.+.|++++|...|++..+.                        .
T Consensus        29 ~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~------------------------~   83 (323)
T d1fcha_          29 RLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLEL------------------------K   83 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------C
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcc------------------------c
Confidence            445566679999999987653 225788999999999999999999999987753                        2


Q ss_pred             C-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCC------------------------------CHHHHHHHHHHHH
Q 041786          119 P-DKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNP------------------------------PVRSAKQMVNKMI  167 (260)
Q Consensus       119 p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~------------------------------~~~~a~~l~~~m~  167 (260)
                      | +...|..+...|.+.|++++|.+.++......-..                              ...++...|....
T Consensus        84 p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  163 (323)
T d1fcha_          84 PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAV  163 (323)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHH
Confidence            3 35677778888999999999999998876532110                              0015666666554


Q ss_pred             HCC-CCCChhchHHHHHHHHhcCC-----------CCCCc-chHHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCc
Q 041786          168 KQG-SVPDLETFNSLIETICKSGE-----------LGLCA-DVNTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSL  234 (260)
Q Consensus       168 ~~g-~~p~~~~~~~li~~~~~~~~-----------~~~~~-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  234 (260)
                      +.. -.++...+..+-..+...|+           ....| +...|..+-..|.+.|++++|...|++..+..  |+...
T Consensus       164 ~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~  241 (323)
T d1fcha_         164 RLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ--PGYIR  241 (323)
T ss_dssp             HHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHH
T ss_pred             HHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHh--hccHH
Confidence            432 23456677778888888888           22333 46678888899999999999999999987642  43322


Q ss_pred             ------------ccHHHHHHHHHHHHh
Q 041786          235 ------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       235 ------------g~~~~a~~~~~~m~~  249 (260)
                                  |++++|+..|++..+
T Consensus       242 a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         242 SRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                        999999999987664

>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=98.18  E-value=0.00013  Score=57.30  Aligned_cols=55  Identities=7%  Similarity=-0.132  Sum_probs=43.3

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcC
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFN   94 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   94 (260)
                      ....+...+|.+.++++.+.. +-+...+..+...|.+.|++++|+..|++..+..
T Consensus         9 ~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~   63 (388)
T d1w3ba_           9 EYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN   63 (388)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            344566668999998886542 2257888999999999999999999999988653

>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=98.10  E-value=0.00068  Score=52.33  Aligned_cols=174  Identities=7%  Similarity=-0.092  Sum_probs=107.4

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHH
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTI  126 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~  126 (260)
                      .|.++++...+...+-+...|...+..+.+.|+++.|..+|+.+.+..                      .......|..
T Consensus        82 ~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~----------------------~~~~~~~w~~  139 (308)
T d2onda1          82 EAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIE----------------------DIDPTLVYIQ  139 (308)
T ss_dssp             HHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSS----------------------SSCTHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHh----------------------cCChHHHHHH
Confidence            677888876654444466788888899999999999999999877521                      1112346777


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHh
Q 041786          127 LVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPA  206 (260)
Q Consensus       127 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~  206 (260)
                      .+..+.+.|+++.|+++|+...+.+......-....+......|   +......+.....+.    ...+...|...+..
T Consensus       140 ~~~~~~~~~~~~~ar~i~~~al~~~~~~~~~~~~~a~~e~~~~~---~~~~a~~i~e~~l~~----~p~~~~~w~~y~~~  212 (308)
T d2onda1         140 YMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSK---DKSVAFKIFELGLKK----YGDIPEYVLAYIDY  212 (308)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSC---CHHHHHHHHHHHHHH----HTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcc---CHHHHHHHHHHHHHh----hhhhHHHHHHHHHH
Confidence            88888888888888888888776542222110000000000111   111111111111111    12345677888888


Q ss_pred             hhhhccHHHHHHHHHHHHHCC-CCcCCCc-------------ccHHHHHHHHHHHHh
Q 041786          207 VSKEFMIDEAFRLLCNLVEDG-HKLFPSL-------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       207 ~~~~g~~~~a~~~~~~m~~~~-~~p~~~~-------------g~~~~a~~~~~~m~~  249 (260)
                      +.+.|+++.|+.+|++..... ..|....             |+.+.+..+++++.+
T Consensus       213 ~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         213 LSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            888899999999999877654 3333222             888888888887764

>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=97.75  E-value=0.0011  Score=50.93  Aligned_cols=192  Identities=15%  Similarity=0.039  Sum_probs=127.9

Q ss_pred             chhhhhHHHHHHHHcccch---hHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 041786           13 DYFAAVNHIANIVRHDIYA---ERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNK   89 (260)
Q Consensus        13 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~   89 (260)
                      .+-.++..+.+.++.++..   ...+-.++...+....|.+.|+...+.. +-+...|..+...|...|++++|.+.+++
T Consensus        34 ~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~  112 (323)
T d1fcha_          34 DLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRD  112 (323)
T ss_dssp             CHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccccccccchhh
Confidence            4455666666666666543   3344455666777779999998876543 12578888899999999999999999998


Q ss_pred             hhhcCCCC--------cHHH-------------------HHHHHHHHHHHHh-CCCCCCHhhHHHHHHHHhccCCHHHHH
Q 041786           90 CTAFNCQQ--------CVLL-------------------YNSLHVCFVRMIR-KGFVPDKRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        90 m~~~~~~~--------~~~~-------------------~~~li~~~~~m~~-~g~~p~~~~~~~li~~~~~~g~~~~a~  141 (260)
                      .....-..        ....                   +...+..+.+..+ ..-.++...+..+-..+.+.|++++|+
T Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~  192 (323)
T d1fcha_         113 WLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAV  192 (323)
T ss_dssp             HHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhh
Confidence            87542110        0000                   0000011122222 222345667888888899999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCCc-chHHHHHHHHhhhh
Q 041786          142 EFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLCA-DVNTNKISIPAVSK  209 (260)
Q Consensus       142 ~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~-~~~t~~~li~~~~~  209 (260)
                      ..|++.....                    +-+...|..+-..|.+.|+           ....| +...|..+-..|.+
T Consensus       193 ~~~~~al~~~--------------------p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~  252 (323)
T d1fcha_         193 DCFTAALSVR--------------------PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCIN  252 (323)
T ss_dssp             HHHHHHHHHC--------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             cccccccccc--------------------cccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHH
Confidence            9999876531                    1135566777777777777           22234 45678888999999


Q ss_pred             hccHHHHHHHHHHHHH
Q 041786          210 EFMIDEAFRLLCNLVE  225 (260)
Q Consensus       210 ~g~~~~a~~~~~~m~~  225 (260)
                      .|++++|...|++..+
T Consensus       253 ~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         253 LGAHREAVEHFLEALN  268 (323)
T ss_dssp             HTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999999999998775

>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=97.35  E-value=0.008  Score=46.00  Aligned_cols=149  Identities=6%  Similarity=-0.056  Sum_probs=91.9

Q ss_pred             HhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCC-CCcHHHHHHHHHHH------
Q 041786           37 RLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNC-QQCVLLYNSLHVCF------  109 (260)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~------  109 (260)
                      .+....+....|..+|+.+.+.........|...+..+.+.|+++.|+++|+...+.+. .+......+.+..+      
T Consensus       107 ~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~~~~~~~~a~~e~~~~~~~~  186 (308)
T d2onda1         107 DYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKS  186 (308)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSCCHH
T ss_pred             HHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhccCHH
Confidence            33444555668999999987654333456899999999999999999999999876542 11112222222110      


