Citrus Sinensis ID: 027083

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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-------23
Protein Sequence
MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASYA
Secondary Structure (PSIPRED)
ccHHHHHHHHHccHHHHHHHHHHHHHcccccccccHHHHHHHHHcccccHHHHHHHHHHccccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccccEEEEEEEEccccc
Coil and Loop (DISEMBL)
MGDLQRAFITLNEFEtaygdsiidmeeifspftslyPLVVACSRKGFETLDSVYFQLEnlsraeppyksvAAINCVILGCANIWDLDRAYQTFeavgssfgltpdihSYNALIYAFGKLKKTFEASRVFEHLVSLgvkpnamsYSLLVDAHLTNRDQKAALSVIDEMvnagfapskETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASYA
Flexible Loop (DISEMBL)
MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMvnagfapsketlkKVRRRCvremdeesndrvealakkfdirmntenrknilfnleysasya
Low Complexity Region (SEG)
MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASYA
Disordered region (IsUnstruct)
*****RAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGF********************************FDI*******KNILFNLE******
Disordered Region (DISOPRED)
MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASY*
Disordered Region (DISEMBL)
MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRR*************VEALAKKFDIRMNTENRKNILFNLEYSASYA
Disordered Region (DISPRO)
MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSAS**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASYA
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	228	2.2.26 [Sep-21-2011]
Q9FZD1	630	Pentatricopeptide repeat-	yes	no	1.0	0.361	0.716	6e-99
Q9SAA6	657	Pentatricopeptide repeat-	no	no	0.548	0.190	0.320	1e-10
Q9LSQ2	659	Putative pentatricopeptid	no	no	0.679	0.235	0.263	1e-09
Q9SZ52	1112	Pentatricopeptide repeat-	no	no	0.495	0.101	0.275	2e-09
Q8GYP6	860	Pentatricopeptide repeat-	no	no	0.372	0.098	0.348	1e-08
Q9S7Q2	862	Pentatricopeptide repeat-	no	no	0.644	0.170	0.277	1e-08
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.495	0.182	0.289	2e-08
Q9FMF6	730	Pentatricopeptide repeat-	no	no	0.473	0.147	0.309	2e-08
Q9SNB7	665	Pentatricopeptide repeat-	no	no	0.570	0.195	0.302	2e-08
Q9FFE3	535	Pentatricopeptide repeat-	no	no	0.482	0.205	0.270	2e-08

>sp|Q9FZD1|PPR58_ARATH Pentatricopeptide repeat-containing protein At1g26460, mitochondrial OS=Arabidopsis thaliana GN=At1g26460 PE=1 SV=1

 Score =  360 bits (923), Expect = 6e-99,   Method: Compositional matrix adjust.
 Identities = 164/229 (71%), Positives = 205/229 (89%), Gaps = 1/229 (0%)

Query: 1   MGDLQRAFITLNEFETAYGDSIIDM-EEIFSPFTSLYPLVVACSRKGFETLDSVYFQLEN 59
           +G+LQ+AF +L+E E+AY DS  ++ EE+ SPFTSLYPLVVACS+KGFETLD VYFQLE+
Sbjct: 399 LGNLQKAFTSLHELESAYADSEKEVVEEMLSPFTSLYPLVVACSKKGFETLDEVYFQLES 458

Query: 60  LSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKL 119
           LS+ + PYKSVAA+NC+ILGCAN WDLDRAYQTFEA+ +SFGLTP+I SYNAL+YAFGK+
Sbjct: 459 LSQGDTPYKSVAALNCIILGCANTWDLDRAYQTFEAISASFGLTPNIDSYNALLYAFGKV 518

Query: 120 KKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETL 179
           KKTFEA+ VFEHLVS+GVKP++ +YSLLVDAHL NRD K+AL+V+D+M+ AGF PS+ETL
Sbjct: 519 KKTFEATNVFEHLVSIGVKPDSRTYSLLVDAHLINRDPKSALTVVDDMIKAGFEPSRETL 578

Query: 180 KKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASYA 228
           KK+RRRCVREMD+E++D+VEALAKKF IRM +ENR+N+LFN++YS   A
Sbjct: 579 KKLRRRCVREMDDENDDQVEALAKKFQIRMGSENRRNMLFNIDYSRGRA 627

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SAA6|PPR34_ARATH Pentatricopeptide repeat-containing protein At1g11710, mitochondrial OS=Arabidopsis thaliana GN=At1g11710 PE=2 SV=1

 Score = 67.0 bits (162), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 42/131 (32%), Positives = 75/131 (57%), Gaps = 6/131 (4%)

Query: 38  LVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA-NIWDLDRAYQTFEAV 96
           LV AC++ G       Y  +E  +RAE    SV A+N   +GC  N+ ++DR ++ ++ +
Sbjct: 154 LVRACTQNG--DAQGAYEVIEQ-TRAEGFCVSVHALNN-FMGCLLNVNEIDRFWKVYKEM 209

Query: 97  GSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRD 156
             S G   +++++N +IY+F K  K FEA  VF  ++  GV PN +S+++++D      D
Sbjct: 210 -DSLGYVENVNTFNLVIYSFCKESKLFEALSVFYRMLKCGVWPNVVSFNMMIDGACKTGD 268

Query: 157 QKAALSVIDEM 167
            + AL ++ +M
Sbjct: 269 MRFALQLLGKM 279

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LSQ2|PP239_ARATH Putative pentatricopeptide repeat-containing protein At3g16890, mitochondrial OS=Arabidopsis thaliana GN=PPR40 PE=3 SV=1

 Score = 63.2 bits (152), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 43/163 (26%), Positives = 78/163 (47%), Gaps = 8/163 (4%)

Query: 29  FSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDR 88
           F P    + L++ C  +  E  D+     E L     P +     N +I  C +  D DR
Sbjct: 491 FKPDVITFSLIINCLCRAKEIKDAFDCFKEMLEWGIEPNE--ITYNILIRSCCSTGDTDR 548

Query: 89  AYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV 148
           + + F  +  + GL+PD+++YNA I +F K++K  +A  + + ++ +G+KP+  +YS L+
Sbjct: 549 SVKLFAKMKEN-GLSPDLYAYNATIQSFCKMRKVKKAEELLKTMLRIGLKPDNFTYSTLI 607

Query: 149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMD 191
            A   +  +  A  +   +   G  P   T     +R V E+D
Sbjct: 608 KALSESGRESEAREMFSSIERHGCVPDSYT-----KRLVEELD 645

Required for the ubiqinol-cytochrome c oxidoreductase activity of mitochondrial Complex III.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 62.8 bits (151), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 32/116 (27%), Positives = 60/116 (51%)

Query: 70   VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVF 129
            V   N +I G      L+ A   F  + +S G+TPD+++YN+LI   G      EA +++
Sbjct: 996  VVCYNLIINGLGKSHRLEEALVLFNEMKTSRGITPDLYTYNSLILNLGIAGMVEEAGKIY 1055

Query: 130  EHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRR 185
              +   G++PN  +++ L+  +  +   + A +V   MV  GF+P+  T +++  R
Sbjct: 1056 NEIQRAGLEPNVFTFNALIRGYSLSGKPEHAYAVYQTMVTGGFSPNTGTYEQLPNR 1111

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|Q8GYP6|PPR49_ARATH Pentatricopeptide repeat-containing protein At1g18900 OS=Arabidopsis thaliana GN=At1g18900 PE=1 SV=1

 Score = 60.5 bits (145), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 31/89 (34%), Positives = 49/89 (55%), Gaps = 4/89 (4%)

Query: 90  YQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVD 149
           YQ  +A     GL+PD  +Y+ +I   GK      A ++F  +V  G  PN ++Y++++D
Sbjct: 457 YQRMQA----GGLSPDTFTYSVIINCLGKAGHLPAAHKLFCEMVDQGCTPNLVTYNIMMD 512

Query: 150 AHLTNRDQKAALSVIDEMVNAGFAPSKET 178
            H   R+ + AL +  +M NAGF P K T
Sbjct: 513 LHAKARNYQNALKLYRDMQNAGFEPDKVT 541

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S7Q2|PP124_ARATH Pentatricopeptide repeat-containing protein At1g74850, chloroplastic OS=Arabidopsis thaliana GN=PTAC2 PE=2 SV=1

 Score = 60.1 bits (144), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 43/155 (27%), Positives = 74/155 (47%), Gaps = 8/155 (5%)

Query: 27  EIFSPFTSLYPLVV-ACSRKG--FETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANI 83
           E  SP    Y  V+ AC+R G  +E L  ++ ++    R E     +   N ++  CA  
Sbjct: 205 EKISPSILTYNTVINACARGGLDWEGLLGLFAEM----RHEGIQPDIVTYNTLLSACAIR 260

Query: 84  WDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMS 143
              D A   F  +    G+ PD+ +Y+ L+  FGKL++  +   +   + S G  P+  S
Sbjct: 261 GLGDEAEMVFRTMNDG-GIVPDLTTYSHLVETFGKLRRLEKVCDLLGEMASGGSLPDITS 319

Query: 144 YSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKET 178
           Y++L++A+  +   K A+ V  +M  AG  P+  T
Sbjct: 320 YNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNANT 354

Involved in plastid gene expression.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 59.7 bits (143), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 57/114 (50%), Gaps = 1/114 (0%)

Query: 69  SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRV 128
            +   N +I G  N   +D A+  F ++ S  G+ PD+ +YN +I    K     EA  +
Sbjct: 489 GIGIYNIIIHGMCNASKVDDAWSLFCSL-SDKGVKPDVVTYNVMIGGLCKKGSLSEADML 547

Query: 129 FEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKV 182
           F  +   G  P+  +Y++L+ AHL      +++ +I+EM   GF+    T+K V
Sbjct: 548 FRKMKEDGCTPDDFTYNILIRAHLGGSGLISSVELIEEMKVCGFSADSSTIKMV 601

Arabidopsis thaliana (taxid: 3702)

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

 Score = 59.3 bits (142), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 34/110 (30%), Positives = 52/110 (47%)

Query: 66  PYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEA 125
           P   +   N +I G      LD A      + +S+G+ PD+ +YN+LIY + K      A
Sbjct: 349 PKPEIVIFNTLIHGFVTHGRLDDAKAVLSDMVTSYGIVPDVCTYNSLIYGYWKEGLVGLA 408

Query: 126 SRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPS 175
             V   + + G KPN  SY++LVD          A +V++EM   G  P+
Sbjct: 409 LEVLHDMRNKGCKPNVYSYTILVDGFCKLGKIDEAYNVLNEMSADGLKPN 458

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SNB7|PP264_ARATH Pentatricopeptide repeat-containing protein At3g46610 OS=Arabidopsis thaliana GN=At3g46610 PE=2 SV=1

 Score = 59.3 bits (142), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 43/142 (30%), Positives = 72/142 (50%), Gaps = 12/142 (8%)

Query: 74  NCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLV 133
           N V++ C+   +   A Q F+A+  + G  P + SY AL+ A  K K   EA RV+ H++
Sbjct: 462 NAVLVACSKASETTAAIQIFKAMVDN-GEKPTVISYGALLSALEKGKLYDEAFRVWNHMI 520

Query: 134 SLGVKPNAMSYSLLVDAHLTNRDQKAAL--SVIDEMVNAGFAPSKETLKKVRRRCVREMD 191
            +G++PN  +Y+ +  A +    QK  L  +++ EM + G  PS  T   V   C R   
Sbjct: 521 KVGIEPNLYAYTTM--ASVLTGQQKFNLLDTLLKEMASKGIEPSVVTFNAVISGCAR--- 575

Query: 192 EESNDRVEALAKKFDIRMNTEN 213
               + +  +A ++  RM +EN
Sbjct: 576 ----NGLSGVAYEWFHRMKSEN 593

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FFE3|PP388_ARATH Pentatricopeptide repeat-containing protein At5g16420, mitochondrial OS=Arabidopsis thaliana GN=At5g16420 PE=2 SV=1

 Score = 59.3 bits (142), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 30/111 (27%), Positives = 60/111 (54%)

Query: 68  KSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASR 127
           +SV ++N ++         D  +  F+    SFG+TP+I + N L+ A  K      A +
Sbjct: 153 RSVRSLNTLLNVLIQNQRFDLVHAMFKNSKESFGITPNIFTCNLLVKALCKKNDIESAYK 212

Query: 128 VFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKET 178
           V + + S+G+ PN ++Y+ ++  ++   D ++A  V++EM++ G+ P   T
Sbjct: 213 VLDEIPSMGLVPNLVTYTTILGGYVARGDMESAKRVLEEMLDRGWYPDATT 263

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	228
359472534	616	PREDICTED: pentatricopeptide repeat-cont	1.0	0.370	0.820	1e-109
255542052	619	pentatricopeptide repeat-containing prot	1.0	0.368	0.768	1e-100
449452857	618	PREDICTED: pentatricopeptide repeat-cont	0.995	0.367	0.758	2e-99
356494977	616	PREDICTED: pentatricopeptide repeat-cont	1.0	0.370	0.745	3e-99
356499885	615	PREDICTED: pentatricopeptide repeat-cont	0.986	0.365	0.746	6e-99
224108888	608	predicted protein [Populus trichocarpa]	1.0	0.375	0.751	4e-98
297851044	630	pentatricopeptide repeat-containing prot	1.0	0.361	0.729	4e-98
21537068	630	unknown [Arabidopsis thaliana]	1.0	0.361	0.716	3e-97
18395911	630	pentatricopeptide repeat-containing prot	1.0	0.361	0.716	3e-97
357122103	618	PREDICTED: pentatricopeptide repeat-cont	0.991	0.365	0.706	3e-90

>gi|359472534|ref|XP_002274321.2| PREDICTED: pentatricopeptide repeat-containing protein At1g26460, mitochondrial-like [Vitis vinifera] gi|297738080|emb|CBI27281.3| unnamed protein product [Vitis vinifera]

 Score =  400 bits (1029), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 188/229 (82%), Positives = 213/229 (93%), Gaps = 1/229 (0%)

Query: 1   MGDLQRAFITLNEFETAYGDSIIDMEE-IFSPFTSLYPLVVACSRKGFETLDSVYFQLEN 59
           +G+LQRAF TL+EFETAY +S  + EE IFSPFTSL+PLV+A S+KGFETLD+VYFQLEN
Sbjct: 388 LGNLQRAFSTLHEFETAYRNSPKEAEEDIFSPFTSLHPLVMASSKKGFETLDTVYFQLEN 447

Query: 60  LSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKL 119
           LSRA+PPYKSVAA+NCVILGCANIWDLDRAYQTFEA+GSSFGLTPDIHSYNAL+YAFGKL
Sbjct: 448 LSRADPPYKSVAALNCVILGCANIWDLDRAYQTFEAIGSSFGLTPDIHSYNALMYAFGKL 507

Query: 120 KKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETL 179
           KKTFEASRVFEHL SLG+KPNAMS+SLLVDAHL NRDQKAALSVI+EM+NAGFAPSKE L
Sbjct: 508 KKTFEASRVFEHLTSLGIKPNAMSFSLLVDAHLINRDQKAALSVIEEMINAGFAPSKEIL 567

Query: 180 KKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASYA 228
           KKVRRRC+REMD ESND+VE+LA+KF IRM TENR+++LFNL Y+  YA
Sbjct: 568 KKVRRRCIREMDYESNDQVESLARKFKIRMGTENRRDMLFNLAYNTEYA 616

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255542052|ref|XP_002512090.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223549270|gb|EEF50759.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  371 bits (953), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 176/229 (76%), Positives = 204/229 (89%), Gaps = 1/229 (0%)

Query: 1   MGDLQRAFITLNEFETAYGDSIIDMEE-IFSPFTSLYPLVVACSRKGFETLDSVYFQLEN 59
           +G+LQ+AF TL E+E+AY  S  + EE +FSPFTSL PLVVACS+KGFETLD+VYFQLEN
Sbjct: 390 LGNLQKAFTTLREYESAYDSSEKEAEEELFSPFTSLNPLVVACSKKGFETLDTVYFQLEN 449

Query: 60  LSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKL 119
           LSRAE PYKSVAA+NC+ILGCANIWD+DRAYQTFEA+GSSF LTP+IHSYNALIYAFG+L
Sbjct: 450 LSRAERPYKSVAALNCIILGCANIWDIDRAYQTFEAIGSSFELTPNIHSYNALIYAFGRL 509

Query: 120 KKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETL 179
           KKTFEA+RVFEHLVSLG+KPNA +Y LLVDAHL NRD K ALSVI+EM++AGF PSKETL
Sbjct: 510 KKTFEAARVFEHLVSLGIKPNATTYLLLVDAHLINRDVKTALSVIEEMMSAGFTPSKETL 569

Query: 180 KKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASYA 228
           KKVRRRCVREMD +S+DRV ++AK   IRM TENR+++LFNLEYS  YA
Sbjct: 570 KKVRRRCVREMDYDSDDRVGSVAKNCKIRMGTENRRDMLFNLEYSTDYA 618

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449452857|ref|XP_004144175.1| PREDICTED: pentatricopeptide repeat-containing protein At1g26460, mitochondrial-like [Cucumis sativus] gi|449489211|ref|XP_004158247.1| PREDICTED: pentatricopeptide repeat-containing protein At1g26460, mitochondrial-like [Cucumis sativus]

 Score =  367 bits (942), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 173/228 (75%), Positives = 200/228 (87%), Gaps = 1/228 (0%)

Query: 1   MGDLQRAFITLNEFETAYGDSII-DMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLEN 59
           +G+LQRAF TL EFE AY +S     E++FSPFTSL+PLVVACS+KGFETLD VYFQLEN
Sbjct: 389 LGNLQRAFSTLREFEEAYRNSDDGSCEDMFSPFTSLHPLVVACSKKGFETLDLVYFQLEN 448

Query: 60  LSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKL 119
           LSRA+PPYKSVAA+NCVILGCANIWDLDRAYQTFEA+GSSFGLTP+IHSYNAL+YAFG+L
Sbjct: 449 LSRADPPYKSVAALNCVILGCANIWDLDRAYQTFEAIGSSFGLTPNIHSYNALMYAFGRL 508

Query: 120 KKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETL 179
           KKTFEA+RVFEHLV LG+KPNA SYSLL DAHL NRD K+AL+ ID MV AGFAPSKE L
Sbjct: 509 KKTFEAARVFEHLVGLGIKPNATSYSLLADAHLINRDPKSALAAIDNMVTAGFAPSKELL 568

Query: 180 KKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASY 227
           KKVRRRC+RE D +SND+V  LA+ F IRM +E+R++ILFNL Y ++Y
Sbjct: 569 KKVRRRCIREQDYDSNDKVGNLAQNFKIRMGSESRRDILFNLNYGSNY 616

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356494977|ref|XP_003516357.1| PREDICTED: pentatricopeptide repeat-containing protein At1g26460, mitochondrial-like [Glycine max]

 Score =  367 bits (941), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 170/228 (74%), Positives = 201/228 (88%)

Query: 1   MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENL 60
           +G+LQ+AF TLNE+E+AYGDS  + E++F PFTSL+PLVVACS+KGFETLD+VYFQLENL
Sbjct: 389 LGNLQKAFGTLNEYESAYGDSGQEAEDLFCPFTSLHPLVVACSKKGFETLDNVYFQLENL 448

Query: 61  SRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLK 120
           +RAEPPYKSVAA+NCVILGCANIWDLDRAYQTFE++GS+FGL PDIHSYN LIYAFGKLK
Sbjct: 449 NRAEPPYKSVAALNCVILGCANIWDLDRAYQTFESIGSTFGLIPDIHSYNGLIYAFGKLK 508

Query: 121 KTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLK 180
           KT EA+RVFEHLVSLG+K NA SYSLLVDAHL NRD K+AL+VID+M  AG+ PSKE LK
Sbjct: 509 KTHEATRVFEHLVSLGLKSNAKSYSLLVDAHLINRDVKSALAVIDDMRAAGYEPSKEMLK 568

Query: 181 KVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASYA 228
           KVRRRC REMD ES+ RV++LA   + ++ +ENR++ILFNL YS  YA
Sbjct: 569 KVRRRCTREMDNESDARVQSLANSLNYQLGSENRRDILFNLNYSMGYA 616

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356499885|ref|XP_003518766.1| PREDICTED: pentatricopeptide repeat-containing protein At1g26460, mitochondrial-like [Glycine max]

 Score =  365 bits (938), Expect = 6e-99,   Method: Compositional matrix adjust.
 Identities = 168/225 (74%), Positives = 200/225 (88%)

Query: 1   MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENL 60
           +G+LQ+AF TLNE+E AYGDS  + E++F PFTSL+PLVVACS+KGFETLD+VYFQLENL
Sbjct: 387 LGNLQKAFGTLNEYEAAYGDSGQEAEDLFCPFTSLHPLVVACSKKGFETLDNVYFQLENL 446

Query: 61  SRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLK 120
           +RAEPPYKSVAA+NCVILGCANIWDLDRAYQTFE++GS+FGL PDIHSYN L+YAFGKLK
Sbjct: 447 NRAEPPYKSVAALNCVILGCANIWDLDRAYQTFESIGSTFGLIPDIHSYNGLMYAFGKLK 506

Query: 121 KTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLK 180
           KT EA+RVFEHLVSLG+KPNA SYSLLVDAHL NRD K+AL+VID+M  AG+ PSKE LK
Sbjct: 507 KTHEATRVFEHLVSLGLKPNAKSYSLLVDAHLINRDVKSALAVIDDMRAAGYEPSKEVLK 566

Query: 181 KVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSA 225
           KVRRRC+REMD ES+ RV++L    + R+ +ENR++ILFNL YS+
Sbjct: 567 KVRRRCMREMDNESDARVQSLVNSLNYRLGSENRRDILFNLNYSS 611

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224108888|ref|XP_002315005.1| predicted protein [Populus trichocarpa] gi|222864045|gb|EEF01176.1| predicted protein [Populus trichocarpa]

 Score =  363 bits (931), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 172/229 (75%), Positives = 202/229 (88%), Gaps = 1/229 (0%)