Q ss_pred             ------HHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHH
Q 041786          110 ------VRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIE  183 (260)
Q Consensus       110 ------~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~  183 (260)
                            +...+. ..-+...|...++...+.|+++.|+.+|++..+..                                
T Consensus       187 ~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~--------------------------------  233 (308)
T d2onda1         187 VAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG--------------------------------  233 (308)
T ss_dssp             HHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSS--------------------------------
T ss_pred             HHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC--------------------------------
Confidence                  111111 12234556666666666666666666666554321                                


Q ss_pred             HHHhcCCCCCCcc--hHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          184 TICKSGELGLCAD--VNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       184 ~~~~~~~~~~~~~--~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                              ...|.  ...|...+.--...|+.+.+..+++++.+.
T Consensus       234 --------~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         234 --------SLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             --------SSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             --------CCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                    11121  345777777667889999999999887654

>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=97.18  E-value=0.0069  Score=42.82  Aligned_cols=65  Identities=9%  Similarity=-0.122  Sum_probs=45.2

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHH
Q 041786           62 VFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQ  141 (260)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  141 (260)
                      |++..+--.=..|.+.|++++|+..|++..+..                       +-+...|+.+-.+|.+.|++++|+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-----------------------p~~~~~~~~lg~~y~~~~~~~~Ai   58 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-----------------------PLVAVYYTNRALCYLKMQQPEQAL   58 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------SCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-----------------------CCCHHHHHhHHHHHhhhhhhhhhh
Confidence            455555555667778888888888888766522                       124566777777788888888888


Q ss_pred             HHHHHHHh
Q 041786          142 EFLQELSD  149 (260)
Q Consensus       142 ~~~~~m~~  149 (260)
                      ..|+...+
T Consensus        59 ~~~~~al~   66 (201)
T d2c2la1          59 ADCRRALE   66 (201)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHHHH
Confidence            88776654

>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=97.08  E-value=0.022  Score=43.34  Aligned_cols=210  Identities=10%  Similarity=-0.080  Sum_probs=118.2

Q ss_pred             hhhhcchHHHHHHHHhcccCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCC-CcH----HHHHHHHHHH
Q 041786           39 NLTLISELSMWKTIELMKPDSLSVF----PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQ-QCV----LLYNSLHVCF  109 (260)
Q Consensus        39 ~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~~----~~~~~li~~~  109 (260)
                      ....+...+|.+++++..+..-..+    ...++.+-..|...|++++|+..|++..+..-. ++.    ..+..+...+
T Consensus        22 ~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  101 (366)
T d1hz4a_          22 AINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEIL  101 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHH
Confidence            4455667789999887654321111    346677778899999999999999987653211 111    1111111111


Q ss_pred             -----------------HHHHhCCCCC--C-HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCH-------------
Q 041786          110 -----------------VRMIRKGFVP--D-KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPV-------------  156 (260)
Q Consensus       110 -----------------~~m~~~g~~p--~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-------------  156 (260)
                                       ......+...  . ...+..+-..+...|+++.+...+............             
T Consensus       102 ~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (366)
T d1hz4a_         102 FAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQC  181 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHH
Confidence                             1111222211  1 234455667788899999999999877653222111             


Q ss_pred             -------HHHHHHHHHHHH----CCCCCC--hhchHHHHHHHHhcCC-----------C----C-CCcchHHHHHHHHhh
Q 041786          157 -------RSAKQMVNKMIK----QGSVPD--LETFNSLIETICKSGE-----------L----G-LCADVNTNKISIPAV  207 (260)
Q Consensus       157 -------~~a~~l~~~m~~----~g~~p~--~~~~~~li~~~~~~~~-----------~----~-~~~~~~t~~~li~~~  207 (260)
                             ..+...+.....    .+..+.  ...+..+...+...|+           .    . .......+..+-..+
T Consensus       182 ~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~  261 (366)
T d1hz4a_         182 SLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQ  261 (366)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHH
T ss_pred             HHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHH
Confidence                   123333332221    111111  1233444455555555           1    1 122234566677889


Q ss_pred             hhhccHHHHHHHHHHHHH----CCCCcCCCc------------ccHHHHHHHHHHHH
Q 041786          208 SKEFMIDEAFRLLCNLVE----DGHKLFPSL------------GQFDDAFCFFSEMQ  248 (260)
Q Consensus       208 ~~~g~~~~a~~~~~~m~~----~~~~p~~~~------------g~~~~a~~~~~~m~  248 (260)
                      ...|+.++|...+++...    .+..|+...            |+.++|...+++..
T Consensus       262 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al  318 (366)
T d1hz4a_         262 ILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDAL  318 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999999999988763    244443322            99999999987654

>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=96.96  E-value=0.03  Score=41.01  Aligned_cols=30  Identities=23%  Similarity=0.092  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhc
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAF   93 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   93 (260)
                      ...|..+-..|.+.|++++|++.|++..+.
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l   66 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAI   66 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhcc
Confidence            356666778899999999999999998864

>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=96.94  E-value=0.013  Score=43.16  Aligned_cols=89  Identities=17%  Similarity=0.104  Sum_probs=68.9

Q ss_pred             HhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCC
Q 041786           37 RLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKG  116 (260)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g  116 (260)
                      .++...+...+|.+.|+...+.. +-+..+|+.+-.+|.+.|++++|+..|++..+..                      
T Consensus        45 ~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~----------------------  101 (259)
T d1xnfa_          45 VLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD----------------------  101 (259)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----------------------
T ss_pred             HHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH----------------------
Confidence            34555667779999998876542 1257889999999999999999999999988632                      


Q ss_pred             CCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          117 FVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       117 ~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                        | +...+..+-..|.+.|++++|...|+...+.
T Consensus       102 --p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~  134 (259)
T d1xnfa_         102 --PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD  134 (259)
T ss_dssp             --TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             --hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence              3 3456667777888889999999888877654

>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=96.90  E-value=0.021  Score=36.71  Aligned_cols=91  Identities=15%  Similarity=0.056  Sum_probs=71.9

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786           71 IEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus        71 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      -..+.+.|++++|+..|++..+..                       +-+...|..+-.+|.+.|++++|++.+....+.
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~-----------------------p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~   66 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLD-----------------------PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL   66 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-----------------------CcchhhhhcccccccccccccccchhhhhHHHh
Confidence            356788899999999999987632                       235667888888999999999999999987753


Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          151 GFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       151 ~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      +                     |                     .+...|..+-.++...|++++|...|+...+.
T Consensus        67 ~---------------------p---------------------~~~~~~~~~g~~~~~~~~~~~A~~~~~~a~~~  100 (117)
T d1elwa_          67 K---------------------P---------------------DWGKGYSRKAAALEFLNRFEEAKRTYEEGLKH  100 (117)
T ss_dssp             C---------------------T---------------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             c---------------------c---------------------chhhHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            1                     1                     24455667777888888999999999998864

>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=96.82  E-value=0.024  Score=40.06  Aligned_cols=47  Identities=13%  Similarity=-0.112  Sum_probs=33.5