Query: 1   MGDLQRAFITLNEFETAYGDSIIDMEE-IFSPFTSLYPLVVACSRKGFETLDSVYFQLEN 59
           +G LQ+AF TL E E+ YG S  + EE +FSPF+SL PLV+ACS+KGFETLDSVYFQLEN
Sbjct: 380 LGSLQKAFATLRELESCYGSSDKEAEEELFSPFSSLNPLVLACSKKGFETLDSVYFQLEN 439

Query: 60  LSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKL 119
           LSRAE PYKSVAA+NC+ILGCANIWDLDRAYQTFEA+ SSFGLTP+IHSYNALI+AFG+L
Sbjct: 440 LSRAESPYKSVAALNCIILGCANIWDLDRAYQTFEAISSSFGLTPNIHSYNALIFAFGRL 499

Query: 120 KKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETL 179
           KKTFEAS VFEHLVSLGVKPNAMSYSLLVDAHL NRD KAA+ VI++M +AGF PSKE L
Sbjct: 500 KKTFEASNVFEHLVSLGVKPNAMSYSLLVDAHLINRDTKAAVLVIEKMDSAGFVPSKEIL 559

Query: 180 KKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASYA 228
           KKV+RRC+REM+ ES+DRVE  A+KFD R+ ++NR+++LFNLEYS  +A
Sbjct: 560 KKVKRRCIREMEYESDDRVEFWARKFDYRLGSQNRRDLLFNLEYSTDFA 608

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297851044|ref|XP_002893403.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297339245|gb|EFH69662.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  362 bits (930), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 167/229 (72%), Positives = 204/229 (89%), Gaps = 1/229 (0%)

Query: 1   MGDLQRAFITLNEFETAYGDSIIDM-EEIFSPFTSLYPLVVACSRKGFETLDSVYFQLEN 59
           +G+LQ+AF +L+E ETAY DS  ++ EE+ SPFTSLYPLVVACS+KGFETLD VYFQLE+
Sbjct: 399 LGNLQKAFTSLHELETAYADSEKEVVEEMLSPFTSLYPLVVACSKKGFETLDEVYFQLES 458

Query: 60  LSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKL 119
           LSR + PYKSVAA+NC+ILGCAN WDLDRAYQTFEA+ +SFGLTP+I SYNAL+YAFGK+
Sbjct: 459 LSRGDTPYKSVAALNCIILGCANTWDLDRAYQTFEAISASFGLTPNIDSYNALLYAFGKV 518

Query: 120 KKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETL 179
           KKTFEA+ VFEHLVS+GVKP++ +YSLLVDAHL NRD K+AL+V+D+M+ AGF PS+ETL
Sbjct: 519 KKTFEATNVFEHLVSIGVKPDSRTYSLLVDAHLINRDPKSALTVVDDMIKAGFEPSRETL 578

Query: 180 KKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASYA 228
           KK+RRRCVREMD E++D+VEALAKKF IRM TENR+N+LFN++YS   A
Sbjct: 579 KKLRRRCVREMDYENDDQVEALAKKFQIRMGTENRRNMLFNIDYSRGRA 627

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21537068|gb|AAM61409.1| unknown [Arabidopsis thaliana]

 Score =  360 bits (924), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 164/229 (71%), Positives = 205/229 (89%), Gaps = 1/229 (0%)

Query: 1   MGDLQRAFITLNEFETAYGDSIIDM-EEIFSPFTSLYPLVVACSRKGFETLDSVYFQLEN 59
           +G+LQ+AF +L+E E+AY DS  ++ EE+ SPFTSLYPLVVACS+KGFETLD VYFQLE+
Sbjct: 399 LGNLQKAFTSLHELESAYADSEKEVVEEMLSPFTSLYPLVVACSKKGFETLDEVYFQLES 458

Query: 60  LSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKL 119
           LS+ + PYKSVAA+NC+ILGCAN WDLDRAYQTFEA+ +SFGLTP+I SYNAL+YAFGK+
Sbjct: 459 LSQGDTPYKSVAALNCIILGCANTWDLDRAYQTFEAISASFGLTPNIDSYNALLYAFGKV 518

Query: 120 KKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETL 179
           KKTFEA+ VFEHLVS+GVKP++ +YSLLVDAHL NRD K+AL+V+D+M+ AGF PS+ETL
Sbjct: 519 KKTFEATNVFEHLVSIGVKPDSRTYSLLVDAHLINRDPKSALTVVDDMIKAGFEPSRETL 578

Query: 180 KKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASYA 228
           KK+RRRCVREMD+E++D+VEALAKKF IRM +ENR+N+LFN++YS   A
Sbjct: 579 KKLRRRCVREMDDENDDQVEALAKKFQIRMGSENRRNMLFNIDYSRGRA 627

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18395911|ref|NP_564247.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75173405|sp|Q9FZD1.1|PPR58_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At1g26460, mitochondrial; Flags: Precursor gi|9797754|gb|AAF98572.1|AC013427_15 Contains similarity to a hypothetical protein F21B7.16 gi|7485908 from Arabidopsis thaliana BAC F21B7 gb|AC002560 and contains multiple PPR PF|01535 repeats and a domain of unknown function PF|00668. ESTs gb|T45755, gb|AI993167, gb|AV554476, gb|T46823, gb|T41981, gb|AV546597, gb|AI099868 come from this gene [Arabidopsis thaliana] gi|19698979|gb|AAL91225.1| unknown protein [Arabidopsis thaliana] gi|22136300|gb|AAM91228.1| unknown protein [Arabidopsis thaliana] gi|332192573|gb|AEE30694.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  360 bits (923), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 164/229 (71%), Positives = 205/229 (89%), Gaps = 1/229 (0%)

Query: 1   MGDLQRAFITLNEFETAYGDSIIDM-EEIFSPFTSLYPLVVACSRKGFETLDSVYFQLEN 59
           +G+LQ+AF +L+E E+AY DS  ++ EE+ SPFTSLYPLVVACS+KGFETLD VYFQLE+
Sbjct: 399 LGNLQKAFTSLHELESAYADSEKEVVEEMLSPFTSLYPLVVACSKKGFETLDEVYFQLES 458

Query: 60  LSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKL 119
           LS+ + PYKSVAA+NC+ILGCAN WDLDRAYQTFEA+ +SFGLTP+I SYNAL+YAFGK+
Sbjct: 459 LSQGDTPYKSVAALNCIILGCANTWDLDRAYQTFEAISASFGLTPNIDSYNALLYAFGKV 518

Query: 120 KKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETL 179
           KKTFEA+ VFEHLVS+GVKP++ +YSLLVDAHL NRD K+AL+V+D+M+ AGF PS+ETL
Sbjct: 519 KKTFEATNVFEHLVSIGVKPDSRTYSLLVDAHLINRDPKSALTVVDDMIKAGFEPSRETL 578

Query: 180 KKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASYA 228
           KK+RRRCVREMD+E++D+VEALAKKF IRM +ENR+N+LFN++YS   A
Sbjct: 579 KKLRRRCVREMDDENDDQVEALAKKFQIRMGSENRRNMLFNIDYSRGRA 627

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357122103|ref|XP_003562755.1| PREDICTED: pentatricopeptide repeat-containing protein At1g26460, mitochondrial-like [Brachypodium distachyon]

 Score =  337 bits (863), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 161/228 (70%), Positives = 191/228 (83%), Gaps = 2/228 (0%)

Query: 1   MGDLQRAFITLNEFETAYGDSI-IDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLEN 59
           +G LQRAF TL EFE AYG+S  ID+E +FSPF SL PLVVAC + GF TLDSVY QLEN
Sbjct: 392 IGQLQRAFGTLREFENAYGNSENIDIE-LFSPFMSLQPLVVACCKDGFTTLDSVYVQLEN 450

Query: 60  LSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKL 119
           LS A+PPYKSVAA+NCVI+GCANIWDL+RAY+TFEA+   FGLTPDIHSYNAL+YAFGKL
Sbjct: 451 LSSADPPYKSVAALNCVIVGCANIWDLERAYETFEALKEKFGLTPDIHSYNALLYAFGKL 510

Query: 120 KKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETL 179
           KKT EA  VF+HLVSL VKPN+ +YSLLVDAHL NRD KAAL+VIDEMV+ GF PSKETL
Sbjct: 511 KKTEEACNVFQHLVSLDVKPNSTTYSLLVDAHLVNRDPKAALAVIDEMVDVGFTPSKETL 570

Query: 180 KKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASY 227
           KKVRRRC RE D +S++++++L K+ + RM  E R+ +L+N+EYSA Y
Sbjct: 571 KKVRRRCSRESDFDSDEKLQSLCKQLNCRMGGEGRRELLYNIEYSAEY 618

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

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	228
TAIR|locus:2198005	630	AT1G26460 "AT1G26460" [Arabido	1.0	0.361	0.716	5.9e-89
TAIR|locus:2027382	657	AT1G11710 "AT1G11710" [Arabido	0.614	0.213	0.308	4.3e-12
TAIR|locus:2086032	659	PPR40 "pentatricopeptide (PPR)	0.679	0.235	0.263	1.2e-09
TAIR|locus:2178037	678	AT5G39980 [Arabidopsis thalian	0.903	0.303	0.262	6.6e-09
TAIR|locus:2116772	1112	PGR3 "AT4G31850" [Arabidopsis	0.508	0.104	0.275	3.3e-08
TAIR|locus:2075165	665	AT3G46610 "AT3G46610" [Arabido	0.495	0.169	0.318	5.7e-08
TAIR|locus:2133352	805	AT4G01570 [Arabidopsis thalian	0.714	0.202	0.284	9.9e-08
TAIR|locus:2027166	862	PTAC2 "plastid transcriptional	0.640	0.169	0.288	1.1e-07
TAIR|locus:504956171	650	ABO5 "ABA Overly-Sensitive 5"	0.653	0.229	0.291	1.8e-07
TAIR|locus:2168078	907	AT5G59900 "AT5G59900" [Arabido	0.447	0.112	0.320	2.8e-07

TAIR|locus:2198005 AT1G26460 "AT1G26460" [Arabidopsis thaliana (taxid:3702)]

 Score = 888 (317.7 bits), Expect = 5.9e-89, P = 5.9e-89
 Identities = 164/229 (71%), Positives = 205/229 (89%)

Query:     1 MGDLQRAFITLNEFETAYGDSIIDM-EEIFSPFTSLYPLVVACSRKGFETLDSVYFQLEN 59
             +G+LQ+AF +L+E E+AY DS  ++ EE+ SPFTSLYPLVVACS+KGFETLD VYFQLE+
Sbjct:   399 LGNLQKAFTSLHELESAYADSEKEVVEEMLSPFTSLYPLVVACSKKGFETLDEVYFQLES 458

Query:    60 LSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKL 119
             LS+ + PYKSVAA+NC+ILGCAN WDLDRAYQTFEA+ +SFGLTP+I SYNAL+YAFGK+
Sbjct:   459 LSQGDTPYKSVAALNCIILGCANTWDLDRAYQTFEAISASFGLTPNIDSYNALLYAFGKV 518

Query:   120 KKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETL 179
             KKTFEA+ VFEHLVS+GVKP++ +YSLLVDAHL NRD K+AL+V+D+M+ AGF PS+ETL
Sbjct:   519 KKTFEATNVFEHLVSIGVKPDSRTYSLLVDAHLINRDPKSALTVVDDMIKAGFEPSRETL 578

Query:   180 KKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASYA 228
             KK+RRRCVREMD+E++D+VEALAKKF IRM +ENR+N+LFN++YS   A
Sbjct:   579 KKLRRRCVREMDDENDDQVEALAKKFQIRMGSENRRNMLFNIDYSRGRA 627

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

GO:0009220 "pyrimidine ribonucleotide biosynthetic process" evidence=RCA

TAIR|locus:2027382 AT1G11710 "AT1G11710" [Arabidopsis thaliana (taxid:3702)]

 Score = 173 (66.0 bits), Expect = 4.3e-12, P = 4.3e-12
 Identities = 46/149 (30%), Positives = 83/149 (55%)

Query:    38 LVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA-NIWDLDRAYQTFEAV 96
             LV AC++ G       Y  +E  +RAE    SV A+N   +GC  N+ ++DR ++ ++ +
Sbjct:   154 LVRACTQNG--DAQGAYEVIEQ-TRAEGFCVSVHALNN-FMGCLLNVNEIDRFWKVYKEM 209

Query:    97 GSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRD 156
               S G   +++++N +IY+F K  K FEA  VF  ++  GV PN +S+++++D      D
Sbjct:   210 -DSLGYVENVNTFNLVIYSFCKESKLFEALSVFYRMLKCGVWPNVVSFNMMIDGACKTGD 268

Query:   157 QKAALSVIDEM--VNAGF-APSKETLKKV 182
              + AL ++ +M  ++  F +P+  T   V
Sbjct:   269 MRFALQLLGKMGMMSGNFVSPNAVTYNSV 297

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2086032 PPR40 "pentatricopeptide (PPR) domain protein 40" [Arabidopsis thaliana (taxid:3702)]

 Score = 160 (61.4 bits), Expect = 1.2e-09, P = 1.2e-09
 Identities = 43/163 (26%), Positives = 78/163 (47%)

Query:    29 FSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDR 88
             F P    + L++ C  +  E  D+     E L     P +     N +I  C +  D DR
Sbjct:   491 FKPDVITFSLIINCLCRAKEIKDAFDCFKEMLEWGIEPNE--ITYNILIRSCCSTGDTDR 548

Query:    89 AYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV 148
             + + F  +  + GL+PD+++YNA I +F K++K  +A  + + ++ +G+KP+  +YS L+
Sbjct:   549 SVKLFAKMKEN-GLSPDLYAYNATIQSFCKMRKVKKAEELLKTMLRIGLKPDNFTYSTLI 607

Query:   149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMD 191
              A   +  +  A  +   +   G  P   T     +R V E+D
Sbjct:   608 KALSESGRESEAREMFSSIERHGCVPDSYT-----KRLVEELD 645

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006979 "response to oxidative stress" evidence=IMP

GO:0009651 "response to salt stress" evidence=IMP

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

GO:0042775 "mitochondrial ATP synthesis coupled electron transport" evidence=IMP

TAIR|locus:2178037 AT5G39980 [Arabidopsis thaliana (taxid:3702)]

 Score = 155 (59.6 bits), Expect = 6.6e-09, P = 6.6e-09
 Identities = 57/217 (26%), Positives = 95/217 (43%)

Query:     6 RAFITLNEFETAYGDSIID--MEEIFSPFTSLYP-LVVACSRKGFETLDSVYFQLENLSR 62
             R  +   +F+ A+G  + D   +   +P    Y  L+ +  ++G    DS    L+ + +
Sbjct:   163 RNVLRAKQFDIAHG--LFDEMRQRALAPDRYTYSTLITSFGKEGM--FDSALSWLQKMEQ 218

Query:    63 AEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKT 122
                    V   N + L    + D  +A   F  +  S G+TPD+ +YN++I  +GK K  
Sbjct:   219 DRVSGDLVLYSNLIELS-RRLCDYSKAISIFSRLKRS-GITPDLVAYNSMINVYGKAKLF 276

Query:   123 FEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKV 182
              EA  + + +   GV PN +SYS L+  ++ N     ALSV  EM     A    T   +
Sbjct:   277 REARLLIKEMNEAGVLPNTVSYSTLLSVYVENHKFLEALSVFAEMKEVNCALDLTTCN-I 335

Query:   183 RRRCVREMDE-ESNDRVEALAKKFDIRMNTENRKNIL 218
                   ++D  +  DR+    +K DI  N  +   IL
Sbjct:   336 MIDVYGQLDMVKEADRLFWSLRKMDIEPNVVSYNTIL 372

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 152 (58.6 bits), Expect = 3.3e-08, P = 3.3e-08
 Identities = 32/116 (27%), Positives = 60/116 (51%)

Query:    70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVF 129
             V   N +I G      L+ A   F  + +S G+TPD+++YN+LI   G      EA +++
Sbjct:   996 VVCYNLIINGLGKSHRLEEALVLFNEMKTSRGITPDLYTYNSLILNLGIAGMVEEAGKIY 1055

Query:   130 EHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRR 185
               +   G++PN  +++ L+  +  +   + A +V   MV  GF+P+  T +++  R
Sbjct:  1056 NEIQRAGLEPNVFTFNALIRGYSLSGKPEHAYAVYQTMVTGGFSPNTGTYEQLPNR 1111

GO:0008150 "biological_process" evidence=ND

GO:0000023 "maltose metabolic process" evidence=RCA

GO:0000272 "polysaccharide catabolic process" evidence=RCA

GO:0005982 "starch metabolic process" evidence=RCA

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

GO:0006655 "phosphatidylglycerol biosynthetic process" evidence=RCA

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

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

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

GO:0019252 "starch biosynthetic process" evidence=RCA

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

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0046777 "protein autophosphorylation" evidence=RCA

TAIR|locus:2075165 AT3G46610 "AT3G46610" [Arabidopsis thaliana (taxid:3702)]

 Score = 148 (57.2 bits), Expect = 5.7e-08, P = 5.7e-08
 Identities = 37/116 (31%), Positives = 61/116 (52%)

Query:    74 NCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLV 133
             N V++ C+   +   A Q F+A+  + G  P + SY AL+ A  K K   EA RV+ H++
Sbjct:   462 NAVLVACSKASETTAAIQIFKAMVDN-GEKPTVISYGALLSALEKGKLYDEAFRVWNHMI 520

Query:   134 SLGVKPNAMSYSLLVDAHLTNRDQKAAL-SVIDEMVNAGFAPSKETLKKVRRRCVR 188
              +G++PN  +Y+ +    LT + +   L +++ EM + G  PS  T   V   C R
Sbjct:   521 KVGIEPNLYAYTTMASV-LTGQQKFNLLDTLLKEMASKGIEPSVVTFNAVISGCAR 575

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2133352 AT4G01570 [Arabidopsis thaliana (taxid:3702)]

 Score = 147 (56.8 bits), Expect = 9.9e-08, P = 9.9e-08
 Identities = 51/179 (28%), Positives = 82/179 (45%)

Query:     2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKG-FETLDSVYFQL-EN 59
             GDL  A      FE   G  + D+      + S+    V   +KG F+T   V  Q+ EN
Sbjct:   608 GDLSLA---CKLFEIFNGMGVTDLTSY--TYNSMMSSFV---KKGYFQTARGVLDQMFEN 659

Query:    60 LSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKL 119
                A+     +A  N +I G   +   D A    + +    G   DI  YN LI A GK 
Sbjct:   660 FCAAD-----IATYNVIIQGLGKMGRADLASAVLDRLTKQGGYL-DIVMYNTLINALGKA 713

Query:   120 KKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKET 178
              +  EA+++F+H+ S G+ P+ +SY+ +++ +      K A   +  M++AG  P+  T
Sbjct:   714 TRLDEATQLFDHMKSNGINPDVVSYNTMIEVNSKAGKLKEAYKYLKAMLDAGCLPNHVT 772

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2027166 PTAC2 "plastid transcriptionally active 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 147 (56.8 bits), Expect = 1.1e-07, P = 1.1e-07
 Identities = 45/156 (28%), Positives = 76/156 (48%)

Query:    27 EIFSPFTSLYPLVV-ACSRKG--FETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANI 83
             E  SP    Y  V+ AC+R G  +E L  ++ ++    R E     +   N ++  CA I
Sbjct:   205 EKISPSILTYNTVINACARGGLDWEGLLGLFAEM----RHEGIQPDIVTYNTLLSACA-I 259

Query:    84 WDL-DRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAM 142
               L D A   F  +    G+ PD+ +Y+ L+  FGKL++  +   +   + S G  P+  
Sbjct:   260 RGLGDEAEMVFRTMNDG-GIVPDLTTYSHLVETFGKLRRLEKVCDLLGEMASGGSLPDIT 318

Query:   143 SYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKET 178
             SY++L++A+  +   K A+ V  +M  AG  P+  T
Sbjct:   319 SYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNANT 354

GO:0009507 "chloroplast" evidence=IDA

GO:0009295 "nucleoid" evidence=IDA

GO:0009508 "plastid chromosome" evidence=IDA

GO:0042793 "transcription from plastid promoter" evidence=RCA;IMP

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA;IMP

GO:0006364 "rRNA processing" evidence=RCA

GO:0006399 "tRNA metabolic process" evidence=RCA

GO:0009658 "chloroplast organization" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0030154 "cell differentiation" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

GO:0045036 "protein targeting to chloroplast" evidence=RCA

TAIR|locus:504956171 ABO5 "ABA Overly-Sensitive 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 144 (55.7 bits), Expect = 1.8e-07, P = 1.8e-07
 Identities = 46/158 (29%), Positives = 79/158 (50%)

Query:    30 SPFTSLYPLVVAC-SRKG-FETLDSVYFQLENLSRAEPPYKSV-AAINCVILGCANIWDL 86
             SP    Y +++A   R G  +   +++ +LE  S  +P   S  + INC  LG  N  D+
Sbjct:   474 SPDIFTYNILIASFGRVGEVDEAINIFEELER-SDCKPDIISYNSLINC--LG-KN-GDV 528

Query:    87 DRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSL 146
             D A+  F+ +    GL PD+ +Y+ L+  FGK ++   A  +FE ++  G +PN ++Y++
Sbjct:   529 DEAHVRFKEMQEK-GLNPDVVTYSTLMECFGKTERVEMAYSLFEEMLVKGCQPNIVTYNI 587

Query:   147 LVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRR 184
             L+D    N     A+ +  +M   G  P   T   + R
Sbjct:   588 LLDCLEKNGRTAEAVDLYSKMKQQGLTPDSITYTVLER 625

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008380 "RNA splicing" evidence=IMP

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

TAIR|locus:2168078 AT5G59900 "AT5G59900" [Arabidopsis thaliana (taxid:3702)]

 Score = 144 (55.7 bits), Expect = 2.8e-07, P = 2.8e-07
 Identities = 33/103 (32%), Positives = 58/103 (56%)

Query:    69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRV 128
             S AA++ ++ G      ++ A    + V   FG++P++  YNALI +  K +K  EA  +
Sbjct:   331 SEAAVSSLVEGLRKRGKIEEALNLVKRV-VDFGVSPNLFVYNALIDSLCKGRKFHEAELL 389

Query:   129 FEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAG 171
             F+ +  +G++PN ++YS+L+D          ALS + EMV+ G
Sbjct:   390 FDRMGKIGLRPNDVTYSILIDMFCRRGKLDTALSFLGEMVDTG 432

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9FZD1	PPR58_ARATH	No assigned EC number	0.7161	1.0	0.3619	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	228
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.002

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

 Score = 52.0 bits (126), Expect = 1e-09
 Identities = 19/48 (39%), Positives = 29/48 (60%)

Query: 104 PDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAH 151
           PD+ +YN LI  + K  K  EA ++F  +   G+KPN  +YS+L+D  
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 48.3 bits (115), Expect = 1e-06
 Identities = 26/95 (27%), Positives = 46/95 (48%), Gaps = 1/95 (1%)

Query: 80  CANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKP 139
           C+N  +  +A + +E + S   L P + + NALI A  +  +  +A  V   +  LG+ P
Sbjct: 694 CSNAKNWKKALELYEDIKSI-KLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP 752

Query: 140 NAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAP 174
           N ++YS+L+ A     D    L ++ +    G  P
Sbjct: 753 NTITYSILLVASERKDDADVGLDLLSQAKEDGIKP 787

Length = 1060

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

 Score = 38.2 bits (90), Expect = 1e-04
 Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 1/51 (1%)

Query: 68  KSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGK 118
             V   N +I G      ++ A + F  +    G+ P++++Y+ LI    K
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKR-GIKPNVYTYSILIDGLCK 50

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

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

 Score = 42.6 bits (100), Expect = 1e-04
 Identities = 32/127 (25%), Positives = 60/127 (47%), Gaps = 3/127 (2%)

Query: 85  DLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSY 144
           DLD+A++  +      G+     SY++L+ A    K   +A  ++E + S+ ++P   + 
Sbjct: 664 DLDKAFEILQDARKQ-GIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTM 722

Query: 145 SLLVDAHLTNRDQ-KAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAK 203
           + L+ A L   +Q   AL V+ EM   G  P+  T   +     R+ D +    + + AK
Sbjct: 723 NALITA-LCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAK 781

Query: 204 KFDIRMN 210
           +  I+ N
Sbjct: 782 EDGIKPN 788

Length = 1060

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

 Score = 38.2 bits (90), Expect = 1e-04
 Identities = 10/35 (28%), Positives = 18/35 (51%)

Query: 107 HSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNA 141
            +YN LI    K  +  EA  +F+ +   G++P+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 41.4 bits (97), Expect = 2e-04
 Identities = 24/73 (32%), Positives = 35/73 (47%), Gaps = 7/73 (9%)

Query: 80  CANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYA---FGKLKKTFEASRVFEHLVSLG 136
           CA+  D+D A +    V  + GL  D   Y  LI      GK+   FE   VF  +V+ G
Sbjct: 447 CASSQDIDGALRVLRLVQEA-GLKADCKLYTTLISTCAKSGKVDAMFE---VFHEMVNAG 502

Query: 137 VKPNAMSYSLLVD 149
           V+ N  ++  L+D
Sbjct: 503 VEANVHTFGALID 515

Length = 1060

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

 Score = 34.5 bits (80), Expect = 0.002
 Identities = 12/34 (35%), Positives = 18/34 (52%)

Query: 106 IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKP 139
           + +YNAL+ A  K      A  V E + + G+KP
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	228
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	99.68
PF13041	50	PPR_2: PPR repeat family	99.66
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.54
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.54
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.47
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.42
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.35
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.33
PF12854	34	PPR_1: PPR repeat	99.2
PF12854	34	PPR_1: PPR repeat	99.2
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.15
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.07
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.99
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.98
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.97
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.95
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.88
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.84
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.83
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.81
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.81
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.8
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.78
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.75
PRK12370	553	invasion protein regulator; Provisional	98.72
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.71
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.69
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.69
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	98.67
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.57
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.56
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.56
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.55
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.54
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.51
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.5
PRK12370	553	invasion protein regulator; Provisional	98.48
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.47
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.45
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.44
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.38
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	98.33
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	98.33
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.3
PRK11189	296	lipoprotein NlpI; Provisional	98.3
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.27
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.26
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	98.26
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	98.25
PRK14574	822	hmsH outer membrane protein; Provisional	98.2
KOG2003	840	consensus TPR repeat-containing protein [General f	98.19
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.1
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	98.1
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.09
KOG1126	638	consensus DNA-binding cell division cycle control	98.08
PRK14574	822	hmsH outer membrane protein; Provisional	98.08
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.07
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.06
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.02
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	97.99
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	97.99
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	97.99
KOG1129	478	consensus TPR repeat-containing protein [General f	97.94
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.94
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	97.93
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	97.92
KOG2003	840	consensus TPR repeat-containing protein [General f	97.92
KOG1129	478	consensus TPR repeat-containing protein [General f	97.91
PRK15359	144	type III secretion system chaperone protein SscB;	97.87
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.86
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.85
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.84
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.84
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.83
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.83
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.82
PRK15359	144	type III secretion system chaperone protein SscB;	97.82
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.79
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.71
KOG2076	895	consensus RNA polymerase III transcription factor	97.71
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.68
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.67
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.66
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.58
KOG1126	638	consensus DNA-binding cell division cycle control	97.55
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.52
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.51
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.48
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.46
PRK11189	296	lipoprotein NlpI; Provisional	97.43
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.41
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.41
KOG3941	406	consensus Intermediate in Toll signal transduction	97.4
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.4
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.39
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	97.38
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.38
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.38
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.37
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.34
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.33
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.3
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	97.28
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.27
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.26
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	97.26
KOG3941	406	consensus Intermediate in Toll signal transduction	97.24
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.21
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	97.16
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.15
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	97.14
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.11
KOG0495	913	consensus HAT repeat protein [RNA processing and m	97.08
KOG1915	677	consensus Cell cycle control protein (crooked neck	97.07
KOG1915	677	consensus Cell cycle control protein (crooked neck	97.06
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.05
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.05
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.03
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.03
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	96.95
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.94
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	96.92
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.89
KOG1128	777	consensus Uncharacterized conserved protein, conta	96.86
KOG2076	895	consensus RNA polymerase III transcription factor	96.86
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	96.8
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.75
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.75
COG4783	484	Putative Zn-dependent protease, contains TPR repea	96.72
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.63
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.58
KOG3060	289	consensus Uncharacterized conserved protein [Funct	96.48
PRK14720	906	transcript cleavage factor/unknown domain fusion p	96.45
KOG3616	1636	consensus Selective LIM binding factor [Transcript	96.39
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.35
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.35
PRK10803	263	tol-pal system protein YbgF; Provisional	96.31
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.27
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	96.27
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.23
KOG0547	606	consensus Translocase of outer mitochondrial membr	96.14
PRK10803	263	tol-pal system protein YbgF; Provisional	96.13
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	96.12
PRK14720	906	transcript cleavage factor/unknown domain fusion p	96.07
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.02
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.0
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	95.96
PF13929	292	mRNA_stabil: mRNA stabilisation	95.94
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.93
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	95.92
KOG0547	606	consensus Translocase of outer mitochondrial membr	95.89
KOG2796	366	consensus Uncharacterized conserved protein [Funct	95.88
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	95.81
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	95.7
KOG2796	366	consensus Uncharacterized conserved protein [Funct	95.7
KOG0553	304	consensus TPR repeat-containing protein [General f	95.67
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	95.66
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	95.6
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.55
PF13371	73	TPR_9: Tetratricopeptide repeat	95.45
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.4
KOG4570	418	consensus Uncharacterized conserved protein [Funct	95.39
KOG1125	579	consensus TPR repeat-containing protein [General f	95.37
KOG3785	557	consensus Uncharacterized conserved protein [Funct	95.27
KOG0495	913	consensus HAT repeat protein [RNA processing and m	95.2
KOG2047	835	consensus mRNA splicing factor [RNA processing and	95.2
KOG2047	835	consensus mRNA splicing factor [RNA processing and	95.16
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	95.03
KOG3616	1636	consensus Selective LIM binding factor [Transcript	95.01
KOG4340	459	consensus Uncharacterized conserved protein [Funct	94.98
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.9
PF13371	73	TPR_9: Tetratricopeptide repeat	94.89
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	94.83
PF12688	120	TPR_5: Tetratrico peptide repeat	94.77
KOG2376	652	consensus Signal recognition particle, subunit Srp	94.69
KOG1125	579	consensus TPR repeat-containing protein [General f	94.68
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	94.58
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.54
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.48
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	94.45
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.4
PRK04841	903	transcriptional regulator MalT; Provisional	94.3
KOG1128	777	consensus Uncharacterized conserved protein, conta	94.27
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.24
PF12688	120	TPR_5: Tetratrico peptide repeat	94.18
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.12
PF13929	292	mRNA_stabil: mRNA stabilisation	94.01
PLN02789	320	farnesyltranstransferase	93.97
PRK15331	165	chaperone protein SicA; Provisional	93.91
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	93.8
KOG2376	652	consensus Signal recognition particle, subunit Srp	93.71
PF13762	145	MNE1: Mitochondrial splicing apparatus component	93.71
KOG0553	304	consensus TPR repeat-containing protein [General f	93.48
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	93.35
KOG2041	1189	consensus WD40 repeat protein [General function pr	93.25
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.19
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.02
PF13762	145	MNE1: Mitochondrial splicing apparatus component	92.96
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	92.68
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	92.37
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	92.35
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	92.2
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	92.16
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	91.96
PRK04841	903	transcriptional regulator MalT; Provisional	91.92
KOG4340	459	consensus Uncharacterized conserved protein [Funct	91.84
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.59
smart00299	140	CLH Clathrin heavy chain repeat homology.	91.07
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	91.02
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	90.82
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	90.69
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	90.68
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	90.58
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	90.51
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	90.49
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	90.46
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	90.27
PF13428	44	TPR_14: Tetratricopeptide repeat	89.94
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	89.84
PF13512	142	TPR_18: Tetratricopeptide repeat	89.67
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	89.35
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	89.27
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	89.17
PLN02789	320	farnesyltranstransferase	89.08
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	88.96
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	88.67
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	88.51
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	88.37
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	88.32
KOG4555	175	consensus TPR repeat-containing protein [Function	88.1
PRK15331	165	chaperone protein SicA; Provisional	88.06
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	87.92
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	87.91
COG4455	273	ImpE Protein of avirulence locus involved in tempe	87.82
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	87.63
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	87.21
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	86.97
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	86.31
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	85.7
KOG1585	308	consensus Protein required for fusion of vesicles	85.59
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	85.57
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.56
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	85.21
COG2178	204	Predicted RNA-binding protein of the translin fami	85.12
KOG2610	491	consensus Uncharacterized conserved protein [Funct	85.06
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	84.65
PF13428	44	TPR_14: Tetratricopeptide repeat	84.44
PRK10564	303	maltose regulon periplasmic protein; Provisional	84.26
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	84.19
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	84.18
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	83.92
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	83.88
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	83.64
COG4700	251	Uncharacterized protein conserved in bacteria cont	83.56
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	82.72
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	82.64
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	82.56
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	82.27
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	82.05
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	82.0
PF13512	142	TPR_18: Tetratricopeptide repeat	81.74
PRK10564	303	maltose regulon periplasmic protein; Provisional	81.12
COG3947	361	Response regulator containing CheY-like receiver a	80.77
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	80.29

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.1e-36  Score=273.28  Aligned_cols=151  Identities=15%  Similarity=0.238  Sum_probs=57.2

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      |..+|+++|.+|++.|++++|.++|++|.+. |+.|+..+||++|.+|++.|++++|.++|++|.+.|+.||..||+++|
T Consensus       578 D~vTynaLI~ay~k~G~ldeA~elf~~M~e~-gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI  656 (1060)
T PLN03218        578 DHITVGALMKACANAGQVDRAKEVYQMIHEY-NIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALV  656 (1060)
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            3334444444333333333333333333332 333333333333333333333333333333333333333333333333


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFN  220 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  220 (228)
                      ++|++.|++++|.++|++|.+.|+.||..+|++||.+|++.|++++|.++++.|.+.|+.||..+|+.||.+
T Consensus       657 ~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~g  728 (1060)
T PLN03218        657 DVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITA  728 (1060)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            333333333333333333333333333333333333333333333333333333333333333333333333

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.7e-36  Score=272.07  Aligned_cols=213  Identities=17%  Similarity=0.257  Sum_probs=148.3

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|..+|++|.+.         ++.|+..+||+||.+|++.|+  ..+++..+.++.. ....||..+||.+|.+|+
T Consensus       486 G~vd~A~~vf~eM~~~---------Gv~PdvvTynaLI~gy~k~G~--~eeAl~lf~~M~~-~Gv~PD~vTYnsLI~a~~  553 (1060)
T PLN03218        486 GKVDAMFEVFHEMVNA---------GVEANVHTFGALIDGCARAGQ--VAKAFGAYGIMRS-KNVKPDRVVFNALISACG  553 (1060)
T ss_pred             cCHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHHHHCcC--HHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHH
Confidence            4455555555555544         555566777777777777774  3333333343332 223447777777777777


Q ss_pred             HcCCHHHHHHHHHHHhhc-CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSS-FGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAA  160 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~-~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  160 (228)
                      +.|++++|.++|++|... .|+.||..|||++|.+|+++|++++|.++|++|.+.|+.|+..+||++|.+|++.|++++|
T Consensus       554 k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deA  633 (1060)
T PLN03218        554 QSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFA  633 (1060)
T ss_pred             HCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHH
Confidence            777777777777777641 2677777777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhh
Q 027083          161 LSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSAS  226 (228)
Q Consensus       161 ~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~  226 (228)
                      .++|++|.+.|+.||..||+++|.+|++.|++++|.++++.|.+.|+.|+..+|..+|.+++..++
T Consensus       634 l~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~  699 (1060)
T PLN03218        634 LSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKN  699 (1060)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Confidence            777777777777777777777777777777777777777777777777777777777777765554

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

Probab=100.00  E-value=7.7e-35  Score=256.50  Aligned_cols=204  Identities=15%  Similarity=0.188  Sum_probs=178.2

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|..+|++|.+.             +..+||+||.+|++.|+  ..+++..+.+|.. ....||..||+++|.+|+
T Consensus       273 g~~~~A~~vf~~m~~~-------------~~vt~n~li~~y~~~g~--~~eA~~lf~~M~~-~g~~pd~~t~~~ll~a~~  336 (697)
T PLN03081        273 GDIEDARCVFDGMPEK-------------TTVAWNSMLAGYALHGY--SEEALCLYYEMRD-SGVSIDQFTFSIMIRIFS  336 (697)
T ss_pred             CCHHHHHHHHHhCCCC-------------ChhHHHHHHHHHHhCCC--HHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHH
Confidence            6777787777777432             45789999999999995  4444444444443 234459999999999999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      +.|++++|.+++.+|.+. |+.||..+||+||++|+++|++++|.++|++|.    +||..|||+||.+|++.|+.++|.
T Consensus       337 ~~g~~~~a~~i~~~m~~~-g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~  411 (697)
T PLN03081        337 RLALLEHAKQAHAGLIRT-GFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAV  411 (697)
T ss_pred             hccchHHHHHHHHHHHHh-CCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHH
Confidence            999999999999999995 999999999999999999999999999999996    589999999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH-cCCCcchhhHHHHHHHHHhhhh
Q 027083          162 SVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKK-FDIRMNTENRKNILFNLEYSAS  226 (228)
Q Consensus       162 ~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~-~g~~~~~~~~~~li~~l~~~~~  226 (228)
                      ++|++|.+.|++||..||+++|.+|++.|.++++.++++.|.+ .|+.|+..+|..||..|...++
T Consensus       412 ~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~  477 (697)
T PLN03081        412 EMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGL  477 (697)
T ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCC
Confidence            9999999999999999999999999999999999999999986 7999999999999999887664

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

Probab=100.00  E-value=1.3e-33  Score=248.82  Aligned_cols=214  Identities=16%  Similarity=0.136  Sum_probs=188.5

Q ss_pred             CccHHHHHHHHHHHHHHhccchh-------------------------hhh-hhhCcchhHHHHHHHHHhhChhcHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSII-------------------------DME-EIFSPFTSLYPLVVACSRKGFETLDSVY   54 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~-------------------------~~~-~~~~~~~~~~~ll~~~~~~g~~~~~~~~   54 (228)
                      .|++++|+.+|++|.+....+..                         +.. +..++..+||+||++|++.|+  ..++.
T Consensus       202 ~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~--~~~A~  279 (697)
T PLN03081        202 AGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGD--IEDAR  279 (697)
T ss_pred             CcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCC--HHHHH
Confidence            48899999999999866432221                         111 444567889999999999995  44444


Q ss_pred             HHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027083           55 FQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVS  134 (228)
Q Consensus        55 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  134 (228)
                      ..+.++     +.+|..+||++|.+|++.|+.++|.++|++|.+. |+.||..||+++|++|++.|++++|.+++++|.+
T Consensus       280 ~vf~~m-----~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~-g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~  353 (697)
T PLN03081        280 CVFDGM-----PEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDS-GVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIR  353 (697)
T ss_pred             HHHHhC-----CCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHH
Confidence            444443     2348999999999999999999999999999995 9999999999999999999999999999999999


Q ss_pred             CCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhH
Q 027083          135 LGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENR  214 (228)
Q Consensus       135 ~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  214 (228)
                      .|+.||..+||+||++|++.|++++|.++|++|.    +||..|||++|.+|++.|+.++|.++++.|.+.|+.||..+|
T Consensus       354 ~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~  429 (697)
T PLN03081        354 TGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTF  429 (697)
T ss_pred             hCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHH
Confidence            9999999999999999999999999999999996    489999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhh
Q 027083          215 KNILFNLEYSAS  226 (228)
Q Consensus       215 ~~li~~l~~~~~  226 (228)
                      ..+|.++...+.
T Consensus       430 ~~ll~a~~~~g~  441 (697)
T PLN03081        430 LAVLSACRYSGL  441 (697)
T ss_pred             HHHHHHHhcCCc
Confidence            999999876553

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.1e-32  Score=245.97  Aligned_cols=186  Identities=15%  Similarity=0.137  Sum_probs=144.4

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHH
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNA  111 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~  111 (228)
                      ..+||++|.+|++.|+  ..+++..+.++...  ..||..||+++|.+|++.|+++.+.+++..+.+. |+.||..++|+
T Consensus       455 ~vs~~~mi~~~~~~g~--~~eA~~lf~~m~~~--~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~-g~~~~~~~~na  529 (857)
T PLN03077        455 VISWTSIIAGLRLNNR--CFEALIFFRQMLLT--LKPNSVTLIAALSACARIGALMCGKEIHAHVLRT-GIGFDGFLPNA  529 (857)
T ss_pred             eeeHHHHHHHHHHCCC--HHHHHHHHHHHHhC--CCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHh-CCCccceechH
Confidence            3455555555555553  23333333333322  3346777777777777777777777777777664 77777777777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMD  191 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~  191 (228)
                      ||++|+++|++++|.++|+++     .||..+||+||.+|++.|+.++|.++|++|.+.|+.||..||+++|.+|++.|.
T Consensus       530 Li~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~  604 (857)
T PLN03077        530 LLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGM  604 (857)
T ss_pred             HHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcCh
Confidence            778888888888888888776     589999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHH-HcCCCcchhhHHHHHHHHHhhhhc
Q 027083          192 EESNDRVEALAK-KFDIRMNTENRKNILFNLEYSASY  227 (228)
Q Consensus       192 ~~~a~~~~~~m~-~~g~~~~~~~~~~li~~l~~~~~~  227 (228)
                      ++++.++++.|. +.|+.|+..+|..|+..|...+++
T Consensus       605 v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~  641 (857)
T PLN03077        605 VTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKL  641 (857)
T ss_pred             HHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCH
Confidence            999999999998 789999999999999999887653

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.8e-32  Score=244.35  Aligned_cols=205  Identities=17%  Similarity=0.165  Sum_probs=173.3

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|..+|++|.+.             +..+||++|.+|++.|+  ..+++..+.+|... ...||..||+++|.+|+
T Consensus       236 g~~~~A~~lf~~m~~~-------------d~~s~n~li~~~~~~g~--~~eAl~lf~~M~~~-g~~Pd~~ty~~ll~a~~  299 (857)
T PLN03077        236 GDVVSARLVFDRMPRR-------------DCISWNAMISGYFENGE--CLEGLELFFTMREL-SVDPDLMTITSVISACE  299 (857)
T ss_pred             CCHHHHHHHHhcCCCC-------------CcchhHHHHHHHHhCCC--HHHHHHHHHHHHHc-CCCCChhHHHHHHHHHH
Confidence            5667777777766432             45689999999999885  44444455555443 34568999999999999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      +.|+++.|.+++.+|.+. |+.||..+||+||++|+++|++++|.++|++|.    .||..+||++|.+|++.|++++|.
T Consensus       300 ~~g~~~~a~~l~~~~~~~-g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~  374 (857)
T PLN03077        300 LLGDERLGREMHGYVVKT-GFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKAL  374 (857)
T ss_pred             hcCChHHHHHHHHHHHHh-CCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHH
Confidence            999999999999999985 999999999999999999999999999999986    588999999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhhc
Q 027083          162 SVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASY  227 (228)
Q Consensus       162 ~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~~  227 (228)
                      ++|++|.+.|+.||..||+.++.+|++.|+++.+.++++.|.+.|+.|+...|+.+|..+...+++
T Consensus       375 ~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~  440 (857)
T PLN03077        375 ETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCI  440 (857)
T ss_pred             HHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCH
Confidence            999999999999999999999999999999999999999999999999999999999888766543