Q ss_pred             HHHHHHHHhhhhhccHHHHHHHHHHHHHCCCCcCCCcccHHHHHHHHHH
Q 041786          198 NTNKISIPAVSKEFMIDEAFRLLCNLVEDGHKLFPSLGQFDDAFCFFSE  246 (260)
Q Consensus       198 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~g~~~~a~~~~~~  246 (260)
                      .++..+-.++.+.|++++|...|....+..  |......++.|+..+..
T Consensus       121 e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~--~~~~~~~~~~Al~~~~~  167 (192)
T d1hh8a_         121 EVLYNIAFMYAKKEEWKKAEEQLALATSMK--SEPRHSKIDKAMECVWK  167 (192)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CSGGGGHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCcchHHHHHHHHHHHh
Confidence            344455667889999999999998876643  45555677777765543

>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=96.81  E-value=0.024  Score=36.43  Aligned_cols=89  Identities=12%  Similarity=-0.087  Sum_probs=72.3

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      .+...+...+|...|++..+.. +-+...|..+-.+|.+.|++++|+..++...+.+                       
T Consensus        12 ~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-----------------------   67 (117)
T d1elwa_          12 KALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-----------------------   67 (117)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-----------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-----------------------
Confidence            3445566668999999876553 2357889999999999999999999999988642                       


Q ss_pred             CCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          118 VPDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       118 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      +.+...|..+-.++...|++++|+..|+...+.
T Consensus        68 p~~~~~~~~~g~~~~~~~~~~~A~~~~~~a~~~  100 (117)
T d1elwa_          68 PDWGKGYSRKAAALEFLNRFEEAKRTYEEGLKH  100 (117)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             cchhhHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            236778888999999999999999999988763

>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=96.56  E-value=0.027  Score=36.64  Aligned_cols=99  Identities=12%  Similarity=0.031  Sum_probs=68.4

Q ss_pred             chHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCCh---HHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCC
Q 041786           44 SELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLI---DNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPD  120 (260)
Q Consensus        44 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~---~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~  120 (260)
                      ...+|.+.|+...+.+ +.+..++.-+-.++.+.++.   ++|+.+|++....+                      ..|+
T Consensus        14 ~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~----------------------~~~~   70 (122)
T d1nzna_          14 DLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG----------------------SKEE   70 (122)
T ss_dssp             HHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS----------------------CHHH
T ss_pred             HHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcc----------------------CCch
Confidence            3347888888776554 23667788788888775554   46888888766421                      1122


Q ss_pred             -HhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 041786          121 -KRTHTILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMI  167 (260)
Q Consensus       121 -~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~  167 (260)
                       ...|..+-.+|.+.|++++|++.|++..+.  .|+...|..+...+.
T Consensus        71 ~~~~~~~Lg~~y~~~g~~~~A~~~~~~aL~~--~P~~~~A~~l~~~I~  116 (122)
T d1nzna_          71 QRDYVFYLAVGNYRLKEYEKALKYVRGLLQT--EPQNNQAKELERLID  116 (122)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--CcCCHHHHHHHHHHH
Confidence             235667788899999999999999998873  476666666655443

>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=96.47  E-value=0.05  Score=36.88  Aligned_cols=91  Identities=10%  Similarity=-0.050  Sum_probs=67.7

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786           71 IEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus        71 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      =..|.+.|++++|+..|++..+.+                       +-+...|..+-..|.+.|++++|.+.|+...+.
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~-----------------------p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~   73 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELN-----------------------PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL   73 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-----------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccc-----------------------hhhhhhhhhhHHHHHhccccchHHHHHHHHHHH
Confidence            456789999999999999888632                       125677788888999999999999999987752


Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          151 GFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       151 ~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                                           .|+                     +...|..+..+|...|++++|...|++....
T Consensus        74 ---------------------~p~---------------------~~~a~~~~g~~~~~~g~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          74 ---------------------DKK---------------------YIKGYYRRAASNMALGKFRAALRDYETVVKV  107 (159)
T ss_dssp             ---------------------CTT---------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ---------------------ccc---------------------chHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence                                 122                     3345556666677777778887777777664

>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=96.39  E-value=0.067  Score=40.85  Aligned_cols=100  Identities=3%  Similarity=-0.095  Sum_probs=56.3

Q ss_pred             HHHHHHHHhcccCCCCC-CHHHHHHHHHHHHhcC-ChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH-------------H
Q 041786           46 LSMWKTIELMKPDSLSV-FPQTLSLIIEEFGKHG-LIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF-------------V  110 (260)
Q Consensus        46 ~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-------------~  110 (260)
                      .+|+++++...+..  | +...|+..-..+...+ ++++|+..++...+.. +-+..+|+.+-.++             .
T Consensus        60 ~~Al~~~~~ai~ln--P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~~~l~~~~eAl~~~~  136 (315)
T d2h6fa1          60 ERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLRDPSQELEFIA  136 (315)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHH
T ss_pred             HHHHHHHHHHHHHC--CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHHHhhccHHHHHHHHh
Confidence            35556665554432  2 3445555555555544 3666666666665443 11233444443332             1


Q ss_pred             HHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 041786          111 RMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELSDK  150 (260)
Q Consensus       111 ~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  150 (260)
                      +..+  +.| +...|+.+-..+.+.|++++|++.|+...+.
T Consensus       137 kal~--~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~  175 (315)
T d2h6fa1         137 DILN--QDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE  175 (315)
T ss_dssp             HHHH--HCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH
T ss_pred             hhhh--hhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            1111  223 4677778888888888888888888887764

>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=96.37  E-value=0.025  Score=36.09  Aligned_cols=88  Identities=15%  Similarity=-0.000  Sum_probs=69.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 041786           70 IIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQELS  148 (260)
Q Consensus        70 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  148 (260)
                      +-..+.+.|++++|...|++..+.                        .| +...|..+-..+.+.|++++|+..|+...
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~------------------------~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al   77 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQK------------------------EPEREEAWRSLGLTQAENEKDGLAIIALNHAR   77 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH------------------------STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccc------------------------ccccchhhhhhhhhhhhhhhHHHhhccccccc
Confidence            445678899999999999998863                        24 46788888889999999999999999876


Q ss_pred             hCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHH
Q 041786          149 DKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNL  223 (260)
Q Consensus       149 ~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m  223 (260)
                      +.                     .|+                     +...|..+-..|...|+.++|.+.|++.
T Consensus        78 ~~---------------------~p~---------------------~~~a~~~la~~y~~~g~~~~A~~~l~~~  110 (112)
T d1hxia_          78 ML---------------------DPK---------------------DIAVHAALAVSHTNEHNANAALASLRAW  110 (112)
T ss_dssp             HH---------------------CTT---------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cc---------------------ccc---------------------cccchHHHHHHHHHCCCHHHHHHHHHHH
Confidence            52                     122                     3556667778888889999999998875

>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=96.36  E-value=0.025  Score=42.68  Aligned_cols=163  Identities=12%  Similarity=-0.004  Sum_probs=87.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHhccCCHHHHHHHH
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPD-KRTHTILVNAWCSSGKMREAQEFL  144 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~  144 (260)
                      .|.-.-..|...+++++|.+.|.+..+..                  ...+-.++ ..+|+.+-..|.+.|++++|.+.+
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~------------------~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~  100 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQ------------------KKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHH------------------HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHH------------------HHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHH
Confidence            46666778889999999999999877521                  11122122 346666677777777777777777