>PF13041 PPR_2: PPR repeat family

Probab=99.68  E-value=1.2e-16  Score=92.89  Aligned_cols=49  Identities=33%  Similarity=0.638  Sum_probs=25.6

Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHH
Q 027083          104 PDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHL  152 (228)
Q Consensus       104 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~  152 (228)
                      ||..+||++|++|++.|++++|.++|++|.+.|+.||..||++||++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4555555555555555555555555555555555555555555555544

>PF13041 PPR_2: PPR repeat family

Probab=99.66  E-value=3.1e-16  Score=91.08  Aligned_cols=50  Identities=20%  Similarity=0.353  Sum_probs=48.7

Q ss_pred             CcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 027083          139 PNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVR  188 (228)
Q Consensus       139 p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~  188 (228)
                      ||.++||++|++|++.|++++|.++|++|.+.|++||..||+++|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999999999999999999999999999999985

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.54  E-value=2.3e-12  Score=106.64  Aligned_cols=201  Identities=11%  Similarity=-0.039  Sum_probs=124.6

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCC---HHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKS---VAAINCVIL   78 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~ll~   78 (228)
                      |++++|+..|+++.+..          .....+++.+...+.+.|+  ..++...+..+....+..+.   ...+..+..
T Consensus       121 g~~~~A~~~~~~~l~~~----------~~~~~~~~~la~~~~~~g~--~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~  188 (389)
T PRK11788        121 GLLDRAEELFLQLVDEG----------DFAEGALQQLLEIYQQEKD--WQKAIDVAERLEKLGGDSLRVEIAHFYCELAQ  188 (389)
T ss_pred             CCHHHHHHHHHHHHcCC----------cchHHHHHHHHHHHHHhch--HHHHHHHHHHHHHhcCCcchHHHHHHHHHHHH
Confidence            67888888888876531          1123456777777777774  33333333333332221111   123445556


Q ss_pred             HHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHH
Q 027083           79 GCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQK  158 (228)
Q Consensus        79 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~  158 (228)
                      .+.+.|+.++|...|+++.+. . +.+...+..+...|.+.|++++|.++|+++...+......+++.+..+|.+.|+++
T Consensus       189 ~~~~~~~~~~A~~~~~~al~~-~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~  266 (389)
T PRK11788        189 QALARGDLDAARALLKKALAA-D-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEA  266 (389)
T ss_pred             HHHhCCCHHHHHHHHHHHHhH-C-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHH
Confidence            666777777777777777652 1 22344666666777777777777777777765432222456677777777777777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHH
Q 027083          159 AALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFN  220 (228)
Q Consensus       159 ~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  220 (228)
                      +|.+.++++.+.  .|+...+..+...+.+.|+.++|..+++.+.+.  .|+...+..++..
T Consensus       267 ~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~  324 (389)
T PRK11788        267 EGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDY  324 (389)
T ss_pred             HHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHH
Confidence            777777777654  456556666777777777777777777776665  4666666655543

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.54  E-value=7.2e-12  Score=103.69  Aligned_cols=207  Identities=16%  Similarity=0.041  Sum_probs=112.8

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|...++.+..........      ....+..+...|.+.|+  ...+...+.+.....+.  +..+++.+...+.
T Consensus        83 g~~~~A~~~~~~~l~~~~~~~~~------~~~~~~~La~~~~~~g~--~~~A~~~~~~~l~~~~~--~~~~~~~la~~~~  152 (389)
T PRK11788         83 GEVDRAIRIHQNLLSRPDLTREQ------RLLALQELGQDYLKAGL--LDRAEELFLQLVDEGDF--AEGALQQLLEIYQ  152 (389)
T ss_pred             CcHHHHHHHHHHHhcCCCCCHHH------HHHHHHHHHHHHHHCCC--HHHHHHHHHHHHcCCcc--hHHHHHHHHHHHH
Confidence            56666666666665532222111      01245566666666663  33333333333322222  5566666666666


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCC----HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPD----IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQ  157 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~  157 (228)
                      +.|++++|.+.++.+.+. +..++    ...+..+...+.+.|++++|...|+++.+.. ..+...+..+...+.+.|++
T Consensus       153 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~  230 (389)
T PRK11788        153 QEKDWQKAIDVAERLEKL-GGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDY  230 (389)
T ss_pred             HhchHHHHHHHHHHHHHh-cCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCH
Confidence            677777777777666653 32221    1234455566666677777777776665542 12344556666666666777


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHH
Q 027083          158 KAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLE  222 (228)
Q Consensus       158 ~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~  222 (228)
                      ++|.++++++...+-.+...+++.+..+|...|+.++|...+..+.+..  |+...+..+...+.
T Consensus       231 ~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~la~~~~  293 (389)
T PRK11788        231 AAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY--PGADLLLALAQLLE  293 (389)
T ss_pred             HHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHH
Confidence            7777766666654322223456666666666677777766666666543  44444444444443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.47  E-value=1.2e-11  Score=99.31  Aligned_cols=166  Identities=18%  Similarity=0.249  Sum_probs=119.3

Q ss_pred             cchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHH
Q 027083           31 PFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYN  110 (228)
Q Consensus        31 ~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~  110 (228)
                      +..||.++|.+.+|-...+.+..+....+......   +..+||.+|.+-+-..+    .++..+|..+ ...||..|||
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv---~~~aFN~lI~~~S~~~~----K~Lv~EMisq-km~Pnl~TfN  277 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKV---YREAFNGLIGASSYSVG----KKLVAEMISQ-KMTPNLFTFN  277 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhhee---eHHhhhhhhhHHHhhcc----HHHHHHHHHh-hcCCchHhHH
Confidence            35688889999988653333333333333333333   78888888876653322    7788889885 8999999999


Q ss_pred             HHHHHHHhcCCHHH----HHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHH-HHHHHHH----HHHCCCCC----CHH
Q 027083          111 ALIYAFGKLKKTFE----ASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKA-ALSVIDE----MVNAGFAP----SKE  177 (228)
Q Consensus       111 ~li~~~~~~~~~~~----a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~-a~~~~~~----m~~~g~~p----~~~  177 (228)
                      +++++..+.|.++.    |.+++.+|++-|+.|...+|..+|.-+++.+++.+ +..++.+    +.-+-++|    |..
T Consensus       278 alL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~  357 (625)
T KOG4422|consen  278 ALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNK  357 (625)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhH
Confidence            99999999998766    45677888999999999999999998888888744 3333333    33333444    457


Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          178 TLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       178 t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      .|...+..|.+..+.+.|.++++....
T Consensus       358 FF~~AM~Ic~~l~d~~LA~~v~~ll~t  384 (625)
T KOG4422|consen  358 FFQSAMSICSSLRDLELAYQVHGLLKT  384 (625)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHc
Confidence            778888888888999999998887764

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.42  E-value=1.3e-11  Score=99.07  Aligned_cols=123  Identities=19%  Similarity=0.271  Sum_probs=107.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      ...+|.++|.+.|+--..+.|.+++++-... ..+.+..+||.+|.+-.-...    .+++.+|.+..++||..|||+++
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~-k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL  280 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAA-KGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALL  280 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHh-hheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHH
Confidence            4569999999999999999999999999985 889999999999976443322    78999999999999999999999


Q ss_pred             HHHHccCCHHHH----HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHH
Q 027083          149 DAHLTNRDQKAA----LSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESND  196 (228)
Q Consensus       149 ~~~~~~g~~~~a----~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~  196 (228)
                      ++..+.|+++.|    .+++.+|++-|+.|...+|..+|.-++|.++..+..
T Consensus       281 ~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~a  332 (625)
T KOG4422|consen  281 SCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVA  332 (625)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhh
Confidence            999999988665    578899999999999999999999999998876644

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

Probab=99.35  E-value=1.2e-09  Score=98.74  Aligned_cols=133  Identities=14%  Similarity=0.046  Sum_probs=66.9

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +..+|..+..++...|++++|...|+++...  .+.+...+..+...|.+.|++++|...|+++.+.. +.+..++..+.
T Consensus       600 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  676 (899)
T TIGR02917       600 SPEAWLMLGRAQLAAGDLNKAVSSFKKLLAL--QPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLA  676 (899)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHH
Confidence            4445555555555555555555555555442  12233445555555555555555555555554432 22344555555


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      ..+...|++++|.++++.+...+ .++...+..+...+.+.|++++|...+..+.+.
T Consensus       677 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  732 (899)
T TIGR02917       677 QLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKR  732 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            55555555555555555554433 223344444445555555555555555555443

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

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

Probab=99.33  E-value=2.1e-09  Score=97.21  Aligned_cols=163  Identities=17%  Similarity=0.116  Sum_probs=78.6

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNAL  112 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  112 (228)
                      ..|..+..++.+.|+  ...+...+.+.....+.  +...+..+...+...|+.++|...|+++.+.  .+.+..++..+
T Consensus       602 ~~~~~l~~~~~~~~~--~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l  675 (899)
T TIGR02917       602 EAWLMLGRAQLAAGD--LNKAVSSFKKLLALQPD--SALALLLLADAYAVMKNYAKAITSLKRALEL--KPDNTEAQIGL  675 (899)
T ss_pred             HHHHHHHHHHHHcCC--HHHHHHHHHHHHHhCCC--ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHH
Confidence            455666666666663  33333333333322222  4445555666666666666666666665542  22234455555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh
Q 027083          113 IYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDE  192 (228)
Q Consensus       113 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~  192 (228)
                      ...+.+.|++++|.++++.+.+.+ .++...+..+...+.+.|++++|.+.++.+...+  |+..++..+..++.+.|+.
T Consensus       676 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~  752 (899)
T TIGR02917       676 AQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNT  752 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCH
Confidence            555555555555555555554443 2344444455555555555555555555444322  2223333344444444444


Q ss_pred             hhHHHHHHHHHH
Q 027083          193 ESNDRVEALAKK  204 (228)
Q Consensus       193 ~~a~~~~~~m~~  204 (228)
                      ++|...+..+.+
T Consensus       753 ~~A~~~~~~~l~  764 (899)
T TIGR02917       753 AEAVKTLEAWLK  764 (899)
T ss_pred             HHHHHHHHHHHH
Confidence            444444444333

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.

>PF12854 PPR_1: PPR repeat

Probab=99.20  E-value=2.2e-11  Score=64.19  Aligned_cols=32  Identities=34%  Similarity=0.608  Sum_probs=19.8

Q ss_pred             CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 027083          101 GLTPDIHSYNALIYAFGKLKKTFEASRVFEHL  132 (228)
Q Consensus       101 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  132 (228)
                      |+.||..|||+||++||+.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            55666666666666666666666666666655

>PF12854 PPR_1: PPR repeat

Probab=99.20  E-value=2.6e-11  Score=63.86  Aligned_cols=34  Identities=26%  Similarity=0.495  Sum_probs=29.0

Q ss_pred             CCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 027083          135 LGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       135 ~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      .|+.||..|||+||++||+.|++++|.++|++|+
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            4788888888888888888888888888888874

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.15  E-value=7.9e-08  Score=73.03  Aligned_cols=133  Identities=13%  Similarity=-0.005  Sum_probs=64.0

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CcHhhHHHHH
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVK-PNAMSYSLLV  148 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~~~t~~~li  148 (228)
                      ...+..+-..+...|+.++|.+.+++....  .+.+...+..+...+...|++++|.+.+++..+.... .....+..+-
T Consensus        65 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  142 (234)
T TIGR02521        65 YLAYLALALYYQQLGELEKAEDSFRRALTL--NPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAG  142 (234)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHH
Confidence            444455555555555555555555555441  1223334444555555555555555555555443211 1223344444


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      .++...|++++|.+.+++..... ..+...+..+...+...|+.++|...++...+.
T Consensus       143 ~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  198 (234)
T TIGR02521       143 LCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLERYQQT  198 (234)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            45555555555555555544321 112344444555555555555555555555444

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.

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

Probab=99.07  E-value=1.8e-09  Score=93.64  Aligned_cols=187  Identities=14%  Similarity=0.142  Sum_probs=127.0

Q ss_pred             hhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhh---------------------cCCCCCCHHHHHHHHHHHHHcCC
Q 027083           27 EIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSR---------------------AEPPYKSVAAINCVILGCANIWD   85 (228)
Q Consensus        27 ~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~---------------------~~~~~~~~~~~~~ll~~~~~~~~   85 (228)
                      ++.|+.+||..+|.-|+..|....+. .+-+++++.                     ..+-.|...||+.|+.+|...||
T Consensus        20 gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ayr~hGD   98 (1088)
T KOG4318|consen   20 GILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAYRIHGD   98 (1088)
T ss_pred             cCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHHHhccc
Confidence            77788899999999999888633333 122222111                     12334678899999999999999


Q ss_pred             HHH---HHHHHHHHhhc--------------------CCCCCCHHh----------HHHHHHHHHhc------C------
Q 027083           86 LDR---AYQTFEAVGSS--------------------FGLTPDIHS----------YNALIYAFGKL------K------  120 (228)
Q Consensus        86 ~~~---a~~~~~~m~~~--------------------~~~~p~~~~----------~~~li~~~~~~------~------  120 (228)
                      +..   +.+.+..+...                    .+.-||..+          |..+++-..++      +      
T Consensus        99 li~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa~~~p~~vfL  178 (1088)
T KOG4318|consen   99 LILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSAWNAPFQVFL  178 (1088)
T ss_pred             hHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcccccchHHHHH
Confidence            765   33322222221                    122333322          22222222111      1      


Q ss_pred             -----CHHHHHHHHHHHHhCCC-CCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhh
Q 027083          121 -----KTFEASRVFEHLVSLGV-KPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEES  194 (228)
Q Consensus       121 -----~~~~a~~~~~~m~~~g~-~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~  194 (228)
                           +.+-.+++.+. .+++. .|++.+|.+++++-..+|+++.|..++.+|++.|+..+..-|..|+-+   .++...
T Consensus       179 rqnv~~ntpvekLl~~-cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~  254 (1088)
T KOG4318|consen  179 RQNVVDNTPVEKLLNM-CKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQV  254 (1088)
T ss_pred             HHhccCCchHHHHHHH-HHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchH
Confidence                 01112222222 22333 499999999999999999999999999999999999999999999877   888899


Q ss_pred             HHHHHHHHHHcCCCcchhhHHHHH
Q 027083          195 NDRVEALAKKFDIRMNTENRKNIL  218 (228)
Q Consensus       195 a~~~~~~m~~~g~~~~~~~~~~li  218 (228)
                      ++.+...|...|+.|+.+++..-+
T Consensus       255 ~e~vlrgmqe~gv~p~seT~adyv  278 (1088)
T KOG4318|consen  255 FEFVLRGMQEKGVQPGSETQADYV  278 (1088)
T ss_pred             HHHHHHHHHHhcCCCCcchhHHHH
Confidence            999999999999999999997544

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.99  E-value=1e-06  Score=66.82  Aligned_cols=168  Identities=14%  Similarity=0.041  Sum_probs=124.8

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHH
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNA  111 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~  111 (228)
                      ...+..+...+.+.|+  ...+...+.+.....+.  +...+..+-..+...|+.++|...+++.............+..
T Consensus        65 ~~~~~~la~~~~~~~~--~~~A~~~~~~al~~~~~--~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  140 (234)
T TIGR02521        65 YLAYLALALYYQQLGE--LEKAEDSFRRALTLNPN--NGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLEN  140 (234)
T ss_pred             HHHHHHHHHHHHHcCC--HHHHHHHHHHHHhhCCC--CHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHH
Confidence            4567777888888884  44444444443333332  5567778888888999999999999998873222234456777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMD  191 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~  191 (228)
                      +-..+.+.|++++|...+++..+.. ..+...+..+...+...|++++|.+.+++.... ..++...+..+...+...|+
T Consensus       141 l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  218 (234)
T TIGR02521       141 AGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGD  218 (234)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhh
Confidence            7888999999999999999987653 235667888888999999999999999988776 34456777777888888899


Q ss_pred             hhhHHHHHHHHHHc
Q 027083          192 EESNDRVEALAKKF  205 (228)
Q Consensus       192 ~~~a~~~~~~m~~~  205 (228)
                      .+.+..+.+.+.+.
T Consensus       219 ~~~a~~~~~~~~~~  232 (234)
T TIGR02521       219 VAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999887776543

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.

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

Probab=98.98  E-value=1.1e-08  Score=81.04  Aligned_cols=155  Identities=13%  Similarity=0.042  Sum_probs=108.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-cHhhHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKP-NAMSYSLL  147 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~t~~~l  147 (228)
                      +...+..++..+...++++.+.+++++........++...|..+-..+.+.|+.++|.+.+++..+.  .| |....+.+
T Consensus       109 ~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~P~~~~~~~~l  186 (280)
T PF13429_consen  109 DPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL--DPDDPDARNAL  186 (280)
T ss_dssp             ---------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHH
T ss_pred             ccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHH
Confidence            5567788888899999999999999997764345678888899999999999999999999998876  45 47788899


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhhc
Q 027083          148 VDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASY  227 (228)
Q Consensus       148 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~~  227 (228)
                      +..+...|+.+++.+++....+.. ..|...+..+-.++...|+.++|...++...+..-. |+.....+...|.-.++.
T Consensus       187 ~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~-d~~~~~~~a~~l~~~g~~  264 (280)
T PF13429_consen  187 AWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPD-DPLWLLAYADALEQAGRK  264 (280)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT--HHHHHHHHHHHT-----
T ss_pred             HHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccccc-cccccccccccccccccc
Confidence            999999999999888888877654 445567788888999999999999999998774432 677777777777766653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.97  E-value=9.5e-07  Score=78.12  Aligned_cols=142  Identities=6%  Similarity=-0.077  Sum_probs=77.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHH----HHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhH
Q 027083           69 SVAAINCVILGCANIWDLDR----AYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSY  144 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~----a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~  144 (228)
                      +...+..+-..+...|+.++    |...|++....  -+.+...+..+-..+.+.|++++|...+++..+... -+...+
T Consensus       245 ~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P-~~~~a~  321 (656)
T PRK15174        245 GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHP-DLPYVR  321 (656)
T ss_pred             CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHH
Confidence            44455555556666666554    56666665541  122344566666666666666666666666655431 234445


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHH
Q 027083          145 SLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKET-LKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRK  215 (228)
Q Consensus       145 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t-~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~  215 (228)
                      ..+-.++.+.|++++|.+.++.+...  .|+... +..+..++...|+.++|...++...+..-.-....|.
T Consensus       322 ~~La~~l~~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~~~~~~  391 (656)
T PRK15174        322 AMYARALRQVGQYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHLPQSFE  391 (656)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhchhhHH
Confidence            55566666666666666666665543  343322 2223445566666666666666665544332333443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.95  E-value=8.6e-07  Score=78.37  Aligned_cols=184  Identities=9%  Similarity=-0.068  Sum_probs=98.3

Q ss_pred             hHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHH
Q 027083           34 SLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALI  113 (228)
Q Consensus        34 ~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li  113 (228)
                      .+..+...+.+.|+  ...+...+.+.....+.  +...+..+...+...|+.++|...++.+... ...+. ..+..+ 
T Consensus       112 a~~~la~~l~~~g~--~~~Ai~~l~~Al~l~P~--~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~-~P~~~-~a~~~~-  184 (656)
T PRK15174        112 DVLLVASVLLKSKQ--YATVADLAEQAWLAFSG--NSQIFALHLRTLVLMDKELQAISLARTQAQE-VPPRG-DMIATC-  184 (656)
T ss_pred             HHHHHHHHHHHcCC--HHHHHHHHHHHHHhCCC--cHHHHHHHHHHHHHCCChHHHHHHHHHHHHh-CCCCH-HHHHHH-
Confidence            45555666666663  34444444444433332  4556666666666677777777766666542 21111 122222 


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChh
Q 027083          114 YAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEE  193 (228)
Q Consensus       114 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~  193 (228)
                      ..+.+.|++++|...++.+.+....++...+..+..++.+.|+.++|.+.+++..... ..+...+..+-..+...|+.+
T Consensus       185 ~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~  263 (656)
T PRK15174        185 LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSR  263 (656)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCch
Confidence            2356667777777777666554322334444445566666777777777776666532 223455555666666667666


Q ss_pred             h----HHHHHHHHHHcCCCcchhhHHHHHHHHHhhhh
Q 027083          194 S----NDRVEALAKKFDIRMNTENRKNILFNLEYSAS  226 (228)
Q Consensus       194 ~----a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~  226 (228)
                      +    |...++...+..-. +...+..+-..+...++
T Consensus       264 eA~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~  299 (656)
T PRK15174        264 EAKLQAAEHWRHALQFNSD-NVRIVTLYADALIRTGQ  299 (656)
T ss_pred             hhHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCC
Confidence            4    56666666654321 34444444444444433

>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=98.88  E-value=3.7e-06  Score=74.03  Aligned_cols=129  Identities=10%  Similarity=-0.086  Sum_probs=69.8

Q ss_pred             hHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHH
Q 027083           34 SLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALI  113 (228)
Q Consensus        34 ~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li  113 (228)
                      +|..+...+...|+  ...+...+.+.....+.  +..+|..+-..+...|+.++|...|++....  .+.+...+..+-
T Consensus       367 ~~~~la~~~~~~g~--~~eA~~~~~~al~~~p~--~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~~la  440 (615)
T TIGR00990       367 SYIKRASMNLELGD--PDKAEEDFDKALKLNSE--DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHIQLG  440 (615)
T ss_pred             HHHHHHHHHHHCCC--HHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHHHHH
Confidence            44455555555553  33333333333222222  4456666666666666666666666666542  122344555555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 027083          114 YAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       114 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      ..+.+.|++++|...|++..+.. ..+...|+.+-..+...|++++|.+.|+....
T Consensus       441 ~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~  495 (615)
T TIGR00990       441 VTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIE  495 (615)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            66666666666666666655432 22355566666666666666666666665543

>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=98.84  E-value=3.2e-06  Score=74.42  Aligned_cols=189  Identities=10%  Similarity=-0.042  Sum_probs=143.6

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      +++++|...|+...+.....       ......|+.+-..+...|  +..++...+.+.....+.  +...|..+-..+.
T Consensus       308 ~~y~~A~~~~~~al~~~~~~-------~~~a~a~~~lg~~~~~~g--~~~eA~~~~~kal~l~P~--~~~~~~~la~~~~  376 (615)
T TIGR00990       308 ESYEEAARAFEKALDLGKLG-------EKEAIALNLRGTFKCLKG--KHLEALADLSKSIELDPR--VTQSYIKRASMNL  376 (615)
T ss_pred             hhHHHHHHHHHHHHhcCCCC-------hhhHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHcCCC--cHHHHHHHHHHHH
Confidence            35667777777766542110       111245777777777888  455666566555544433  5668888888889


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ..|++++|...|++....  -..+...|..+-..+...|++++|...|++..+.. ..+...+..+-..+.+.|+.++|+
T Consensus       377 ~~g~~~eA~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~  453 (615)
T TIGR00990       377 ELGDPDKAEEDFDKALKL--NSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSM  453 (615)
T ss_pred             HCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHH
Confidence            999999999999998763  23356788889999999999999999999988764 235677788888899999999999


Q ss_pred             HHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          162 SVIDEMVNAGFAP-SKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       162 ~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      ..|++....  .| +...++.+-..+...|++++|...++......
T Consensus       454 ~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~  497 (615)
T TIGR00990       454 ATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELE  497 (615)
T ss_pred             HHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            999988763  35 46888888899999999999999999988754

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.83  E-value=6.9e-09  Score=54.89  Aligned_cols=33  Identities=27%  Similarity=0.522  Sum_probs=20.8

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC
Q 027083          143 SYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPS  175 (228)
Q Consensus       143 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  175 (228)
                      |||++|++|++.|++++|.++|++|.+.|++||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            566666666666666666666666666666665

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.81  E-value=7e-09  Score=54.87  Aligned_cols=33  Identities=30%  Similarity=0.577  Sum_probs=24.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc
Q 027083          108 SYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN  140 (228)
Q Consensus       108 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~  140 (228)
                      +||++|++|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            677777777777777777777777777777776

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.

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

Probab=98.81  E-value=1.1e-07  Score=75.46  Aligned_cols=164  Identities=16%  Similarity=0.098  Sum_probs=104.5

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC-HHhHHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD-IHSYNA  111 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~  111 (228)
                      ..+...+..+.+.+.  .......+...........+...|..+-..+.+.|+.++|.+.+++..+.   .|+ ....+.
T Consensus       111 ~~l~~~l~~~~~~~~--~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~---~P~~~~~~~~  185 (280)
T PF13429_consen  111 RYLLSALQLYYRLGD--YDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL---DPDDPDARNA  185 (280)
T ss_dssp             -------H-HHHTT---HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH----TT-HHHHHH
T ss_pred             chhhHHHHHHHHHhH--HHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHH
Confidence            345667777777774  33333333332233323347888888889999999999999999999873   464 778899


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMD  191 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~  191 (228)
                      ++..+...|+.+++..+++...+.. ..|+..+..+-.+|...|+.++|..+|++..... +.|..+...+.+++...|+
T Consensus       186 l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~  263 (280)
T PF13429_consen  186 LAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGR  263 (280)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT----
T ss_pred             HHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-ccccccccccccccccccc
Confidence            9999999999999999998887664 5677788999999999999999999999977632 3477888888999999999


Q ss_pred             hhhHHHHHHHHH
Q 027083          192 EESNDRVEALAK  203 (228)
Q Consensus       192 ~~~a~~~~~~m~  203 (228)
                      .++|.++.....
T Consensus       264 ~~~A~~~~~~~~  275 (280)
T PF13429_consen  264 KDEALRLRRQAL  275 (280)
T ss_dssp             ------------
T ss_pred             cccccccccccc
Confidence            999999877654

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

Probab=98.80  E-value=3.9e-08  Score=85.56  Aligned_cols=156  Identities=16%  Similarity=0.159  Sum_probs=102.8

Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc-----------------------CCCCCCHHhHHHHHHHHHhcC
Q 027083           64 EPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSS-----------------------FGLTPDIHSYNALIYAFGKLK  120 (228)
Q Consensus        64 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----------------------~~~~p~~~~~~~li~~~~~~~  120 (228)
                      ....||.+||..+|.-||..|+++.|- +|..|+.+                       .--.|..-||++|..+|.++|
T Consensus        19 ~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ayr~hG   97 (1088)
T KOG4318|consen   19 SGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAYRIHG   97 (1088)
T ss_pred             hcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHHHhcc
Confidence            334459999999999999999999999 88877653                       012467788999999999999


Q ss_pred             CHHH---HHHHHHHHHh----CCCC-----------------CcHhh----------HHHHHHHHHc------cCC----
Q 027083          121 KTFE---ASRVFEHLVS----LGVK-----------------PNAMS----------YSLLVDAHLT------NRD----  156 (228)
Q Consensus       121 ~~~~---a~~~~~~m~~----~g~~-----------------p~~~t----------~~~li~~~~~------~g~----  156 (228)
                      ++..   .++.+.....    .|+.                 ||..+          |..+++-..+      .+-    
T Consensus        98 Dli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa~~~p~~vf  177 (1088)
T KOG4318|consen   98 DLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSAWNAPFQVF  177 (1088)
T ss_pred             chHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcccccchHHHH
Confidence            8654   3332222211    1221                 33322          1111221100      010    


Q ss_pred             -------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHH
Q 027083          157 -------QKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFN  220 (228)
Q Consensus       157 -------~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  220 (228)
                             ..-.+++....+...-.|+..+|.+++++-.-.|+.+.|..++..|.+.|+..+.+.+..++-+
T Consensus       178 Lrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g  248 (1088)
T KOG4318|consen  178 LRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG  248 (1088)
T ss_pred             HHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc
Confidence                   0111222222221111599999999999999999999999999999999999999988888755

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

Probab=98.78  E-value=1.8e-07  Score=77.22  Aligned_cols=121  Identities=19%  Similarity=0.154  Sum_probs=106.2

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC-CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSF-GLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLL  147 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~l  147 (228)
                      +.....++++.+....+++.+..++...+... ....-..|.+++|+.|.+.|..+.+..+++.=...|+.||..|||.|
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            77788888999998899999999988887642 22234556689999999999999999999999999999999999999


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 027083          148 VDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVRE  189 (228)
Q Consensus       148 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~  189 (228)
                      |+.+.+.|++..|.+++.+|..++...+..|+...+.+|.+-
T Consensus       145 md~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            999999999999999999999998888889988888887765

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 [].

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.75  E-value=1.7e-08  Score=53.09  Aligned_cols=32  Identities=38%  Similarity=0.579  Sum_probs=17.2

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC
Q 027083          143 SYSLLVDAHLTNRDQKAALSVIDEMVNAGFAP  174 (228)
Q Consensus       143 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  174 (228)
                      |||++|.+|++.|+++.|.++|++|++.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            45555555555555555555555555555554

>PRK12370 invasion protein regulator; Provisional

Probab=98.72  E-value=2.1e-05  Score=68.40  Aligned_cols=148  Identities=9%  Similarity=-0.084  Sum_probs=108.1

Q ss_pred             HHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC-HHhHHHHHHHHHhcCCHHHHHHH
Q 027083           50 LDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD-IHSYNALIYAFGKLKKTFEASRV  128 (228)
Q Consensus        50 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~  128 (228)
                      ...+.....+.....|.  +...+..+-..+...|+.++|...|++..+.   .|+ ...+..+-..+...|++++|...
T Consensus       320 ~~~A~~~~~~Al~ldP~--~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l---~P~~~~a~~~lg~~l~~~G~~~eAi~~  394 (553)
T PRK12370        320 MIKAKEHAIKATELDHN--NPQALGLLGLINTIHSEYIVGSLLFKQANLL---SPISADIKYYYGWNLFMAGQLEEALQT  394 (553)
T ss_pred             HHHHHHHHHHHHhcCCC--CHHHHHHHHHHHHHccCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            44555555554444443  6777877777788899999999999999873   354 55677788889999999999999


Q ss_pred             HHHHHhCCCCCcH-hhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          129 FEHLVSLGVKPNA-MSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAP-SKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       129 ~~~m~~~g~~p~~-~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      +++..+..  |+. ..+..+...+...|+.++|.+.+++..... .| +...+..+-.++...|+.++|...+..+...
T Consensus       395 ~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~  470 (553)
T PRK12370        395 INECLKLD--PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ  470 (553)
T ss_pred             HHHHHhcC--CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc
Confidence            99988764  443 233344445667889999999998877543 34 3445666677788899999999998776543

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.71  E-value=2.6e-08  Score=52.39  Aligned_cols=33  Identities=39%  Similarity=0.604  Sum_probs=22.3

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 027083          107 HSYNALIYAFGKLKKTFEASRVFEHLVSLGVKP  139 (228)
Q Consensus       107 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p  139 (228)
                      .|||++|++|++.|+++.|.++|++|.+.|++|
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            466666666666666666666666666666665

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.69  E-value=1.5e-05  Score=73.13  Aligned_cols=119  Identities=12%  Similarity=0.046  Sum_probs=76.7

Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ..|+.++|...+++..+   ..|+...|..+-..+.+.|+.++|...|++..+.. .-+...++.+-..+...|+.++|+
T Consensus       588 ~~Gr~~eAl~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi  663 (987)
T PRK09782        588 IPGQPELALNDLTRSLN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSR  663 (987)
T ss_pred             hCCCHHHHHHHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            44777777777777654   24566666667677777777777777777766553 224455555556677777777777


Q ss_pred             HHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          162 SVIDEMVNAGFAP-SKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       162 ~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      +.+++..+.  .| +...+..+-.++...|++++|...++...+..
T Consensus       664 ~~l~~AL~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        664 EMLERAHKG--LPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            777666553  33 34566666666777777777777777666544

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

Probab=98.69  E-value=4.2e-07  Score=60.41  Aligned_cols=79  Identities=14%  Similarity=0.185  Sum_probs=55.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCcHhhHHHHHHHHHccC--------CHHHHHHHHHHHHHCCCCCCHHHHH
Q 027083          110 NALIYAFGKLKKTFEASRVFEHLVSLGV-KPNAMSYSLLVDAHLTNR--------DQKAALSVIDEMVNAGFAPSKETLK  180 (228)
Q Consensus       110 ~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~t~~~li~~~~~~g--------~~~~a~~~~~~m~~~g~~p~~~t~~  180 (228)
                      ...|..+...+++.....+|+.+++.|+ .|+..+||.++.+-++..        ++-..+.++++|...+++|+..||+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            4445555555777777777777777777 777777777777766643        2344566777788778888888888


Q ss_pred             HHHHHHHh
Q 027083          181 KVRRRCVR  188 (228)
Q Consensus       181 ~li~~~~~  188 (228)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            88777654

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 [, , ].

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

Probab=98.67  E-value=1.3e-05  Score=68.07  Aligned_cols=203  Identities=15%  Similarity=0.086  Sum_probs=153.7

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCc-chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSP-FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      |.+|-|.+.+++..+.           -|. ...||.|-+++-..|+  +.++...+.+-..-.+.  -....+.|=+.+
T Consensus       300 G~ldlAI~~Ykral~~-----------~P~F~~Ay~NlanALkd~G~--V~ea~~cYnkaL~l~p~--hadam~NLgni~  364 (966)
T KOG4626|consen  300 GLLDLAIDTYKRALEL-----------QPNFPDAYNNLANALKDKGS--VTEAVDCYNKALRLCPN--HADAMNNLGNIY  364 (966)
T ss_pred             ccHHHHHHHHHHHHhc-----------CCCchHHHhHHHHHHHhccc--hHHHHHHHHHHHHhCCc--cHHHHHHHHHHH
Confidence            5666677666665544           223 3478999999998884  45554444444444444  345788888999


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-HhhHHHHHHHHHccCCHH
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTPD-IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN-AMSYSLLVDAHLTNRDQK  158 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~  158 (228)
                      .+.|.++.|.++|.....   +.|. ...+|.|-..|-..|.+++|..-|++..+-  .|+ ...|+.+=..|-..|+.+
T Consensus       365 ~E~~~~e~A~~ly~~al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g~v~  439 (966)
T KOG4626|consen  365 REQGKIEEATRLYLKALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFADALSNMGNTYKEMGDVS  439 (966)
T ss_pred             HHhccchHHHHHHHHHHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHHHHHHhcchHHHHhhhHH
Confidence            999999999999988765   4454 457888999999999999999999988764  554 567888888899999999


Q ss_pred             HHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhhc
Q 027083          159 AALSVIDEMVNAGFAPS-KETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASY  227 (228)
Q Consensus       159 ~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~~  227 (228)
                      .|.+.+.+.+.  +.|. ...++.|-..|...|++.+|.+-++...+..-. -+..|..+++++...-.|
T Consensus       440 ~A~q~y~rAI~--~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPD-fpdA~cNllh~lq~vcdw  506 (966)
T KOG4626|consen  440 AAIQCYTRAIQ--INPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPD-FPDAYCNLLHCLQIVCDW  506 (966)
T ss_pred             HHHHHHHHHHh--cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCC-CchhhhHHHHHHHHHhcc
Confidence            99988876665  5565 578888999999999999999999988774432 356788999999887776

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.57  E-value=9.7e-05  Score=67.94  Aligned_cols=174  Identities=9%  Similarity=-0.060  Sum_probs=117.6

Q ss_pred             HHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCH-HhHHHHHHHHHh
Q 027083           40 VACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDI-HSYNALIYAFGK  118 (228)
Q Consensus        40 ~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~  118 (228)
                      ..+.+.|+  ...+...+.+.... ++  +...+..+-..+.+.|+.++|...+++..+. .  |+. ..+..+.....+
T Consensus       517 ~al~~~Gr--~eeAi~~~rka~~~-~p--~~~a~~~la~all~~Gd~~eA~~~l~qAL~l-~--P~~~~l~~~La~~l~~  588 (987)
T PRK09782        517 YQAYQVED--YATALAAWQKISLH-DM--SNEDLLAAANTAQAAGNGAARDRWLQQAEQR-G--LGDNALYWWLHAQRYI  588 (987)
T ss_pred             HHHHHCCC--HHHHHHHHHHHhcc-CC--CcHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-C--CccHHHHHHHHHHHHh
Confidence            33346664  44444444444332 22  2334556666778889999999999988763 3  333 233333344455


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChhhHHH
Q 027083          119 LKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPS-KETLKKVRRRCVREMDEESNDR  197 (228)
Q Consensus       119 ~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~  197 (228)
                      .|++++|...+++..+.  .|+...|..+-..+.+.|+.++|++.+++....  .|+ ...++.+-..+...|+.++|..
T Consensus       589 ~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~  664 (987)
T PRK09782        589 PGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSRE  664 (987)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            69999999999988765  577888999999999999999999999887764  454 4566666668888999999999


Q ss_pred             HHHHHHHcCCCcchhhHHHHHHHHHhhhh
Q 027083          198 VEALAKKFDIRMNTENRKNILFNLEYSAS  226 (228)
Q Consensus       198 ~~~~m~~~g~~~~~~~~~~li~~l~~~~~  226 (228)
                      .+....+..-. +...+..+-.++...++
T Consensus       665 ~l~~AL~l~P~-~~~a~~nLA~al~~lGd  692 (987)
T PRK09782        665 MLERAHKGLPD-DPALIRQLAYVNQRLDD  692 (987)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHCCC
Confidence            98888875432 44455555555544433

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

Probab=98.56  E-value=1e-07  Score=48.91  Aligned_cols=29  Identities=31%  Similarity=0.431  Sum_probs=14.1

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 027083          143 SYSLLVDAHLTNRDQKAALSVIDEMVNAG  171 (228)
Q Consensus       143 t~~~li~~~~~~g~~~~a~~~~~~m~~~g  171 (228)
                      |||++|++|++.|++++|.++|++|++.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            44444444444444444444444444444

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.

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

Probab=98.56  E-value=2.7e-06  Score=70.47  Aligned_cols=121  Identities=10%  Similarity=0.040  Sum_probs=105.9

Q ss_pred             CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHH
Q 027083          101 GLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSL--GVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKET  178 (228)
Q Consensus       101 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t  178 (228)
                      +...+......+++.+....+++.+..++......  ....-..|..++|..|...|..+.+.++++.=...|+-||..|
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            45668888999999999999999999999888765  3334456677999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHH
Q 027083          179 LKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNL  221 (228)
Q Consensus       179 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l  221 (228)
                      ||.|++.+.+.|++..|.++...|...+...++.++.-.+.++
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~  183 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSC  183 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHH
Confidence            9999999999999999999999999888888888777666554

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 [].

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.55  E-value=0.00011  Score=69.31  Aligned_cols=187  Identities=13%  Similarity=0.034  Sum_probs=126.8

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHH-----
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCV-----   76 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-----   76 (228)
                      |++++|...|++..+..          +.....+..|-..+.+.|+  ..++...+.+.....+..++...|..+     
T Consensus       283 g~~~~A~~~l~~aL~~~----------P~~~~a~~~Lg~~~~~~g~--~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~  350 (1157)
T PRK11447        283 GQGGKAIPELQQAVRAN----------PKDSEALGALGQAYSQQGD--RARAVAQFEKALALDPHSSNRDKWESLLKVNR  350 (1157)
T ss_pred             CCHHHHHHHHHHHHHhC----------CCCHHHHHHHHHHHHHcCC--HHHHHHHHHHHHHhCCCccchhHHHHHHHhhh
Confidence            67788888887776652          1123467788889999885  444444444444333322222223222     


Q ss_pred             -------HHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-HhhHHHHH
Q 027083           77 -------ILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN-AMSYSLLV  148 (228)
Q Consensus        77 -------l~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~t~~~li  148 (228)
                             -..+.+.|++++|...|++....  -..+...+..+-..+...|++++|++.|++..+..  |+ ...+..+.
T Consensus       351 ~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~--~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~--p~~~~a~~~L~  426 (1157)
T PRK11447        351 YWLLIQQGDAALKANNLAQAERLYQQARQV--DNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD--PGNTNAVRGLA  426 (1157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHH
Confidence                   23456889999999999999873  23345567778889999999999999999987653  33 33333222


Q ss_pred             ------------------------------------------HHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHH
Q 027083          149 ------------------------------------------DAHLTNRDQKAALSVIDEMVNAGFAPS-KETLKKVRRR  185 (228)
Q Consensus       149 ------------------------------------------~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~  185 (228)
                                                                ..+...|++++|.+.+++..+.  .|+ ...+..+...
T Consensus       427 ~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~~~~~LA~~  504 (1157)
T PRK11447        427 NLYRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DPGSVWLTYRLAQD  504 (1157)
T ss_pred             HHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence                                                      2344578888888888887763  454 5667778888


Q ss_pred             HHhcCChhhHHHHHHHHHHcC
Q 027083          186 CVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       186 ~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      +.+.|+.++|...++.+.+..
T Consensus       505 ~~~~G~~~~A~~~l~~al~~~  525 (1157)
T PRK11447        505 LRQAGQRSQADALMRRLAQQK  525 (1157)
T ss_pred             HHHcCCHHHHHHHHHHHHHcC
Confidence            999999999999999988643

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

Probab=98.54  E-value=1.1e-07  Score=48.77  Aligned_cols=31  Identities=32%  Similarity=0.522  Sum_probs=22.5

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 027083          107 HSYNALIYAFGKLKKTFEASRVFEHLVSLGV  137 (228)
Q Consensus       107 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~  137 (228)
                      +|||++|++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3677777777777777777777777776654

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.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.51  E-value=0.00014  Score=60.68  Aligned_cols=200  Identities=9%  Similarity=-0.013  Sum_probs=124.7

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHH--HHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLY--PLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILG   79 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~--~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~   79 (228)
                      |+.++|...+.++.+...           +.....  .....+...|  +...+.....+.....|-  +......+...
T Consensus       132 g~~~~A~~~l~~A~~~~~-----------~~~~~~~l~~a~l~l~~g--~~~~Al~~l~~~~~~~P~--~~~al~ll~~~  196 (398)
T PRK10747        132 GDEARANQHLERAAELAD-----------NDQLPVEITRVRIQLARN--ENHAARHGVDKLLEVAPR--HPEVLRLAEQA  196 (398)
T ss_pred             CCHHHHHHHHHHHHhcCC-----------cchHHHHHHHHHHHHHCC--CHHHHHHHHHHHHhcCCC--CHHHHHHHHHH
Confidence            677888888887765421           111111  1234555555  344455455554444443  56677777777


Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCC-----------------------------------------CCHHhHHHHHHHHHh
Q 027083           80 CANIWDLDRAYQTFEAVGSSFGLT-----------------------------------------PDIHSYNALIYAFGK  118 (228)
Q Consensus        80 ~~~~~~~~~a~~~~~~m~~~~~~~-----------------------------------------p~~~~~~~li~~~~~  118 (228)
                      |...|+++.|.+++..+.+. +..                                         .+......+...+.+
T Consensus       197 ~~~~gdw~~a~~~l~~l~k~-~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~  275 (398)
T PRK10747        197 YIRTGAWSSLLDILPSMAKA-HVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIE  275 (398)
T ss_pred             HHHHHhHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHH
Confidence            77777777777777777653 222                                         122333455667778


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChhhHHH
Q 027083          119 LKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPS-KETLKKVRRRCVREMDEESNDR  197 (228)
Q Consensus       119 ~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~  197 (228)
                      .|+.++|.+++++..+.  .||...  .++.+....++++++.+..+...+.  .|+ .....++-+.|.+.+++++|+.
T Consensus       276 ~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~  349 (398)
T PRK10747        276 CDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASL  349 (398)
T ss_pred             CCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            88888888888887764  344421  1334444557888888887776653  344 4556667777888888888888