Q ss_pred             HHHHhC-CCCCCHHHHHHHHHHHH----HC-CC-CCChhchHHHHHHHHhcCCCCCCc-chHHHHHHHHhhhhhccHHHH
Q 041786          145 QELSDK-GFNPPVRSAKQMVNKMI----KQ-GS-VPDLETFNSLIETICKSGELGLCA-DVNTNKISIPAVSKEFMIDEA  216 (260)
Q Consensus       145 ~~m~~~-~~~~~~~~a~~l~~~m~----~~-g~-~p~~~~~~~li~~~~~~~~~~~~~-~~~t~~~li~~~~~~g~~~~a  216 (260)
                      +..... .-.++...+...+..+.    .. |- ..-...|...+..+...+   ..+ -..+|..+...|...|++++|
T Consensus       101 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~---~~~~~~~~~~~la~~~~~~g~y~~A  177 (290)
T d1qqea_         101 ENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQ---SVALSNKCFIKCADLKALDGQYIEA  177 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcC---chhhhhhHHHHHHHHHHHcChHHHH
Confidence            654321 00111222222222211    00 10 000111222222222222   112 234577778888888999999


Q ss_pred             HHHHHHHHHCCCCcCCCc-----------------ccHHHHHHHHHHHHh
Q 041786          217 FRLLCNLVEDGHKLFPSL-----------------GQFDDAFCFFSEMQI  249 (260)
Q Consensus       217 ~~~~~~m~~~~~~p~~~~-----------------g~~~~a~~~~~~m~~  249 (260)
                      ...|++............                 |+.+.|...+++...
T Consensus       178 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~  227 (290)
T d1qqea_         178 SDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS  227 (290)
T ss_dssp             HHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            999888776432211100                 777777777776654

>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=96.34  E-value=0.015  Score=37.16  Aligned_cols=85  Identities=13%  Similarity=0.012  Sum_probs=69.1

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      .+...+...+|.+.|++..+... -+...|..+-..+.+.|++++|+..|++..+.                        
T Consensus        25 ~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~------------------------   79 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARML------------------------   79 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------
T ss_pred             HHHHHhhhHHHHHHHhhhccccc-ccchhhhhhhhhhhhhhhHHHhhccccccccc------------------------
Confidence            34455666689999998765531 25889999999999999999999999988763                        


Q ss_pred             CC-CHhhHHHHHHHHhccCCHHHHHHHHHHH
Q 041786          118 VP-DKRTHTILVNAWCSSGKMREAQEFLQEL  147 (260)
Q Consensus       118 ~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m  147 (260)
                      .| +...|..+-..|.+.|+.++|++.+++.
T Consensus        80 ~p~~~~a~~~la~~y~~~g~~~~A~~~l~~~  110 (112)
T d1hxia_          80 DPKDIAVHAALAVSHTNEHNANAALASLRAW  110 (112)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccchHHHHHHHHHCCCHHHHHHHHHHH
Confidence            24 4778888999999999999999999864

>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=96.27  E-value=0.015  Score=38.18  Aligned_cols=99  Identities=12%  Similarity=0.155  Sum_probs=72.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786           70 IIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus        70 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      +=..|.+.|++++|+..|.+..+.+                       +.+...|..+-.+|.+.|++++|.+.++...+
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~-----------------------p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELD-----------------------PTNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-----------------------cccHHHHHhHHHHHHHcCchHHHHHHHHHHHH
Confidence            3456888999999999999988632                       13577888899999999999999999998764


Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          150 KGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       150 ~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      ..                    +.+...|..+-.+               |..+-..+...+++++|...|+.-...
T Consensus        67 l~--------------------~~~~~~~~~~a~~---------------~~~lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          67 VG--------------------RENREDYRQIAKA---------------YARIGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HH--------------------HHSTTCHHHHHHH---------------HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hC--------------------cccHHHHHHHHHH---------------HHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            21                    1123334444444               444557788889999999999876653

>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=96.20  E-value=0.023  Score=38.63  Aligned_cols=88  Identities=7%  Similarity=-0.135  Sum_probs=71.6

Q ss_pred             hhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCC
Q 041786           38 LNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGF  117 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~  117 (260)
                      .+...+...+|...|.+..+.. +-+...|..+-..|.+.|++++|.+.|+...+..                       
T Consensus        19 ~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-----------------------   74 (159)
T d1a17a_          19 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-----------------------   74 (159)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------
T ss_pred             HHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-----------------------
Confidence            3445666668999998876654 2368889999999999999999999999988632                       


Q ss_pred             CCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          118 VPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       118 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      +-+...|..+..+|...|++++|...|++...
T Consensus        75 p~~~~a~~~~g~~~~~~g~~~eA~~~~~~a~~  106 (159)
T d1a17a_          75 KKYIKGYYRRAASNMALGKFRAALRDYETVVK  106 (159)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            12457888899999999999999999998776

>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=96.18  E-value=0.028  Score=39.44  Aligned_cols=88  Identities=9%  Similarity=-0.103  Sum_probs=71.0

Q ss_pred             HhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCC
Q 041786           37 RLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKG  116 (260)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g  116 (260)
                      ..+...+...+|.+.|....+.. +-+...|+.+-.+|.+.|++++|+..|+...+                        
T Consensus        12 n~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~------------------------   66 (201)
T d2c2la1          12 NRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALE------------------------   66 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT------------------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH------------------------
Confidence            44555666679999998865543 24678899999999999999999999998775                        


Q ss_pred             CCC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          117 FVP-DKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       117 ~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      +.| +...|..+-.+|.+.|++++|...|+....
T Consensus        67 l~p~~~~a~~~lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          67 LDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             SCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            335 466788899999999999999999997653

>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=96.17  E-value=0.052  Score=37.86  Aligned_cols=62  Identities=13%  Similarity=0.028  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHH
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFL  144 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  144 (260)
                      ..+..+...+.+.|++++|+..++...+..                       .-+...|..++.+|.+.|+.++|.+.|
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-----------------------P~~e~~~~~l~~al~~~Gr~~eAl~~y  124 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-----------------------PYREPLWTQLITAYYLSDRQSDALGAY  124 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-----------------------TTCHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-----------------------CccHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            567888999999999999999999988632                       236789999999999999999999999


Q ss_pred             HHHHh
Q 041786          145 QELSD  149 (260)
Q Consensus       145 ~~m~~  149 (260)
                      +++.+
T Consensus       125 ~~~~~  129 (179)
T d2ff4a2         125 RRVKT  129 (179)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98754

>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=96.02  E-value=0.084  Score=40.27  Aligned_cols=141  Identities=7%  Similarity=0.019  Sum_probs=78.0

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCc-HHHHHHHHHHHHH--------HH--h--CCCCC-CHhhHHHHHH
Q 041786           64 PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQC-VLLYNSLHVCFVR--------MI--R--KGFVP-DKRTHTILVN  129 (260)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~--------m~--~--~g~~p-~~~~~~~li~  129 (260)
                      ...|+.+-..+.+.+..++|++++++..+.+  |+ ...|+..-.++..        +.  +  ..+.| +...|+.+-.
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln--P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhH
Confidence            5677777778889999999999999999854  33 3344443322200        00  0  01222 3455555555


Q ss_pred             HHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC-----------CCCCc-ch
Q 041786          130 AWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE-----------LGLCA-DV  197 (260)
Q Consensus       130 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~-----------~~~~~-~~  197 (260)
                      .+.+.|++++|++.++.+.+..                    +-+...|..+...+.+.|+           ....| +.
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~d--------------------p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~  180 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQD--------------------AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNN  180 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC--------------------TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCH
T ss_pred             HHHhhccHHHHHHHHhhhhhhh--------------------hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccH
Confidence            5666666666666666555421                    2245667767667776666           22233 33


Q ss_pred             HHHHHHHHhhhh------hccHHHHHHHHHHHHHC
Q 041786          198 NTNKISIPAVSK------EFMIDEAFRLLCNLVED  226 (260)
Q Consensus       198 ~t~~~li~~~~~------~g~~~~a~~~~~~m~~~  226 (260)
                      ..|+.+-..+.+      .+.+++|...+....+.
T Consensus       181 ~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~  215 (315)
T d2h6fa1         181 SVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKL  215 (315)
T ss_dssp             HHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHh
Confidence            444443333222      23355666666665554

>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=95.68  E-value=0.028  Score=36.57  Aligned_cols=83  Identities=10%  Similarity=0.001  Sum_probs=59.3

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCC--------------
Q 041786          125 TILVNAWCSSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGE--------------  190 (260)
Q Consensus       125 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~--------------  190 (260)
                      ..+++.+...+++++|++.|+.....+                    +.+..++..+-.++.++++              
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~--------------------p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~   62 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG--------------------SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEEL   62 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS--------------------CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC--------------------CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            568888999999999999999877632                    2345566666666655444              


Q ss_pred             CCCCcc---hHHHHHHHHhhhhhccHHHHHHHHHHHHHCC
Q 041786          191 LGLCAD---VNTNKISIPAVSKEFMIDEAFRLLCNLVEDG  227 (260)
Q Consensus       191 ~~~~~~---~~t~~~li~~~~~~g~~~~a~~~~~~m~~~~  227 (260)
                      ....|+   ...|..|-.+|.+.|++++|.+.|++..+..
T Consensus        63 l~~~~~~~~~~~~~~Lg~~y~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          63 LPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             TTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HhccCCchHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhC
Confidence            222232   2356677788899999999999999988743

>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=95.61  E-value=0.063  Score=40.01  Aligned_cols=109  Identities=15%  Similarity=0.167  Sum_probs=74.7

Q ss_pred             HHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC
Q 041786           74 FGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSDKGFN  153 (260)
Q Consensus        74 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  153 (260)
                      ..+.|++++|+..+++..+..                       +-|...+..+...|+..|++++|...|+...+.   
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-----------------------P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---   59 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-----------------------PKDASLRSSFIELLCIDGDFERADEQLMQSIKL---   59 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-----------------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-----------------------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---
Confidence            456799999999999887632                       236788999999999999999999999988763   


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChh-chHHHHHHHHhcCC-------------CCCCcchHHHHHHHHhhhhhccHHHHHHH
Q 041786          154 PPVRSAKQMVNKMIKQGSVPDLE-TFNSLIETICKSGE-------------LGLCADVNTNKISIPAVSKEFMIDEAFRL  219 (260)
Q Consensus       154 ~~~~~a~~l~~~m~~~g~~p~~~-~~~~li~~~~~~~~-------------~~~~~~~~t~~~li~~~~~~g~~~~a~~~  219 (260)
                                        .|+.. .+..+-..+...+.             .+-.++...+......+.+.|+.++|...
T Consensus        60 ------------------~P~~~~~~~~l~~ll~a~~~~~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~  121 (264)
T d1zbpa1          60 ------------------FPEYLPGASQLRHLVKAAQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSEL  121 (264)
T ss_dssp             ------------------CGGGHHHHHHHHHHHHHHHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             ------------------CCCcHHHHHHHHHHHHhccccHHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHH
Confidence                              23322 22222121111111             22223344555566778889999999999


Q ss_pred             HHHHHHC
Q 041786          220 LCNLVED  226 (260)
Q Consensus       220 ~~~m~~~  226 (260)
                      +++..+.
T Consensus       122 ~~~a~e~  128 (264)
T d1zbpa1         122 ALQIEEL  128 (264)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            9988765

>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=95.57  E-value=0.16  Score=34.04  Aligned_cols=118  Identities=14%  Similarity=-0.051  Sum_probs=72.6

Q ss_pred             HHHHHH--HHHHHhcCChHHHHHHHHHhhhcCCC-CcHHHHHHHHHHHHHHHhCCCC-CCHhhHHHHHHHHhccCCHHHH
Q 041786           65 QTLSLI--IEEFGKHGLIDNAVEVFNKCTAFNCQ-QCVLLYNSLHVCFVRMIRKGFV-PDKRTHTILVNAWCSSGKMREA  140 (260)
Q Consensus        65 ~~~~~l--i~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~m~~~g~~-p~~~~~~~li~~~~~~g~~~~a  140 (260)
                      ..|..+  ...+.+.|++++|++.|++..+..-. |+...             .... .....|+.+-.+|.+.|++++|
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~-------------~~~~~~~a~~~~nlg~~~~~lg~~~~A   74 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEA-------------FDHAGFDAFCHAGLAEALAGLRSFDEA   74 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSC-------------CCHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhh-------------cccchhHHHHHHHHHHHHHHcCccchh
Confidence            456666  45566789999999999998752100 00000             0000 0245788888999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHH
Q 041786          141 QEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLL  220 (260)
Q Consensus       141 ~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~  220 (260)
                      .+-+++..+            ++....+.  .++.  ....               ...|+.+-.+|...|++++|...|
T Consensus        75 ~~~~~~al~------------~~~~~~~~--~~~~--~~~~---------------~~a~~~~g~~~~~lg~~eeA~~~~  123 (156)
T d2hr2a1          75 LHSADKALH------------YFNRRGEL--NQDE--GKLW---------------ISAVYSRALALDGLGRGAEAMPEF  123 (156)
T ss_dssp             HHHHHHHHH------------HHHHHCCT--TSTH--HHHH---------------HHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hHhhhhhhh------------cccccccc--cccc--cchh---------------HHHHhhhHHHHHHHHHHHHHHHHH
Confidence            988886543            22221111  1111  1111               123556668899999999999999


Q ss_pred             HHHHHC
Q 041786          221 CNLVED  226 (260)
Q Consensus       221 ~~m~~~  226 (260)
                      ++..+.
T Consensus       124 ~~Al~l  129 (156)
T d2hr2a1         124 KKVVEM  129 (156)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            987653

>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=95.46  E-value=0.25  Score=36.96  Aligned_cols=24  Identities=13%  Similarity=-0.108  Sum_probs=19.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhc
Q 041786           70 IIEEFGKHGLIDNAVEVFNKCTAF   93 (260)
Q Consensus        70 li~~~~~~~~~~~a~~~~~~m~~~   93 (260)
                      .-..+...|++++|++++++..+.
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~   41 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEE   41 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhh
Confidence            356678899999999999988764