Q ss_pred             HHHHHHHcCCCcchhhHHHHHHHHHhhh
Q 027083          198 VEALAKKFDIRMNTENRKNILFNLEYSA  225 (228)
Q Consensus       198 ~~~~m~~~g~~~~~~~~~~li~~l~~~~  225 (228)
                      .++...+.  .|+...+..+-..++-.+
T Consensus       350 ~le~al~~--~P~~~~~~~La~~~~~~g  375 (398)
T PRK10747        350 AFRAALKQ--RPDAYDYAWLADALDRLH  375 (398)
T ss_pred             HHHHHHhc--CCCHHHHHHHHHHHHHcC
Confidence            88888765  477777777766666544

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.50  E-value=7.7e-05  Score=62.23  Aligned_cols=189  Identities=12%  Similarity=-0.016  Sum_probs=128.9

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |+|++|..++..+.+.....+......  ...+|..++....+..  +.......+.......+.  +......+-..+.
T Consensus       201 gdw~~a~~~l~~l~k~~~~~~~~~~~l--~~~a~~~l~~~~~~~~--~~~~l~~~w~~lp~~~~~--~~~~~~~~A~~l~  274 (398)
T PRK10747        201 GAWSSLLDILPSMAKAHVGDEEHRAML--EQQAWIGLMDQAMADQ--GSEGLKRWWKNQSRKTRH--QVALQVAMAEHLI  274 (398)
T ss_pred             HhHHHHHHHHHHHHHcCCCCHHHHHHH--HHHHHHHHHHHHHHhc--CHHHHHHHHHhCCHHHhC--CHHHHHHHHHHHH
Confidence            677788888888777633222110000  0012333333322222  222222222222222222  6678888899999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ..|+.++|..++++..++   .||..  -.++.+.+..++.+++.+..+...+.. +-|+....++=..|.+.|++++|.
T Consensus       275 ~~g~~~~A~~~L~~~l~~---~~~~~--l~~l~~~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~  348 (398)
T PRK10747        275 ECDDHDTAQQIILDGLKR---QYDER--LVLLIPRLKTNNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEAS  348 (398)
T ss_pred             HCCCHHHHHHHHHHHHhc---CCCHH--HHHHHhhccCCChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            999999999999998764   34442  123444556699999999999988764 235667888999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          162 SVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       162 ~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      +.|+...+  ..|+..++..+-..+...|+.++|.+++..-..
T Consensus       349 ~~le~al~--~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        349 LAFRAALK--QRPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHh--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            99998886  469999999999999999999999999886544

>PRK12370 invasion protein regulator; Provisional

Probab=98.48  E-value=0.00012  Score=63.65  Aligned_cols=161  Identities=11%  Similarity=-0.067  Sum_probs=111.5

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHH-hHH
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIH-SYN  110 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~-~~~  110 (228)
                      ...+..+-..+...|+  ..++...+.+.....|.  +...+..+-..+...|+.++|...+++..+-   .|+.. .+.
T Consensus       338 ~~a~~~lg~~~~~~g~--~~~A~~~~~~Al~l~P~--~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l---~P~~~~~~~  410 (553)
T PRK12370        338 PQALGLLGLINTIHSE--YIVGSLLFKQANLLSPI--SADIKYYYGWNLFMAGQLEEALQTINECLKL---DPTRAAAGI  410 (553)
T ss_pred             HHHHHHHHHHHHHccC--HHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCChhhHH
Confidence            3456667677777774  55555555555554544  6667888888899999999999999999863   44432 333


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCC-cHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHh
Q 027083          111 ALIYAFGKLKKTFEASRVFEHLVSLGVKP-NAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSK-ETLKKVRRRCVR  188 (228)
Q Consensus       111 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~  188 (228)
                      .+...+...|++++|...+++..+.. .| ++..+..+-.++...|+.++|.+.+.++...  .|+. ...+.+...+..
T Consensus       411 ~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~  487 (553)
T PRK12370        411 TKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQ  487 (553)
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhc
Confidence            44555777899999999999987653 24 4455777778888999999999999886543  4443 334445556677


Q ss_pred             cCChhhHHHHHHHHHH
Q 027083          189 EMDEESNDRVEALAKK  204 (228)
Q Consensus       189 ~~~~~~a~~~~~~m~~  204 (228)
                      .|+  .+...++.+.+
T Consensus       488 ~g~--~a~~~l~~ll~  501 (553)
T PRK12370        488 NSE--RALPTIREFLE  501 (553)
T ss_pred             cHH--HHHHHHHHHHH
Confidence            774  66665555544

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

Probab=98.47  E-value=6.1e-06  Score=54.98  Aligned_cols=80  Identities=19%  Similarity=0.333  Sum_probs=68.5

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhcCCC-CCCHHhHHHHHHHHHhcCC--------HHHHHHHHHHHHhCCCCCcHhh
Q 027083           73 INCVILGCANIWDLDRAYQTFEAVGSSFGL-TPDIHSYNALIYAFGKLKK--------TFEASRVFEHLVSLGVKPNAMS  143 (228)
Q Consensus        73 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~p~~~~~~~li~~~~~~~~--------~~~a~~~~~~m~~~g~~p~~~t  143 (228)
                      -...|..|...++......+|+.+++. |+ .|+..+||.++++.++...        +-++..+|++|...+++|+..|
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN-~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRN-GITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhc-CCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            344567777779999999999999995 99 9999999999999887643        4557789999999999999999


Q ss_pred             HHHHHHHHHc
Q 027083          144 YSLLVDAHLT  153 (228)
Q Consensus       144 ~~~li~~~~~  153 (228)
                      ||+++.++.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9999998765

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 [, , ].

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.45  E-value=0.00021  Score=67.43  Aligned_cols=188  Identities=12%  Similarity=0.017  Sum_probs=117.9

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|...+++..+...          .+...+..+...|.+.|+  ..++...+.+.....+.  +...+..+-..+.
T Consensus       475 g~~~eA~~~~~~Al~~~P----------~~~~~~~~LA~~~~~~G~--~~~A~~~l~~al~~~P~--~~~~~~a~al~l~  540 (1157)
T PRK11447        475 GKWAQAAELQRQRLALDP----------GSVWLTYRLAQDLRQAGQ--RSQADALMRRLAQQKPN--DPEQVYAYGLYLS  540 (1157)
T ss_pred             CCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHHcCC--HHHHHHHHHHHHHcCCC--CHHHHHHHHHHHH
Confidence            677788887777665521          112345567777888774  44444444443333332  2222222222233


Q ss_pred             HcCCHHHHHHHHHHHhhcC--------------------------------------CCCCCHHhHHHHHHHHHhcCCHH
Q 027083           82 NIWDLDRAYQTFEAVGSSF--------------------------------------GLTPDIHSYNALIYAFGKLKKTF  123 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~--------------------------------------~~~p~~~~~~~li~~~~~~~~~~  123 (228)
                      ..++.++|...++.+....                                      ...++...+..+-..+.+.|+.+
T Consensus       541 ~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~  620 (1157)
T PRK11447        541 GSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYA  620 (1157)
T ss_pred             hCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHH
Confidence            3444444444443322100                                      01234445666777888999999


Q ss_pred             HHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHH
Q 027083          124 EASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPS-KETLKKVRRRCVREMDEESNDRVEALA  202 (228)
Q Consensus       124 ~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m  202 (228)
                      +|...|++..+.. ..+...+..+...+...|+.++|.+.++.....  .|+ ..++..+-.++...|+.++|.++++.+
T Consensus       621 ~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~~a  697 (1157)
T PRK11447        621 AARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVALAWAALGDTAAAQRTFNRL  697 (1157)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            9999999888764 336788888999999999999999999876543  443 455666777788889999999999988


Q ss_pred             HHcC
Q 027083          203 KKFD  206 (228)
Q Consensus       203 ~~~g  206 (228)
                      ....
T Consensus       698 l~~~  701 (1157)
T PRK11447        698 IPQA  701 (1157)
T ss_pred             hhhC
Confidence            8754

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.44  E-value=0.00029  Score=63.73  Aligned_cols=190  Identities=8%  Similarity=-0.100  Sum_probs=128.7

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCC--CCHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPY--KSVAAINCVILG   79 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~ll~~   79 (228)
                      |+.++|...|+.+.+..         -..|...-..+...|.+.|+.  ..+...+.+.....+..  ........+..+
T Consensus       251 g~~~eA~~~~~~ll~~~---------~~~P~~a~~~la~~yl~~g~~--e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a  319 (765)
T PRK10049        251 DRYKDVISEYQRLKAEG---------QIIPPWAQRWVASAYLKLHQP--EKAQSILTELFYHPETIADLSDEELADLFYS  319 (765)
T ss_pred             hhHHHHHHHHHHhhccC---------CCCCHHHHHHHHHHHHhcCCc--HHHHHHHHHHhhcCCCCCCCChHHHHHHHHH
Confidence            45566777776665541         100111112246678888853  33333333333322211  123456666778


Q ss_pred             HHHcCCHHHHHHHHHHHhhcCC----------CCCC---HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHH
Q 027083           80 CANIWDLDRAYQTFEAVGSSFG----------LTPD---IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSL  146 (228)
Q Consensus        80 ~~~~~~~~~a~~~~~~m~~~~~----------~~p~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~  146 (228)
                      +.+.|+.++|...++.+.....          -.|+   ...+..+...+...|+.++|+.+++++.... +-+...+..
T Consensus       320 ~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~  398 (765)
T PRK10049        320 LLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRID  398 (765)
T ss_pred             HHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            8899999999999999886310          1123   1244567778899999999999999987764 346778899


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          147 LVDAHLTNRDQKAALSVIDEMVNAGFAPS-KETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       147 li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      +...+...|++++|++.+++...  +.|| ...+......+.+.|++++|+.+++.+.+.
T Consensus       399 lA~l~~~~g~~~~A~~~l~~al~--l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        399 YASVLQARGWPRAAENELKKAEV--LEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHh--hCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            99999999999999999997776  3476 456666666788889999999999998873

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.38  E-value=6.8e-06  Score=61.28  Aligned_cols=103  Identities=22%  Similarity=0.287  Sum_probs=53.0

Q ss_pred             CHHHHHHHHHHHHHc-----CCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhh
Q 027083           69 SVAAINCVILGCANI-----WDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMS  143 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~-----~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t  143 (228)
                      +..+|..++..|.+.     |.++-....+..|.+ .|+.-|..+|+.||+.+=+..-.                |.. .
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~e-fgv~kDL~~Y~~LLDvFPKg~fv----------------p~n-~  107 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDE-FGVEKDLEVYKALLDVFPKGKFV----------------PRN-F  107 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHH-cCCcccHHHHHHHHHhCCCCCcc----------------ccc-H
Confidence            666666666666533     555555566666666 56666666666666665542210                000 0


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 027083          144 YSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMD  191 (228)
Q Consensus       144 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~  191 (228)
                      +-++..-|  -.+.+-|++++++|...|+-||..|+..|++.|.+.+.
T Consensus       108 fQ~~F~hy--p~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  108 FQAEFMHY--PRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHhccC--cHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            00000000  12234455666666666666666666666666655543

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

>TIGR00540 hemY_coli hemY protein

Probab=98.33  E-value=0.00058  Score=57.22  Aligned_cols=114  Identities=8%  Similarity=-0.044  Sum_probs=60.6

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhh---HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH---HH
Q 027083          105 DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMS---YSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSK---ET  178 (228)
Q Consensus       105 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t---~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~---~t  178 (228)
                      +...+-.+...+...|+.++|.+++++..+.  .||...   .....-.....++.+.+.+.++...+.  .|+.   ..
T Consensus       262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~l  337 (409)
T TIGR00540       262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCI  337 (409)
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHH
Confidence            4445555566666677777777777666654  233331   111111222345566666666554432  3332   33


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHH
Q 027083          179 LKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLE  222 (228)
Q Consensus       179 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~  222 (228)
                      ..++-..+.+.|++++|.+.++........|+.+.+..+-.-+.
T Consensus       338 l~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~  381 (409)
T TIGR00540       338 NRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFD  381 (409)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHH
Confidence            34555566667777777777765455555566666555544444

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.

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

Probab=98.33  E-value=0.00026  Score=57.19  Aligned_cols=194  Identities=13%  Similarity=0.036  Sum_probs=134.6

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |+|.+.+.+..+|.++.-.........  ...+|+.+++-....+  ..................  +...-.+++.-+.
T Consensus       201 g~~~~ll~~l~~L~ka~~l~~~e~~~l--e~~a~~glL~q~~~~~--~~~gL~~~W~~~pr~lr~--~p~l~~~~a~~li  274 (400)
T COG3071         201 GAWQALLAILPKLRKAGLLSDEEAARL--EQQAWEGLLQQARDDN--GSEGLKTWWKNQPRKLRN--DPELVVAYAERLI  274 (400)
T ss_pred             ccHHHHHHHHHHHHHccCCChHHHHHH--HHHHHHHHHHHHhccc--cchHHHHHHHhccHHhhc--ChhHHHHHHHHHH
Confidence            778888888888888743333221111  1246888887776655  233322233333322222  3345566788888


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh-CCCCCcHhhHHHHHHHHHccCCHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVS-LGVKPNAMSYSLLVDAHLTNRDQKAA  160 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~g~~p~~~t~~~li~~~~~~g~~~~a  160 (228)
                      ..|+-++|.++.++..++ +..|+.    ...-.+.+.++.+.-.+..+.-.+ .+-  ++-.+.+|=..|.+.+.|.+|
T Consensus       275 ~l~~~~~A~~~i~~~Lk~-~~D~~L----~~~~~~l~~~d~~~l~k~~e~~l~~h~~--~p~L~~tLG~L~~k~~~w~kA  347 (400)
T COG3071         275 RLGDHDEAQEIIEDALKR-QWDPRL----CRLIPRLRPGDPEPLIKAAEKWLKQHPE--DPLLLSTLGRLALKNKLWGKA  347 (400)
T ss_pred             HcCChHHHHHHHHHHHHh-ccChhH----HHHHhhcCCCCchHHHHHHHHHHHhCCC--ChhHHHHHHHHHHHhhHHHHH
Confidence            999999999999999885 777772    222345667777777777766443 333  447788888899999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcc
Q 027083          161 LSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMN  210 (228)
Q Consensus       161 ~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~  210 (228)
                      .+.|+.-.  ...|+..+|+.+-+++.+.|+.+.|.++.+...-.-..|+
T Consensus       348 ~~~leaAl--~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         348 SEALEAAL--KLRPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             HHHHHHHH--hcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            99998444  4689999999999999999999999999888765444443

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.30  E-value=0.00012  Score=62.19  Aligned_cols=216  Identities=17%  Similarity=0.113  Sum_probs=143.8

Q ss_pred             ccHHHHHHHHHHHHHHhccch-hhhhhhhCcchhHHHHHHHHHhhChhcHHHH-----HHHHhchhhcCCCCCCHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSI-IDMEEIFSPFTSLYPLVVACSRKGFETLDSV-----YFQLENLSRAEPPYKSVAAINC   75 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~   75 (228)
                      ++.++|..+++++.+.....- .+..   ....+++.|-..|.+.|+.+.+..     .....+..+...+. -...++.
T Consensus       255 ~k~~eAv~ly~~AL~i~e~~~G~~h~---~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~-v~~~l~~  330 (508)
T KOG1840|consen  255 GKYDEAVNLYEEALTIREEVFGEDHP---AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPE-VAAQLSE  330 (508)
T ss_pred             ccHHHHHHHHHHHHHHHHHhcCCCCH---HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHH-HHHHHHH
Confidence            678899999998877643111 1110   113467788888999995322222     22222222222221 2334566


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcCC--CCCC----HHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CCC-cHh
Q 027083           76 VILGCANIWDLDRAYQTFEAVGSSFG--LTPD----IHSYNALIYAFGKLKKTFEASRVFEHLVSL-----G-VKP-NAM  142 (228)
Q Consensus        76 ll~~~~~~~~~~~a~~~~~~m~~~~~--~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g-~~p-~~~  142 (228)
                      +...|+..++.++|..++....+...  ..++    ..+++.|=..|.+.|.+++|+.+|++..+.     | ..+ ...
T Consensus       331 ~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~  410 (508)
T KOG1840|consen  331 LAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGK  410 (508)
T ss_pred             HHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhH
Confidence            77778889999999998887654211  2222    358999999999999999999999986443     1 122 255


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHH----HCCC-CCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHHc------CCCcc
Q 027083          143 SYSLLVDAHLTNRDQKAALSVIDEMV----NAGF-APS-KETLKKVRRRCVREMDEESNDRVEALAKKF------DIRMN  210 (228)
Q Consensus       143 t~~~li~~~~~~g~~~~a~~~~~~m~----~~g~-~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~------g~~~~  210 (228)
                      ..|-|-..|.+.+..++|.++|.+-+    ..|. .|| ..+|..|...|.+.|+++.|..+.+.+.+.      ...|+
T Consensus       411 ~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~~~~~~~~~~~~  490 (508)
T KOG1840|consen  411 PLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNAREQRLGTASPT  490 (508)
T ss_pred             HHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcCCCCCcc
Confidence            67888889999999999998887754    3332 344 488999999999999999999998877742      34566


Q ss_pred             hhhHHHHHHHH
Q 027083          211 TENRKNILFNL  221 (228)
Q Consensus       211 ~~~~~~li~~l  221 (228)
                      ..........+
T Consensus       491 ~~~~~~~~~~~  501 (508)
T KOG1840|consen  491 VEDEKLRLADL  501 (508)
T ss_pred             hhHHHHhhhHH
Confidence            66665554443

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.30  E-value=0.00087  Score=53.66  Aligned_cols=46  Identities=17%  Similarity=0.115  Sum_probs=32.1

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHh
Q 027083          177 ETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEY  223 (228)
Q Consensus       177 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~  223 (228)
                      ..|..+-..+...|+.++|...++...+.+.. +..-+...+.-++.
T Consensus       237 ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~-~~~e~~~~~~e~~~  282 (296)
T PRK11189        237 ETYFYLAKYYLSLGDLDEAAALFKLALANNVY-NFVEHRYALLELAL  282 (296)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc-hHHHHHHHHHHHHH
Confidence            45666677778889999999999998877643 55555554444443

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.27  E-value=2.8e-05  Score=58.05  Aligned_cols=119  Identities=12%  Similarity=0.102  Sum_probs=78.4

Q ss_pred             CcchhHHHHHHHHHhhC---hhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCH
Q 027083           30 SPFTSLYPLVVACSRKG---FETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDI  106 (228)
Q Consensus        30 ~~~~~~~~ll~~~~~~g---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~  106 (228)
                      .+-.+|..+|+.|.+..   +...+-.+..+..|.. .....|..+|+.||+.+=+..-                 .|..
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~e-fgv~kDL~~Y~~LLDvFPKg~f-----------------vp~n  106 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDE-FGVEKDLEVYKALLDVFPKGKF-----------------VPRN  106 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHH-cCCcccHHHHHHHHHhCCCCCc-----------------cccc
Confidence            34568999999999874   2455555555555554 3344599999999987765221                 1211


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCH-HHHHHHHHHHHH
Q 027083          107 HSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQ-KAALSVIDEMVN  169 (228)
Q Consensus       107 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~-~~a~~~~~~m~~  169 (228)
                      . +-++..-|  ..+-+-|.+++++|...|+.||..|+..+++.+++.+.+ .+..++.-.|.+
T Consensus       107 ~-fQ~~F~hy--p~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWmpk  167 (228)
T PF06239_consen  107 F-FQAEFMHY--PRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWMPK  167 (228)
T ss_pred             H-HHHHhccC--cHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHHHH
Confidence            1 11111111  123466899999999999999999999999999998875 455555555554

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

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.26  E-value=0.0013  Score=59.64  Aligned_cols=181  Identities=11%  Similarity=-0.025  Sum_probs=121.3

Q ss_pred             HHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCC--CHHhHHHHHHHHH
Q 027083           40 VACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTP--DIHSYNALIYAFG  117 (228)
Q Consensus        40 ~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~~~  117 (228)
                      ..+.+.|+  ..++...+..+....++.|+- .--.+-..|...|++++|...|++........+  .......+..++.
T Consensus       245 ~~Ll~~g~--~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~  321 (765)
T PRK10049        245 GALLARDR--YKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLL  321 (765)
T ss_pred             HHHHHhhh--HHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHH
Confidence            34455563  444444444444443322332 122245688899999999999999876311111  1345667777899


Q ss_pred             hcCCHHHHHHHHHHHHhCCC-----------CCc---HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 027083          118 KLKKTFEASRVFEHLVSLGV-----------KPN---AMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVR  183 (228)
Q Consensus       118 ~~~~~~~a~~~~~~m~~~g~-----------~p~---~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li  183 (228)
                      +.|++++|..+++.+.+...           .|+   ...+..+...+...|+.++|+++++++.... .-+...+..+.
T Consensus       322 ~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA  400 (765)
T PRK10049        322 ESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYA  400 (765)
T ss_pred             hcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            99999999999999886521           123   2345677788889999999999999987642 33467888888


Q ss_pred             HHHHhcCChhhHHHHHHHHHHcCCCcc-hhhHHHHHHHHHhhhh
Q 027083          184 RRCVREMDEESNDRVEALAKKFDIRMN-TENRKNILFNLEYSAS  226 (228)
Q Consensus       184 ~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~l~~~~~  226 (228)
                      ..+...|+.++|++.++...+..  |+ ...+..........++
T Consensus       401 ~l~~~~g~~~~A~~~l~~al~l~--Pd~~~l~~~~a~~al~~~~  442 (765)
T PRK10049        401 SVLQARGWPRAAENELKKAEVLE--PRNINLEVEQAWTALDLQE  442 (765)
T ss_pred             HHHHhcCCHHHHHHHHHHHHhhC--CCChHHHHHHHHHHHHhCC
Confidence            89999999999999999888755  44 3333333334443333

>TIGR00540 hemY_coli hemY protein

Probab=98.26  E-value=0.00037  Score=58.42  Aligned_cols=131  Identities=9%  Similarity=-0.061  Sum_probs=101.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhH-HHHHHH--HHhcCCHHHHHHHHHHHHhCCCCCcH---h
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSY-NALIYA--FGKLKKTFEASRVFEHLVSLGVKPNA---M  142 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~-~~li~~--~~~~~~~~~a~~~~~~m~~~g~~p~~---~  142 (228)
                      +...+-.+...+...|+.+.|.+++++..++   .||.... -.++..  ....++.+.+.+.++...+.  .|+.   .
T Consensus       262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~  336 (409)
T TIGR00540       262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCC  336 (409)
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHH
Confidence            6778888889999999999999999999874   3444321 013333  34457788899999887665  3444   4


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          143 SYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       143 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      ...++=..+.+.|++++|.+.|+........||...+..+...+.+.|+.++|.++++.-..
T Consensus       337 ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       337 INRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            45577788889999999999999655555689999999999999999999999999987543

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.