>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=94.22  E-value=0.27  Score=31.66  Aligned_cols=94  Identities=10%  Similarity=0.023  Sum_probs=67.2

Q ss_pred             HhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhC-
Q 041786           37 RLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRK-  115 (260)
Q Consensus        37 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~-  115 (260)
                      ..+...+...+|.+.|+...+.. +.+...|..+-.+|.+.|++++|+..++...+..  |                +. 
T Consensus        12 ~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~--~----------------~~~   72 (128)
T d1elra_          12 NDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG--R----------------ENR   72 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--H----------------HST
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhC--c----------------ccH
Confidence            33444555568999998876653 2368889999999999999999999999987521  0                00 


Q ss_pred             CCCCC-HhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          116 GFVPD-KRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       116 g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      ...+. ..+|..+=..+...+++++|.+.|..-..
T Consensus        73 ~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          73 EDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Confidence            00011 24666777788888999999999987654

>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=94.14  E-value=0.17  Score=35.04  Aligned_cols=60  Identities=5%  Similarity=0.061  Sum_probs=48.7

Q ss_pred             hHHHHHhhhhhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhh
Q 041786           32 ERTLNRLNLTLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTA   92 (260)
Q Consensus        32 ~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (260)
                      ...+-..+...+...+|.+.++...+.. +-+...|..++.+|.+.|+..+|++.|+++..
T Consensus        70 ~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~  129 (179)
T d2ff4a2          70 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKT  129 (179)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3445566667777779999999886653 24788999999999999999999999999865

>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=93.88  E-value=0.28  Score=33.43  Aligned_cols=61  Identities=13%  Similarity=0.024  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHH
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEF  143 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~  143 (260)
                      ..|+-+-.+|.+.|++++|+..++...+.                        .| +...|..+-.+|...|++++|...
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~------------------------~p~~~~a~~~~g~~~~~~g~~~~A~~~  118 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALEL------------------------DSNNEKGLSRRGEAHLAVNDFELARAD  118 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------CTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhc------------------------cccchhhhHHHHHHHHHhhhHHHHHHH
Confidence            45677888899999999999999988863                        24 677888888999999999999999


Q ss_pred             HHHHHh
Q 041786          144 LQELSD  149 (260)
Q Consensus       144 ~~~m~~  149 (260)
                      |+...+
T Consensus       119 ~~~al~  124 (170)
T d1p5qa1         119 FQKVLQ  124 (170)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998876

>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=93.77  E-value=0.6  Score=31.64  Aligned_cols=108  Identities=9%  Similarity=-0.108  Sum_probs=71.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhcCC-CCc-HHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHH
Q 041786           67 LSLIIEEFGKHGLIDNAVEVFNKCTAFNC-QQC-VLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFL  144 (260)
Q Consensus        67 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~-~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  144 (260)
                      +...=..+.+.|++++|+..|.+....-- .+. .......+   ..       .-..+|+.+-.+|.+.|++++|++.+
T Consensus        16 l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~---~~-------~~~~~~~nla~~y~k~~~~~~A~~~~   85 (170)
T d1p5qa1          16 VKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKA---QA-------LRLASHLNLAMCHLKLQAFSAAIESC   85 (170)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHH---HH-------HHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhh---ch-------hHHHHHHHHHHHHHhhhhcccccchh
Confidence            33444578889999999999988775311 000 00000000   00       11235677788899999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHH
Q 041786          145 QELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLV  224 (260)
Q Consensus       145 ~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~  224 (260)
                      +.....                     .|+                     ++..|..+-.+|...|++++|...|+...
T Consensus        86 ~~al~~---------------------~p~---------------------~~~a~~~~g~~~~~~g~~~~A~~~~~~al  123 (170)
T d1p5qa1          86 NKALEL---------------------DSN---------------------NEKGLSRRGEAHLAVNDFELARADFQKVL  123 (170)
T ss_dssp             HHHHHH---------------------CTT---------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hhhhhc---------------------ccc---------------------chhhhHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            877752                     222                     34556666678888889999999999887


Q ss_pred             HC
Q 041786          225 ED  226 (260)
Q Consensus       225 ~~  226 (260)
                      +.
T Consensus       124 ~l  125 (170)
T d1p5qa1         124 QL  125 (170)
T ss_dssp             HH
T ss_pred             Hh
Confidence            74

>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=93.42  E-value=0.77  Score=31.79  Aligned_cols=78  Identities=9%  Similarity=-0.080  Sum_probs=56.7

Q ss_pred             chHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhh
Q 041786           44 SELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRT  123 (260)
Q Consensus        44 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~  123 (260)
                      ....|++.|+...    .|+...|..+=..|.+.|++++|++.|++..+..  |                     -+...
T Consensus        20 d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld--p---------------------~~~~a   72 (192)
T d1hh8a_          20 DWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--K---------------------HLAVA   72 (192)
T ss_dssp             CHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T---------------------TCHHH
T ss_pred             CHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh--h---------------------hhhhh
Confidence            3447888887653    4678889889999999999999999999988643  1                     23455


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHH
Q 041786          124 HTILVNAWCSSGKMREAQEFLQELS  148 (260)
Q Consensus       124 ~~~li~~~~~~g~~~~a~~~~~~m~  148 (260)
                      |..+=.+|.+.|++++|..-|++..
T Consensus        73 ~~~~g~~~~~~g~~~~A~~~~~kAl   97 (192)
T d1hh8a_          73 YFQRGMLYYQTEKYDLAIKDLKEAL   97 (192)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHH
Confidence            6666666667777777776666544

>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=93.28  E-value=0.66  Score=34.36  Aligned_cols=156  Identities=10%  Similarity=-0.103  Sum_probs=88.2

Q ss_pred             hhhhhcchHHHHHHHHhccc----CCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHH
Q 041786           38 LNLTLISELSMWKTIELMKP----DSLSVF-PQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRM  112 (260)
Q Consensus        38 ~~~~~~~~~~a~~~~~~m~~----~g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m  112 (260)
                      ++.......+|.+.|....+    .+-.++ ..+|+.+-.+|.+.|++++|.+.++...+.                  .
T Consensus        46 ~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~------------------~  107 (290)
T d1qqea_          46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQI------------------F  107 (290)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------H
T ss_pred             HHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHH------------------h
Confidence            33344444466666655422    222222 468888899999999999999999976642                  1


Q ss_pred             HhCCC-CCCHhhHHHHHHHHh-ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCCCC-hhchHHHHHHHHhcC
Q 041786          113 IRKGF-VPDKRTHTILVNAWC-SSGKMREAQEFLQELSDKGFNPPVRSAKQMVNKMIKQGSVPD-LETFNSLIETICKSG  189 (260)
Q Consensus       113 ~~~g~-~p~~~~~~~li~~~~-~~g~~~~a~~~~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p~-~~~~~~li~~~~~~~  189 (260)
                      ...|- .....++..+...|- ..|++++|.+.|.+..+            ++.   ..+..+. ..+|..+...|...|
T Consensus       108 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~------------l~~---~~~~~~~~~~~~~~la~~~~~~g  172 (290)
T d1qqea_         108 THRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGE------------WYA---QDQSVALSNKCFIKCADLKALDG  172 (290)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH------------HHH---HTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             hhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHH------------HHH---hcCchhhhhhHHHHHHHHHHHcC
Confidence            12221 122345555666664 46999999999986543            111   1111111 224555556666666


Q ss_pred             C------------------CCCCcch-HHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          190 E------------------LGLCADV-NTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       190 ~------------------~~~~~~~-~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      +                  ....... ..+...+..+...|+.+.|.+.|++..+.
T Consensus       173 ~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~  228 (290)
T d1qqea_         173 QYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (290)
T ss_dssp             CHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             hHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            5                  1111111 12333444566778888888888876554

>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=93.19  E-value=0.53  Score=31.26  Aligned_cols=63  Identities=16%  Similarity=0.042  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHH
Q 041786           65 QTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFL  144 (260)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  144 (260)
                      .+|+-+..+|.+.|++++|++.++...+.+                       +.+...|..+-.++.+.|++++|...|
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-----------------------p~~~ka~~~~g~~~~~lg~~~~A~~~~  124 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-----------------------KNNVKALYKLGVANMYFGFLEEAKENL  124 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-----------------------TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-----------------------chhhhhhHHhHHHHHHcCCHHHHHHHH
Confidence            466778888999999999999999877632                       135788999999999999999999999


Q ss_pred             HHHHhC
Q 041786          145 QELSDK  150 (260)
Q Consensus       145 ~~m~~~  150 (260)
                      +...+.
T Consensus       125 ~~al~l  130 (153)
T d2fbna1         125 YKAASL  130 (153)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            987763

>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=92.11  E-value=0.55  Score=34.61  Aligned_cols=106  Identities=11%  Similarity=-0.034  Sum_probs=71.6

Q ss_pred             hhcchHHHHHHHHhcccCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHH-H---HHHHHHHH---HHHH
Q 041786           41 TLISELSMWKTIELMKPDSLSVFPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVL-L---YNSLHVCF---VRMI  113 (260)
Q Consensus        41 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~---~~~li~~~---~~m~  113 (260)
                      .-++..+|...+++-.+.. +-|...+..+...|+..|++++|...|+...+..  |+.. .   +..++.+.   .+..
T Consensus         8 ~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~--P~~~~~~~~l~~ll~a~~~~~~a~   84 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKAAQARKDFA   84 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHhccccHHHH
Confidence            3455568888888876653 2468999999999999999999999999998753  5432 2   33333322   2222


Q ss_pred             hC----CC--CC-CHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          114 RK----GF--VP-DKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       114 ~~----g~--~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      ..    .+  .| +...+......+.+.|+.++|.+.+++..+
T Consensus        85 ~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1          85 QGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             TSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            11    11  12 223334445667889999999999998765

>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=91.37  E-value=1.3  Score=29.64  Aligned_cols=65  Identities=11%  Similarity=-0.014  Sum_probs=53.4

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQE  142 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  142 (260)
                      ....|..+-.+|.+.|++++|+..++...+..                       +-+...|..+-.+|.+.|++++|.+
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-----------------------p~~~~a~~~~g~~~~~l~~~~~A~~  132 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-----------------------PSNTKALYRRAQGWQGLKEYDQALA  132 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----------------------TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-----------------------hhhhhHHHhHHHHHHHccCHHHHHH
Confidence            34567777888999999999999999887632                       1356778888999999999999999


Q ss_pred             HHHHHHhC
Q 041786          143 FLQELSDK  150 (260)
Q Consensus       143 ~~~~m~~~  150 (260)
                      .|+...+.
T Consensus       133 ~~~~al~l  140 (169)
T d1ihga1         133 DLKKAQEI  140 (169)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99988763

>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=90.48  E-value=1  Score=26.98  Aligned_cols=70  Identities=9%  Similarity=-0.111  Sum_probs=52.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhC-CCCCC-HhhHHHHHHHHhccCCHHHH
Q 041786           63 FPQTLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRK-GFVPD-KRTHTILVNAWCSSGKMREA  140 (260)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~-g~~p~-~~~~~~li~~~~~~g~~~~a  140 (260)
                      +...+--+=..+.+.|++++|...|++..+.                  .... ...++ ..+++.|-.+|.+.|++++|
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~------------------~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A   65 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQ------------------LDEGEISTIDKVSVLDYLSYAVYQQGDLDKA   65 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------HHTTCCCSSCHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH------------------HhhhhccCccHHHHHHHHhhHHHhcCChHHH
Confidence            4445556667888999999999999987752                  1111 12233 46788899999999999999


Q ss_pred             HHHHHHHHhC
Q 041786          141 QEFLQELSDK  150 (260)
Q Consensus       141 ~~~~~~m~~~  150 (260)
                      +..+++..+.
T Consensus        66 ~~~y~~aL~l   75 (95)
T d1tjca_          66 LLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998763

>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=90.43  E-value=2.8  Score=31.86  Aligned_cols=76  Identities=14%  Similarity=0.143  Sum_probs=46.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHH--------HHHHhCCCCCCHhhHHHHHHHHhccCCHH
Q 041786           67 LSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCF--------VRMIRKGFVPDKRTHTILVNAWCSSGKMR  138 (260)
Q Consensus        67 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--------~~m~~~g~~p~~~~~~~li~~~~~~g~~~  138 (260)
                      |.-++..|.+.+++..|.+++....      +..+|.-+....        ..+.......+......++..|-..|.++
T Consensus        43 ~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~l~~~~e~~la~i~~~~~~~~~d~l~~~v~~ye~~~~~e  116 (336)
T d1b89a_          43 FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFE  116 (336)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHHHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHHHHhCcHHHHHHHHHHHhhcCHHHHHHHHHHHHHcCChH
Confidence            5566777777777777766665332      344555555222        12333334455556667888888888888


Q ss_pred             HHHHHHHHHH
Q 041786          139 EAQEFLQELS  148 (260)
Q Consensus       139 ~a~~~~~~m~  148 (260)
                      +...+++...
T Consensus       117 ~Li~~Le~~~  126 (336)
T d1b89a_         117 ELITMLEAAL  126 (336)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHH
Confidence            8887777654

>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=89.53  E-value=1.8  Score=28.40  Aligned_cols=104  Identities=13%  Similarity=0.015  Sum_probs=71.7

Q ss_pred             HHHHHhcCChHHHHHHHHHhhhcC----CCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHH
Q 041786           71 IEEFGKHGLIDNAVEVFNKCTAFN----CQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQE  146 (260)
Q Consensus        71 i~~~~~~~~~~~a~~~~~~m~~~~----~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  146 (260)
                      =..+.+.|++.+|+..|.+....-    ..++...+....           .....+|+.+-.+|.+.|++++|.+.+..
T Consensus        24 G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~Nla~~~~~l~~~~~Al~~~~~   92 (153)
T d2fbna1          24 GNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKK-----------NIEISCNLNLATCYNKNKDYPKAIDHASK   92 (153)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHH-----------HHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhh-----------hHHHHHHhhHHHHHHHhcccchhhhhhhc
Confidence            356678899999999998876531    111111111110           01235777788899999999999999987


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHHC
Q 041786          147 LSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVED  226 (260)
Q Consensus       147 m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  226 (260)
                      ....                     .|                     .++..|..+-.+|...|++++|...|+...+.
T Consensus        93 al~~---------------------~p---------------------~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          93 VLKI---------------------DK---------------------NNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHH---------------------ST---------------------TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             cccc---------------------cc---------------------hhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            7652                     12                     23456777778888999999999999998875