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

Probab=98.25  E-value=3.5e-05  Score=65.63  Aligned_cols=146  Identities=16%  Similarity=0.166  Sum_probs=96.9

Q ss_pred             HHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC-HHhHHHHHHHHHhcCCHHHHHHH
Q 027083           50 LDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD-IHSYNALIYAFGKLKKTFEASRV  128 (228)
Q Consensus        50 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~  128 (228)
                      ...+...+++-....|-.|+  .||.|-+++-..|++.+|.+.+++...   +.|+ ....|.|-..|...|.++.|.++
T Consensus       302 ldlAI~~Ykral~~~P~F~~--Ay~NlanALkd~G~V~ea~~cYnkaL~---l~p~hadam~NLgni~~E~~~~e~A~~l  376 (966)
T KOG4626|consen  302 LDLAIDTYKRALELQPNFPD--AYNNLANALKDKGSVTEAVDCYNKALR---LCPNHADAMNNLGNIYREQGKIEEATRL  376 (966)
T ss_pred             HHHHHHHHHHHHhcCCCchH--HHhHHHHHHHhccchHHHHHHHHHHHH---hCCccHHHHHHHHHHHHHhccchHHHHH
Confidence            33344444444444444333  777777777777888888888777765   2343 34667777778888888888887


Q ss_pred             HHHHHhCCCCCc-HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          129 FEHLVSLGVKPN-AMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPS-KETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       129 ~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      |.....-  .|. ...+|.|-..|-.+|+.++|...+++..+  ++|+ ...|+.+=..|-..|+++.|.+.+...+.
T Consensus       377 y~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~  450 (966)
T KOG4626|consen  377 YLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQ  450 (966)
T ss_pred             HHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHh
Confidence            7765543  333 45577777778888888888887776554  6676 35666666667777777777777766554

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.20  E-value=0.00084  Score=60.77  Aligned_cols=179  Identities=16%  Similarity=0.058  Sum_probs=109.7

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |+.+.|+..|++..+......          ..-..++..++..|.  ...+.....+... ..+. +....-.+-..+.
T Consensus        48 Gd~~~Al~~L~qaL~~~P~~~----------~av~dll~l~~~~G~--~~~A~~~~eka~~-p~n~-~~~~llalA~ly~  113 (822)
T PRK14574         48 GDTAPVLDYLQEESKAGPLQS----------GQVDDWLQIAGWAGR--DQEVIDVYERYQS-SMNI-SSRGLASAARAYR  113 (822)
T ss_pred             CCHHHHHHHHHHHHhhCccch----------hhHHHHHHHHHHcCC--cHHHHHHHHHhcc-CCCC-CHHHHHHHHHHHH
Confidence            677788888877766521110          011266777777774  4444444444331 1111 2223333344667


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ..|++++|.++|+++.+.  -+-|...+..++..|...+..++|.+.++.+...  .|+...+-.++..+...++..+|+
T Consensus       114 ~~gdyd~Aiely~kaL~~--dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL  189 (822)
T PRK14574        114 NEKRWDQALALWQSSLKK--DPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDAL  189 (822)
T ss_pred             HcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHH
Confidence            778888888888888763  2223455567777888888888888888887765  566666644444443345555588


Q ss_pred             HHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHH
Q 027083          162 SVIDEMVNAGFAP-SKETLKKVRRRCVREMDEESNDRVEA  200 (228)
Q Consensus       162 ~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~  200 (228)
                      +.++++.+..  | +...+..++.++.+.|-...|.++..
T Consensus       190 ~~~ekll~~~--P~n~e~~~~~~~~l~~~~~~~~a~~l~~  227 (822)
T PRK14574        190 QASSEAVRLA--PTSEEVLKNHLEILQRNRIVEPALRLAK  227 (822)
T ss_pred             HHHHHHHHhC--CCCHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            8888887753  5 45666777778888877777665543

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

Probab=98.19  E-value=0.00064  Score=56.16  Aligned_cols=198  Identities=11%  Similarity=0.022  Sum_probs=135.0

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|...+++..........         ..||.=+. +-+.|  .+.+++..+-++......  +..+.-.+-+.|-
T Consensus       504 gd~dka~~~ykeal~ndasc~e---------alfniglt-~e~~~--~ldeald~f~klh~il~n--n~evl~qianiye  569 (840)
T KOG2003|consen  504 GDLDKAAEFYKEALNNDASCTE---------ALFNIGLT-AEALG--NLDEALDCFLKLHAILLN--NAEVLVQIANIYE  569 (840)
T ss_pred             CcHHHHHHHHHHHHcCchHHHH---------HHHHhccc-HHHhc--CHHHHHHHHHHHHHHHHh--hHHHHHHHHHHHH
Confidence            7888888888876544211111         12332222 22333  344444444444444332  5666667777888


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ...+...|.+++.+..+  -++.|....+-|-+.|-+.|+-.+|.+.+-+--+. +.-|..|..-|-.-|...--++++.
T Consensus       570 ~led~aqaie~~~q~~s--lip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai  646 (840)
T KOG2003|consen  570 LLEDPAQAIELLMQANS--LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAI  646 (840)
T ss_pred             HhhCHHHHHHHHHHhcc--cCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHH
Confidence            88888999998888765  46667888888989999999999888877665443 4557788888888888888889999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHH-hcCChhhHHHHHHHHHHcCCCcchhhHHHHHH
Q 027083          162 SVIDEMVNAGFAPSKETLKKVRRRCV-REMDEESNDRVEALAKKFDIRMNTENRKNILF  219 (228)
Q Consensus       162 ~~~~~m~~~g~~p~~~t~~~li~~~~-~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  219 (228)
                      ..|+...  =+.|++.-|..+|.+|. |.|+++.|..++....+. +.-+....+-+++
T Consensus       647 ~y~ekaa--liqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvr  702 (840)
T KOG2003|consen  647 NYFEKAA--LIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVR  702 (840)
T ss_pred             HHHHHHH--hcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHH
Confidence            8887543  37899999998887765 459999999988886543 4445555555554

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

Probab=98.10  E-value=0.0021  Score=48.62  Aligned_cols=126  Identities=16%  Similarity=0.023  Sum_probs=54.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHH
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAH  151 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~  151 (228)
                      +.|.-=-.+|..|.+++|..-|++......+.--..||..+--+..+.|.++.|+..|++-.+... -...+.-.+....
T Consensus       105 VLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp-~~~~~~l~~a~~~  183 (250)
T COG3063         105 VLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDP-QFPPALLELARLH  183 (250)
T ss_pred             hhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCc-CCChHHHHHHHHH
Confidence            333333444444455555555554444322222333444444444445555555555544443321 1223333444444


Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHH
Q 027083          152 LTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVE  199 (228)
Q Consensus       152 ~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~  199 (228)
                      .+.|+.-.|...++.....+. ++..+....|+.-.+.|+.+.+.+.-
T Consensus       184 ~~~~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~  230 (250)
T COG3063         184 YKAGDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQ  230 (250)
T ss_pred             HhcccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHH
Confidence            444444444444443333332 44444444444444445544444433

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

Probab=98.10  E-value=0.0023  Score=50.78  Aligned_cols=166  Identities=11%  Similarity=0.003  Sum_probs=115.0

Q ss_pred             HHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCH----HhHHHH
Q 027083           37 PLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDI----HSYNAL  112 (228)
Q Consensus        37 ~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~----~~~~~l  112 (228)
                      .|-.-|.++|..+.++..+..-.-.+..    -...--.|+..|-...+|++|.++-++..+ .+-++..    ..|+-+
T Consensus       112 qL~~Dym~aGl~DRAE~~f~~L~de~ef----a~~AlqqLl~IYQ~treW~KAId~A~~L~k-~~~q~~~~eIAqfyCEL  186 (389)
T COG2956         112 QLGRDYMAAGLLDRAEDIFNQLVDEGEF----AEGALQQLLNIYQATREWEKAIDVAERLVK-LGGQTYRVEIAQFYCEL  186 (389)
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHhcchhh----hHHHHHHHHHHHHHhhHHHHHHHHHHHHHH-cCCccchhHHHHHHHHH
Confidence            4666677778655555544332211111    234777889999999999999999998877 3544432    245566


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh
Q 027083          113 IYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDE  192 (228)
Q Consensus       113 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~  192 (228)
                      -..+.-..+++.|..++....+..-+ .+..--.+=......|+.+.|.+.++...+++..--..+...|..+|...|+.
T Consensus       187 Aq~~~~~~~~d~A~~~l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~  265 (389)
T COG2956         187 AQQALASSDVDRARELLKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKP  265 (389)
T ss_pred             HHHHhhhhhHHHHHHHHHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCH
Confidence            66666778888888888887765321 23333334456677899999999998888877666678888888999999999


Q ss_pred             hhHHHHHHHHHHcCCC
Q 027083          193 ESNDRVEALAKKFDIR  208 (228)
Q Consensus       193 ~~a~~~~~~m~~~g~~  208 (228)
                      ++....+..+.+..-.
T Consensus       266 ~~~~~fL~~~~~~~~g  281 (389)
T COG2956         266 AEGLNFLRRAMETNTG  281 (389)
T ss_pred             HHHHHHHHHHHHccCC
Confidence            8888887777664433

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

Probab=98.09  E-value=0.00016  Score=57.41  Aligned_cols=131  Identities=16%  Similarity=0.098  Sum_probs=84.9

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDA  150 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  150 (228)
                      .+|..+|+..-+.+.++.|+.+|.+..+...+....+...++|.-++ .++.+.|.++|+...+. +..+...|...++-
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~-~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYC-NKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHT-CS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            46777777777777788888888887764334455555555554332 34566688888776654 34566777777777


Q ss_pred             HHccCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          151 HLTNRDQKAALSVIDEMVNAGFAPSK----ETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       151 ~~~~g~~~~a~~~~~~m~~~g~~p~~----~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      +.+.|+.+.|..+|++....  .|..    ..|...++-=.+.|+++.+..+...+.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~--l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS--LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT--SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh--cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            77788888888888776644  2333    47777777777778887777777776653

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.

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

Probab=98.08  E-value=0.00032  Score=60.00  Aligned_cols=184  Identities=13%  Similarity=0.041  Sum_probs=120.7

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      +..++|+.+|+.+.+.......       ....|.+.+=-+-+.-    +..+....-+. ..+-  ...+|+++=++|.
T Consensus       367 ~~Y~~a~~~F~~~r~~~p~rv~-------~meiyST~LWHLq~~v----~Ls~Laq~Li~-~~~~--sPesWca~GNcfS  432 (638)
T KOG1126|consen  367 IEYDQAERIFSLVRRIEPYRVK-------GMEIYSTTLWHLQDEV----ALSYLAQDLID-TDPN--SPESWCALGNCFS  432 (638)
T ss_pred             HHHHHHHHHHHHHHhhcccccc-------chhHHHHHHHHHHhhH----HHHHHHHHHHh-hCCC--CcHHHHHhcchhh
Confidence            4567888888888776432222       2345666654443322    22211111111 1222  4569999999999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHH---HHHHHHccCCH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSL---LVDAHLTNRDQ  157 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~---li~~~~~~g~~  157 (228)
                      -.++.+.|.+.|++...   +.| .+++|+.+=.-+....++|.|+..|+...    ..|+..||+   +-..|.+.++.
T Consensus       433 LQkdh~~Aik~f~RAiQ---ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al----~~~~rhYnAwYGlG~vy~Kqek~  505 (638)
T KOG1126|consen  433 LQKDHDTAIKCFKRAIQ---LDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL----GVDPRHYNAWYGLGTVYLKQEKL  505 (638)
T ss_pred             hhhHHHHHHHHHHHhhc---cCCccchhhhhcCChhhhhHHHHhHHHHHHhhh----cCCchhhHHHHhhhhheeccchh
Confidence            99999999999998764   566 67788877777778888888888887765    456666654   44567788888


Q ss_pred             HHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCC
Q 027083          158 KAALSVIDEMVNAGFAP-SKETLKKVRRRCVREMDEESNDRVEALAKKFDIR  208 (228)
Q Consensus       158 ~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~  208 (228)
                      +.|+-.|+...+  +-| +.+....+-..+-+.|..++|.++++......-+
T Consensus       506 e~Ae~~fqkA~~--INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k  555 (638)
T KOG1126|consen  506 EFAEFHFQKAVE--INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK  555 (638)
T ss_pred             hHHHHHHHhhhc--CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC
Confidence            888888876554  444 3444445555667778888888888887765543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.08  E-value=0.0024  Score=57.89  Aligned_cols=171  Identities=12%  Similarity=0.009  Sum_probs=119.9

Q ss_pred             hCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcC----CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC---
Q 027083           29 FSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAE----PPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFG---  101 (228)
Q Consensus        29 ~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~---  101 (228)
                      ..|..+--.+.++|...+.+..+..+..  ......    ...++......|..++...+++++|..+.+.+.+...   
T Consensus       324 ~~P~y~~~a~adayl~~~~P~kA~~l~~--~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~  401 (822)
T PRK14574        324 KMPDYARRWAASAYIDRRLPEKAAPILS--SLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQV  401 (822)
T ss_pred             CCCHHHHHHHHHHHHhcCCcHHHHHHHH--HHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEE
Confidence            3344455568899998886544444333  222211    1112444467889999999999999999999987311   


Q ss_pred             ---------CCCCHHh-HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 027083          102 ---------LTPDIHS-YNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAG  171 (228)
Q Consensus       102 ---------~~p~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  171 (228)
                               ..||-.. +..++..+.-.|+..+|++.++++.... +-|.-....+-+.+...|.+..|++.++..... 
T Consensus       402 ~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l-  479 (822)
T PRK14574        402 GVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVESL-  479 (822)
T ss_pred             eccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh-
Confidence                     1233333 3445677889999999999999997664 347888889999999999999999999655543 


Q ss_pred             CCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          172 FAPS-KETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       172 ~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                       .|+ ..+.......+-..+++.+|..+.+.+..
T Consensus       480 -~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~  512 (822)
T PRK14574        480 -APRSLILERAQAETAMALQEWHQMELLTDDVIS  512 (822)
T ss_pred             -CCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence             554 46666677777788999999888877655

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

Probab=98.07  E-value=0.0015  Score=54.16  Aligned_cols=183  Identities=10%  Similarity=0.043  Sum_probs=90.1

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhCh-hcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGF-ETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .++|+|+.+|+++.+.. .+.-      .+.++|+.++-.--.... .-++.......      ...|  .|.+++-+.|
T Consensus       276 rDfD~a~s~Feei~knD-PYRl------~dmdlySN~LYv~~~~skLs~LA~~v~~id------KyR~--ETCCiIaNYY  340 (559)
T KOG1155|consen  276 RDFDQAESVFEEIRKND-PYRL------DDMDLYSNVLYVKNDKSKLSYLAQNVSNID------KYRP--ETCCIIANYY  340 (559)
T ss_pred             hhHHHHHHHHHHHHhcC-CCcc------hhHHHHhHHHHHHhhhHHHHHHHHHHHHhc------cCCc--cceeeehhHH
Confidence            47899999999997772 2221      123455544432211110 01111111111      1111  2555555666


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCCCHH-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCC----------------------
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTPDIH-SYNALIYAFGKLKKTFEASRVFEHLVSLGV----------------------  137 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~----------------------  137 (228)
                      +-.++.++|...|+...+   +.|... .|+.+=.-|....+...|..-++...+-..                      
T Consensus       341 Slr~eHEKAv~YFkRALk---LNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRAWYGLGQaYeim~Mh~Ya  417 (559)
T KOG1155|consen  341 SLRSEHEKAVMYFKRALK---LNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPRDYRAWYGLGQAYEIMKMHFYA  417 (559)
T ss_pred             HHHHhHHHHHHHHHHHHh---cCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCchhHHHHhhhhHHHHHhcchHHH
Confidence            666666666666665543   233332 233333345555555555555444443321                      


Q ss_pred             -----------CCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 027083          138 -----------KPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAK  203 (228)
Q Consensus       138 -----------~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~  203 (228)
                                 +-|+..|.+|=++|.+-+++++|+..|......|-. +...+..|-+.+-+.++.++|.+.+..-+
T Consensus       418 LyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~LakLye~l~d~~eAa~~yek~v  493 (559)
T KOG1155|consen  418 LYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAKLYEELKDLNEAAQYYEKYV  493 (559)
T ss_pred             HHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence                       235566666666666666666666666655544421 34555566666666666666665554433

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.06  E-value=0.00037  Score=57.64  Aligned_cols=126  Identities=15%  Similarity=0.171  Sum_probs=102.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +-+.-..++..+...++++.|..+|+++.++ .  |+..  -.+.+.+...++-.+|.+++++..+.. +.|......-.
T Consensus       168 ~NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~-~--pev~--~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa  241 (395)
T PF09295_consen  168 NNYLVDTLLKYLSLTQRYDEAIELLEKLRER-D--PEVA--VLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQA  241 (395)
T ss_pred             chHHHHHHHHHHhhcccHHHHHHHHHHHHhc-C--CcHH--HHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            4455566777777889999999999999985 3  6644  457888888999999999999988653 33666677777


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCChhhHHHHHHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSK-ETLKKVRRRCVREMDEESNDRVEALA  202 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~m  202 (228)
                      ..|.+.++.+.|..+.++...  ..|+. .+|..|..+|...|+++.|.....-+
T Consensus       242 ~fLl~k~~~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  242 EFLLSKKKYELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             HHHHhcCCHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            778899999999999998887  56776 69999999999999999998776543

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

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.02  E-value=0.003  Score=48.59  Aligned_cols=169  Identities=15%  Similarity=0.065  Sum_probs=109.8

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCH-HhHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKS-VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDI-HSYN  110 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~-~~~~  110 (228)
                      ..+..+...+.+.|+  ...+...+.+.....+..|. ..++..+-.++...|+++.|...+++..+...-.|.. ..+.
T Consensus        34 ~~~~~~g~~~~~~~~--~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        34 EELYEEAKEALDSGD--YTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             HHHHHHHHHHHHcCC--HHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            345667777777774  44454455544444433221 2466677788888999999999999998642112221 1333


Q ss_pred             HHHHHHHhc--------CCHHHHHHHHHHHHhCCCCCcHh-hHH-----------------HHHHHHHccCCHHHHHHHH
Q 027083          111 ALIYAFGKL--------KKTFEASRVFEHLVSLGVKPNAM-SYS-----------------LLVDAHLTNRDQKAALSVI  164 (228)
Q Consensus       111 ~li~~~~~~--------~~~~~a~~~~~~m~~~g~~p~~~-t~~-----------------~li~~~~~~g~~~~a~~~~  164 (228)
                      .+-.++.+.        |+.++|.+.|+...+.  .|+.. .+.                 .+-..+.+.|++++|...+
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~  189 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRF  189 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            333444443        6788899999988765  34432 211                 2345567789999999999


Q ss_pred             HHHHHCCC-CC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          165 DEMVNAGF-AP-SKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       165 ~~m~~~g~-~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      ++.....- .| ....+..+..++...|+.++|..+++.+.+.
T Consensus       190 ~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       190 ETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            88775421 23 3577888889999999999999988777654

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

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

Probab=97.99  E-value=4.5e-05  Score=60.70  Aligned_cols=166  Identities=14%  Similarity=0.043  Sum_probs=111.7

Q ss_pred             HHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHH-
Q 027083           37 PLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYA-  115 (228)
Q Consensus        37 ~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~-  115 (228)
                      .++.+..-....+..+++....+.    .   +.......+..+.+.++++.|.+.++.|.+.   ..|. +...+..+ 
T Consensus       105 ~~~~A~i~~~~~~~~~AL~~l~~~----~---~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~---~eD~-~l~qLa~aw  173 (290)
T PF04733_consen  105 QLLAATILFHEGDYEEALKLLHKG----G---SLELLALAVQILLKMNRPDLAEKELKNMQQI---DEDS-ILTQLAEAW  173 (290)
T ss_dssp             HHHHHHHHCCCCHHHHHHCCCTTT----T---CHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC---SCCH-HHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHcc----C---cccHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcH-HHHHHHHHH
Confidence            344444333333566666554431    2   6778888999999999999999999999863   3443 34344444 


Q ss_pred             ---HHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh
Q 027083          116 ---FGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDE  192 (228)
Q Consensus       116 ---~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~  192 (228)
                         +.-.+.+.+|..+|+++.+. ..+++.+.|.+..+....|++++|.+++.+..... .-|..+...++-+....|+.
T Consensus       174 v~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~  251 (290)
T PF04733_consen  174 VNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKP  251 (290)
T ss_dssp             HHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-T
T ss_pred             HHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCC
Confidence               43345799999999998664 56889999999999999999999999999866433 22456666677777777776


Q ss_pred             -hhHHHHHHHHHHcC-CCcchhhHH
Q 027083          193 -ESNDRVEALAKKFD-IRMNTENRK  215 (228)
Q Consensus       193 -~~a~~~~~~m~~~g-~~~~~~~~~  215 (228)
                       +.+.+....+.+.. -.|-...+.
T Consensus       252 ~~~~~~~l~qL~~~~p~h~~~~~~~  276 (290)
T PF04733_consen  252 TEAAERYLSQLKQSNPNHPLVKDLA  276 (290)
T ss_dssp             CHHHHHHHHHCHHHTTTSHHHHHHH
T ss_pred             hhHHHHHHHHHHHhCCCChHHHHHH
Confidence             66778888877642 234444443

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.