Q ss_pred             C
Q 041786          227 G  227 (260)
Q Consensus       227 ~  227 (260)
                      .
T Consensus       131 ~  131 (153)
T d2fbna1         131 N  131 (153)
T ss_dssp             S
T ss_pred             C
Confidence            3

>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=87.77  E-value=2.6  Score=28.03  Aligned_cols=61  Identities=11%  Similarity=0.049  Sum_probs=50.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHH
Q 041786           66 TLSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQ  145 (260)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  145 (260)
                      .|+-+-.+|.+.|++++|+..++...+..                       +.+...|..+-.+|...|++++|+..|.
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-----------------------p~~~~a~~~~~~~~~~l~~~~~A~~~~~  122 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD-----------------------SANEKGLYRRGEAQLLMNEFESAKGDFE  122 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc-----------------------cchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            45556778899999999999999887632                       2356778888899999999999999999


Q ss_pred             HHHh
Q 041786          146 ELSD  149 (260)
Q Consensus       146 ~m~~  149 (260)
                      ....
T Consensus       123 ~al~  126 (168)
T d1kt1a1         123 KVLE  126 (168)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8876

>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=86.74  E-value=1.4  Score=26.91  Aligned_cols=38  Identities=16%  Similarity=0.262  Sum_probs=34.0

Q ss_pred             HHhCCCCCCHhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 041786          112 MIRKGFVPDKRTHTILVNAWCSSGKMREAQEFLQELSD  149 (260)
Q Consensus       112 m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  149 (260)
                      +....+.|+..+..+.++||.|.+++..|.++|+-.+.
T Consensus        32 l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~   69 (105)
T d1v54e_          32 LVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   69 (105)
T ss_dssp             HTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            34567889999999999999999999999999998775

>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=85.77  E-value=3.2  Score=26.95  Aligned_cols=122  Identities=14%  Similarity=-0.000  Sum_probs=69.6

Q ss_pred             HHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCCCHhhHHHHHHHHhcc----------CCHHHHHHH
Q 041786           74 FGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVPDKRTHTILVNAWCSS----------GKMREAQEF  143 (260)
Q Consensus        74 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p~~~~~~~li~~~~~~----------g~~~~a~~~  143 (260)
                      |-+.+.+++|++.|+...+..  |                     -+...+..+=.+|...          +.+++|+..
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~--P---------------------~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~   63 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN--P---------------------LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITK   63 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC--T---------------------TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC--C---------------------cchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHH
Confidence            445567899999999887643  2                     1233333333333332          334556666


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCCCCC-ChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHH
Q 041786          144 LQELSDKGFNPPVRSAKQMVNKMIKQGSVP-DLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCN  222 (260)
Q Consensus       144 ~~~m~~~~~~~~~~~a~~l~~~m~~~g~~p-~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~  222 (260)
                      |++..+                     +.| +..+|..+-.+|...|+..  ++..         ...+.+++|.+.|+.
T Consensus        64 ~~kAl~---------------------l~P~~~~a~~~lG~~y~~~g~~~--~~~~---------~~~~~~~~A~~~~~k  111 (145)
T d1zu2a1          64 FEEALL---------------------IDPKKDEAVWCIGNAYTSFAFLT--PDET---------EAKHNFDLATQFFQQ  111 (145)
T ss_dssp             HHHHHH---------------------HCTTCHHHHHHHHHHHHHHHHHC--CCHH---------HHHHHHHHHHHHHHH
T ss_pred             HHHHHH---------------------hcchhhHHHhhHHHHHHHcccch--hhHH---------HHHHhHHHhhhhhhc
Confidence            665543                     223 4556666666665554210  1111         112356788888888


Q ss_pred             HHHCCCCcCCCc-----ccHHHHHHHHHHHHhcCC
Q 041786          223 LVEDGHKLFPSL-----GQFDDAFCFFSEMQIKTH  252 (260)
Q Consensus       223 m~~~~~~p~~~~-----g~~~~a~~~~~~m~~~g~  252 (260)
                      ..+.  .|+...     +....|..++.+..+.|+
T Consensus       112 al~l--~P~~~~~~~~L~~~~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         112 AVDE--QPDNTHYLKSLEMTAKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHH--CTTCHHHHHHHHHHHTHHHHHHHHHHSSS
T ss_pred             cccc--CCCHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            7763  465555     777788888888777664

>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=85.55  E-value=5.5  Score=29.49  Aligned_cols=47  Identities=6%  Similarity=-0.154  Sum_probs=32.9

Q ss_pred             HHHHHHHhcccCCCCCCHHHHHHHHHHHHhcC--ChHHHHHHHHHhhhcC
Q 041786           47 SMWKTIELMKPDSLSVFPQTLSLIIEEFGKHG--LIDNAVEVFNKCTAFN   94 (260)
Q Consensus        47 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~   94 (260)
                      +|++.++...+.. +-+...|..+..++...+  ++++|...++...+..
T Consensus        91 ~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~  139 (334)
T d1dcea1          91 AELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD  139 (334)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC
Confidence            7788888775543 235667777766666665  4789999999887653

>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=85.52  E-value=3.5  Score=27.29  Aligned_cols=110  Identities=13%  Similarity=-0.041  Sum_probs=71.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhcCCCCcHHHHHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHhccCCHHHHHHHHH
Q 041786           67 LSLIIEEFGKHGLIDNAVEVFNKCTAFNCQQCVLLYNSLHVCFVRMIRKGFVP-DKRTHTILVNAWCSSGKMREAQEFLQ  145 (260)
Q Consensus        67 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~  145 (260)
                      +...-..+.+.|++++|++.|.+..+..  +    .....  ........+.| ....|..+-.+|.+.|++++|+..+.
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~--~----~~~~~--~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~  101 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYV--E----GSRAA--AEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCL  101 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHH--H----HHHHH--SCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhh--h----hhhhh--hhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhh
Confidence            3344556778899999999988765310  0    00000  00001111222 34566777788999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHCCCCCChhchHHHHHHHHhcCCCCCCcchHHHHHHHHhhhhhccHHHHHHHHHHHHH
Q 041786          146 ELSDKGFNPPVRSAKQMVNKMIKQGSVPDLETFNSLIETICKSGELGLCADVNTNKISIPAVSKEFMIDEAFRLLCNLVE  225 (260)
Q Consensus       146 ~m~~~~~~~~~~~a~~l~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  225 (260)
                      ...+.                     .|+                     +...|..+-.+|.+.|++++|...|+...+
T Consensus       102 ~al~~---------------------~p~---------------------~~~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1         102 EALEI---------------------DPS---------------------NTKALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             HHHTT---------------------CTT---------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhhhh---------------------hhh---------------------hhhHHHhHHHHHHHccCHHHHHHHHHHHHH
Confidence            87752                     222                     244456666788888899999999998887


Q ss_pred             C
Q 041786          226 D  226 (260)
Q Consensus       226 ~  226 (260)
                      .
T Consensus       140 l  140 (169)
T d1ihga1         140 I  140 (169)
T ss_dssp             H
T ss_pred             h
Confidence            4