>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=97.99  E-value=0.00047  Score=54.92  Aligned_cols=136  Identities=10%  Similarity=0.109  Sum_probs=97.7

Q ss_pred             HHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHH----cc
Q 027083           79 GCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHL----TN  154 (228)
Q Consensus        79 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~----~~  154 (228)
                      .+...|++++|+++.+.-       .+....-..|..|.+.++++.|.+.++.|.+.  ..|... .-+..++.    -.
T Consensus       111 i~~~~~~~~~AL~~l~~~-------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD~~l-~qLa~awv~l~~g~  180 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG-------GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DEDSIL-TQLAEAWVNLATGG  180 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT-------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCCHHH-HHHHHHHHHHHHTT
T ss_pred             HHHHcCCHHHHHHHHHcc-------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHH-HHHHHHHHHHHhCc
Confidence            334679999999886532       46677788899999999999999999999875  344433 33444433    33


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhh
Q 027083          155 RDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSAS  226 (228)
Q Consensus       155 g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~  226 (228)
                      ..+.+|..+|+++.+. ..++..+.+.+.-+....|++++|+.++....+.+-. ++.+...+|.+....++
T Consensus       181 e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~-~~d~LaNliv~~~~~gk  250 (290)
T PF04733_consen  181 EKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN-DPDTLANLIVCSLHLGK  250 (290)
T ss_dssp             TCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-HHHHHHHHHHHHHHTT-
T ss_pred             hhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-CHHHHHHHHHHHHHhCC
Confidence            4689999999998654 6788999999999999999999999998887765433 66666666666555443

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.

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

Probab=97.99  E-value=0.0057  Score=49.66  Aligned_cols=181  Identities=13%  Similarity=0.064  Sum_probs=132.4

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCC------CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYK------SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDI  106 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~  106 (228)
                      ..-.....+|.+.|  ++...+.....+.+.....+      ...+|+.++.-....++.+.-...+++..+  ..+-+.
T Consensus       188 ~vlrLa~r~y~~~g--~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr--~lr~~p  263 (400)
T COG3071         188 EVLRLALRAYIRLG--AWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPR--KLRNDP  263 (400)
T ss_pred             HHHHHHHHHHHHhc--cHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccH--HhhcCh
Confidence            34667788888888  45555555555555443321      235778888888877777777778888776  355666


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHH-HHHCCCCCCHHHHHHHHHH
Q 027083          107 HSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDE-MVNAGFAPSKETLKKVRRR  185 (228)
Q Consensus       107 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~-m~~~g~~p~~~t~~~li~~  185 (228)
                      ..-.+++.-+.++|+.++|.++.++-.+.+..|...+    .-.+.+-++.+.-.+..+. .+..+..|  ..+.+|=..
T Consensus       264 ~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~----~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L  337 (400)
T COG3071         264 ELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCR----LIPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRL  337 (400)
T ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHH----HHhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHH
Confidence            7778899999999999999999999988887777222    2345667777766666655 34556666  677788888


Q ss_pred             HHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhh
Q 027083          186 CVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSA  225 (228)
Q Consensus       186 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~  225 (228)
                      |.+.+.+.+|...++.  .....|+.++|..+-++++-.+
T Consensus       338 ~~k~~~w~kA~~~lea--Al~~~~s~~~~~~la~~~~~~g  375 (400)
T COG3071         338 ALKNKLWGKASEALEA--ALKLRPSASDYAELADALDQLG  375 (400)
T ss_pred             HHHhhHHHHHHHHHHH--HHhcCCChhhHHHHHHHHHHcC
Confidence            9999999999999994  4556778999999888887554

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

Probab=97.94  E-value=0.0017  Score=51.70  Aligned_cols=159  Identities=12%  Similarity=0.036  Sum_probs=113.1

Q ss_pred             HHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhH-HHHHH
Q 027083           36 YPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSY-NALIY  114 (228)
Q Consensus        36 ~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~-~~li~  114 (228)
                      +.+-.+|.+.|+...++..++-.  .. ..+  -+.||-.|-+.|.+..++..|+.+|.+-..   .-|-.+|| .-+-+
T Consensus       227 ~Q~gkCylrLgm~r~Aekqlqss--L~-q~~--~~dTfllLskvY~ridQP~~AL~~~~~gld---~fP~~VT~l~g~AR  298 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSS--LT-QFP--HPDTFLLLSKVYQRIDQPERALLVIGEGLD---SFPFDVTYLLGQAR  298 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHH--hh-cCC--chhHHHHHHHHHHHhccHHHHHHHHhhhhh---cCCchhhhhhhhHH
Confidence            56889999999755444433321  11 222  445888899999999999999999998875   24555555 44556


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhh
Q 027083          115 AFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEES  194 (228)
Q Consensus       115 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~  194 (228)
                      .+-..+..++|.++|+...+.. ..+......+-.+|--.++++.|++.++++.+.|+. +...|+.+--+|.-.++++.
T Consensus       299 i~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~  376 (478)
T KOG1129|consen  299 IHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDL  376 (478)
T ss_pred             HHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhh
Confidence            7778888999999998876653 346666667777778888999999999988888864 45566666666666677777


Q ss_pred             HHHHHHHHHH
Q 027083          195 NDRVEALAKK  204 (228)
Q Consensus       195 a~~~~~~m~~  204 (228)
                      +..-+.+...
T Consensus       377 ~L~sf~RAls  386 (478)
T KOG1129|consen  377 VLPSFQRALS  386 (478)
T ss_pred             hHHHHHHHHh
Confidence            6666555443

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

Probab=97.94  E-value=0.0011  Score=46.21  Aligned_cols=107  Identities=14%  Similarity=0.131  Sum_probs=65.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +......+...+...|+.++|.+.|+.....  -..+...+..+-..|.+.|++++|...+++..+.+ ..+..++..+-
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la   92 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAA   92 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHH
Confidence            3344455555666677777777777776652  23355566666667777777777777777665553 33455566666


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLK  180 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~  180 (228)
                      .++...|+.++|...|+...+.  .|+...+.
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~  122 (135)
T TIGR02552        93 ECLLALGEPESALKALDLAIEI--CGENPEYS  122 (135)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--ccccchHH
Confidence            6677777777777777665553  34444433

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=97.93  E-value=0.0033  Score=58.48  Aligned_cols=194  Identities=7%  Similarity=-0.020  Sum_probs=139.9

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      +.+++|..++++....-..-...  +-   ...|.++++.-.-.|  ..+.....+++......|   -..|..|...|.
T Consensus      1472 sEiekAR~iaerAL~tIN~REee--EK---LNiWiA~lNlEn~yG--~eesl~kVFeRAcqycd~---~~V~~~L~~iy~ 1541 (1710)
T KOG1070|consen 1472 SEIEKARKIAERALKTINFREEE--EK---LNIWIAYLNLENAYG--TEESLKKVFERACQYCDA---YTVHLKLLGIYE 1541 (1710)
T ss_pred             hhhHHHHHHHHHHhhhCCcchhH--HH---HHHHHHHHhHHHhhC--cHHHHHHHHHHHHHhcch---HHHHHHHHHHHH
Confidence            45677777777765553222211  11   123555555555555  455555566666665553   468899999999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc---HhhHHHHHHHHHccCCHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN---AMSYSLLVDAHLTNRDQK  158 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~t~~~li~~~~~~g~~~  158 (228)
                      +.+..++|-++++.|.++  +.-....|...++.+.+.++-+.|..++.+..+.  -|-   .....-....--+.|+.+
T Consensus      1542 k~ek~~~A~ell~~m~KK--F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEFk~GDae 1617 (1710)
T KOG1070|consen 1542 KSEKNDEADELLRLMLKK--FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEFKYGDAE 1617 (1710)
T ss_pred             HhhcchhHHHHHHHHHHH--hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHhhcCCch
Confidence            999999999999999985  4467788999999999999999999999987654  344   222233333345789999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcc
Q 027083          159 AALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMN  210 (228)
Q Consensus       159 ~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~  210 (228)
                      .+..+|+.....- .--...|+..|+.=.+.|+.+.++.+|+++...++.|-
T Consensus      1618 RGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~k 1668 (1710)
T KOG1070|consen 1618 RGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIK 1668 (1710)
T ss_pred             hhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChh
Confidence            9999998877542 22457899999999999999999999999999998774

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

Probab=97.92  E-value=0.0048  Score=46.69  Aligned_cols=178  Identities=13%  Similarity=-0.007  Sum_probs=137.7

Q ss_pred             hHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCH-HhHHHH
Q 027083           34 SLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDI-HSYNAL  112 (228)
Q Consensus        34 ~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~-~~~~~l  112 (228)
                      ....|--+|.+.|  +...+...+++....-|.  +..+|..+-..|.+.|+.+.|.+-|++..+   +.|+. .+.|..
T Consensus        37 arlqLal~YL~~g--d~~~A~~nlekAL~~DPs--~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls---l~p~~GdVLNNY  109 (250)
T COG3063          37 ARLQLALGYLQQG--DYAQAKKNLEKALEHDPS--YYLAHLVRAHYYQKLGENDLADESYRKALS---LAPNNGDVLNNY  109 (250)
T ss_pred             HHHHHHHHHHHCC--CHHHHHHHHHHHHHhCcc--cHHHHHHHHHHHHHcCChhhHHHHHHHHHh---cCCCccchhhhh
Confidence            4566788888888  566666666666665554  777999999999999999999999999875   45554 466777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCC-CcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 027083          113 IYAFGKLKKTFEASRVFEHLVSLGVK-PNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMD  191 (228)
Q Consensus       113 i~~~~~~~~~~~a~~~~~~m~~~g~~-p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~  191 (228)
                      =--+|..|.+++|..-|++....-.- --..||..+--|..+.|+++.|.+.|++-.+..- -...+.-.+.+.....|+
T Consensus       110 G~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp-~~~~~~l~~a~~~~~~~~  188 (250)
T COG3063         110 GAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDP-QFPPALLELARLHYKAGD  188 (250)
T ss_pred             hHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCc-CCChHHHHHHHHHHhccc
Confidence            77789999999999999998765211 2356788888888999999999999998776431 123556677888889999


Q ss_pred             hhhHHHHHHHHHHcCCCcchhhHHHHHHH
Q 027083          192 EESNDRVEALAKKFDIRMNTENRKNILFN  220 (228)
Q Consensus       192 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~  220 (228)
                      .-.|...++.....+. ++.+.....|+-
T Consensus       189 y~~Ar~~~~~~~~~~~-~~A~sL~L~iri  216 (250)
T COG3063         189 YAPARLYLERYQQRGG-AQAESLLLGIRI  216 (250)
T ss_pred             chHHHHHHHHHHhccc-ccHHHHHHHHHH
Confidence            9999999988877776 788877766653

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

Probab=97.92  E-value=0.0071  Score=50.25  Aligned_cols=172  Identities=13%  Similarity=0.097  Sum_probs=124.0

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++++|+..|-++....          ..+..+...+.+.|--..  +.+.+...+++.-...|.  |..+..-|-..|
T Consensus       537 ~~~ldeald~f~klh~il----------~nn~evl~qianiye~le--d~aqaie~~~q~~slip~--dp~ilskl~dly  602 (840)
T KOG2003|consen  537 LGNLDEALDCFLKLHAIL----------LNNAEVLVQIANIYELLE--DPAQAIELLMQANSLIPN--DPAILSKLADLY  602 (840)
T ss_pred             hcCHHHHHHHHHHHHHHH----------HhhHHHHHHHHHHHHHhh--CHHHHHHHHHHhcccCCC--CHHHHHHHHHHh
Confidence            478899999888775441          111223344555554433  456665555544333332  778888888999


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHH-ccCCHHH
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHL-TNRDQKA  159 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~-~~g~~~~  159 (228)
                      -+.||-..|.+.+-+--+  =++.|..|.-=|-.-|...--+++|...|+...-  +.|+.+-|-.||.+|. |.|+..+
T Consensus       603 dqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsgnyqk  678 (840)
T KOG2003|consen  603 DQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSGNYQK  678 (840)
T ss_pred             hcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhcccHHH
Confidence            999999999988776544  3455677777677778888888999999987543  5799999999998776 5799999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 027083          160 ALSVIDEMVNAGFAPSKETLKKVRRRCVREMD  191 (228)
Q Consensus       160 a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~  191 (228)
                      |.+++++.++. +.-|.....-|++.+...|-
T Consensus       679 a~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  679 AFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            99999887753 56678888888888887764

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

Probab=97.91  E-value=0.00091  Score=53.11  Aligned_cols=170  Identities=11%  Similarity=0.037  Sum_probs=116.0

Q ss_pred             hhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHH-HHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCH
Q 027083           28 IFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAI-NCVILGCANIWDLDRAYQTFEAVGSSFGLTPDI  106 (228)
Q Consensus        28 ~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~  106 (228)
                      -++..+||--|-.+|-+..  ....++..+.+-....|   -.+|| .-+-..+-..++.++|.++++...+.  -..|+
T Consensus       252 q~~~~dTfllLskvY~rid--QP~~AL~~~~~gld~fP---~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~--~~~nv  324 (478)
T KOG1129|consen  252 QFPHPDTFLLLSKVYQRID--QPERALLVIGEGLDSFP---FDVTYLLGQARIHEAMEQQEDALQLYKLVLKL--HPINV  324 (478)
T ss_pred             cCCchhHHHHHHHHHHHhc--cHHHHHHHHhhhhhcCC---chhhhhhhhHHHHHHHHhHHHHHHHHHHHHhc--CCccc
Confidence            3456788988999999988  45566666555444444   34454 34445566778999999999998873  23355


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHH
Q 027083          107 HSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSK--ETLKKVRR  184 (228)
Q Consensus       107 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~t~~~li~  184 (228)
                      ...-++-..|.-.+.++-|.+.|+++.+-|+. ++..|+.+--+|.-.++++.++.-|++....--.|++  ..|-.|=.
T Consensus       325 EaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~  403 (478)
T KOG1129|consen  325 EAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGF  403 (478)
T ss_pred             eeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccce
Confidence            56666667788889999999999999999976 7778888777788888888888877776644333432  33444444


Q ss_pred             HHHhcCChhhHHHHHHHHHHc
Q 027083          185 RCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       185 ~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      .....|++..|.+.|+...-+
T Consensus       404 vaV~iGD~nlA~rcfrlaL~~  424 (478)
T KOG1129|consen  404 VAVTIGDFNLAKRCFRLALTS  424 (478)
T ss_pred             eEEeccchHHHHHHHHHHhcc
Confidence            444555555555555554443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.87  E-value=0.0035  Score=44.53  Aligned_cols=88  Identities=14%  Similarity=-0.012  Sum_probs=41.6

Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCH
Q 027083           78 LGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQ  157 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~  157 (228)
                      ..+...|++++|...|++....  -..+...|..+-.++.+.|++++|...|++..+.. ..+...+..+-.++.+.|+.
T Consensus        32 ~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~~  108 (144)
T PRK15359         32 YASWQEGDYSRAVIDFSWLVMA--QPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGEP  108 (144)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCH
Confidence            3344455555555555554431  12233344444445555555555555555554432 22444444444555555555


Q ss_pred             HHHHHHHHHHH
Q 027083          158 KAALSVIDEMV  168 (228)
Q Consensus       158 ~~a~~~~~~m~  168 (228)
                      ++|...|+...
T Consensus       109 ~eAi~~~~~Al  119 (144)
T PRK15359        109 GLAREAFQTAI  119 (144)
T ss_pred             HHHHHHHHHHH
Confidence            55555555443

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.86  E-value=0.0094  Score=50.98  Aligned_cols=222  Identities=14%  Similarity=0.074  Sum_probs=140.6

Q ss_pred             CccHHHHHHHHHHHHHHh-ccchhhhhhhhCc-chhHHHHHHHHHhhChh-c----HHHHHHHHhchhhcCCCCCCHHHH
Q 027083            1 MGDLQRAFITLNEFETAY-GDSIIDMEEIFSP-FTSLYPLVVACSRKGFE-T----LDSVYFQLENLSRAEPPYKSVAAI   73 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~-~~~~~~~~~~~~~-~~~~~~ll~~~~~~g~~-~----~~~~~~~~~~~~~~~~~~~~~~~~   73 (228)
                      .|+++.|+.+++.-.+.- ...+..    .+. ....+.+-..|...+.. +    ..+++...+...+...|. -..++
T Consensus       212 ~g~~e~A~~l~k~Al~~l~k~~G~~----hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~-va~~l  286 (508)
T KOG1840|consen  212 QGRLEKAEPLCKQALRILEKTSGLK----HLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPA-VAATL  286 (508)
T ss_pred             hccHHHHHHHHHHHHHHHHHccCcc----CHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHH-HHHHH
Confidence            378999999999866551 011100    000 11233455566666642 2    223333444444444432 45667


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhh----cCCC-CCCHH-hHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCc----
Q 027083           74 NCVILGCANIWDLDRAYQTFEAVGS----SFGL-TPDIH-SYNALIYAFGKLKKTFEASRVFEHLVSL---GVKPN----  140 (228)
Q Consensus        74 ~~ll~~~~~~~~~~~a~~~~~~m~~----~~~~-~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~p~----  140 (228)
                      +.|=..|.+.|++++|...+++..+    ..+. .|.+. -++.+...|+..+++++|..+++...+.   -+.++    
T Consensus       287 ~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~  366 (508)
T KOG1840|consen  287 NNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNL  366 (508)
T ss_pred             HHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHH
Confidence            7777789999999888777766432    1122 23333 4677778899999999999998865331   12233    


Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHC----CC--CCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHH----cC--C
Q 027083          141 AMSYSLLVDAHLTNRDQKAALSVIDEMVNA----GF--APS-KETLKKVRRRCVREMDEESNDRVEALAKK----FD--I  207 (228)
Q Consensus       141 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~--~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~----~g--~  207 (228)
                      .-+++.|=..|-..|++++|++++++....    +.  .+. ...++.+-..|.+.+..+.|.++|..-..    .|  .
T Consensus       367 a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~  446 (508)
T KOG1840|consen  367 AKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDH  446 (508)
T ss_pred             HHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCC
Confidence            467999999999999999999999987632    22  233 46777888889999999988888765443    22  2


Q ss_pred             CcchhhHHHHHHHHHhhhhc
Q 027083          208 RMNTENRKNILFNLEYSASY  227 (228)
Q Consensus       208 ~~~~~~~~~li~~l~~~~~~  227 (228)
                      +-...+|..|...+..++++
T Consensus       447 ~~~~~~~~nL~~~Y~~~g~~  466 (508)
T KOG1840|consen  447 PDVTYTYLNLAALYRAQGNY  466 (508)
T ss_pred             CchHHHHHHHHHHHHHcccH
Confidence            33456677777666666553

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

Probab=97.85  E-value=0.0024  Score=44.49  Aligned_cols=108  Identities=13%  Similarity=0.066  Sum_probs=86.0

Q ss_pred             CCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 027083          103 TPD-IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKK  181 (228)
Q Consensus       103 ~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~  181 (228)
                      .|+ ......+...+.+.|++++|...|+.....+ ..+...|..+-.++.+.|++++|..+++.....+ ..+..++..
T Consensus        13 ~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~   90 (135)
T TIGR02552        13 DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFH   90 (135)
T ss_pred             ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHH
Confidence            443 3445666778899999999999999988765 3478888899999999999999999999877654 345677777


Q ss_pred             HHHHHHhcCChhhHHHHHHHHHHcCCCcchhhH
Q 027083          182 VRRRCVREMDEESNDRVEALAKKFDIRMNTENR  214 (228)
Q Consensus       182 li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  214 (228)
                      +-..+...|+.+.|...+....+..  |+...+
T Consensus        91 la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~  121 (135)
T TIGR02552        91 AAECLLALGEPESALKALDLAIEIC--GENPEY  121 (135)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhc--cccchH
Confidence            7788999999999999999888865  444443

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

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

Probab=97.84  E-value=0.0016  Score=46.29  Aligned_cols=126  Identities=13%  Similarity=0.076  Sum_probs=78.5

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHh-HHH--HHHHHHhcCCHHHHHHHHHHHHhCCCCCc--HhhHH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHS-YNA--LIYAFGKLKKTFEASRVFEHLVSLGVKPN--AMSYS  145 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~-~~~--li~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~t~~  145 (228)
                      ..|..++..+. .++...+...++.+.++  ...+.+. .-.  +-+.+...|++++|...|+........|+  ....-
T Consensus        13 ~~y~~~~~~~~-~~~~~~~~~~~~~l~~~--~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l   89 (145)
T PF09976_consen   13 ALYEQALQALQ-AGDPAKAEAAAEQLAKD--YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARL   89 (145)
T ss_pred             HHHHHHHHHHH-CCCHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHH
Confidence            45666666663 77777777778887764  2222122 222  33567777888888888888777652222  22344


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHH
Q 027083          146 LLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEAL  201 (228)
Q Consensus       146 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~  201 (228)
                      .|-..+...|++++|...++......+  ....+...=+.+.+.|+.++|...|..
T Consensus        90 ~LA~~~~~~~~~d~Al~~L~~~~~~~~--~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   90 RLARILLQQGQYDEALATLQQIPDEAF--KALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhccCcch--HHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            566677778888888888765433332  233444555677788888888877764

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

Probab=97.84  E-value=0.0094  Score=47.39  Aligned_cols=156  Identities=11%  Similarity=0.001  Sum_probs=100.4

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCC--CC-HHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPY--KS-VAAINCVI   77 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~--~~-~~~~~~ll   77 (228)
                      +|-+|+|+.+|..+.+......          ...-.|+..|-+..  ++.++....++.....+-.  .. ...|+-+-
T Consensus       120 aGl~DRAE~~f~~L~de~efa~----------~AlqqLl~IYQ~tr--eW~KAId~A~~L~k~~~q~~~~eIAqfyCELA  187 (389)
T COG2956         120 AGLLDRAEDIFNQLVDEGEFAE----------GALQQLLNIYQATR--EWEKAIDVAERLVKLGGQTYRVEIAQFYCELA  187 (389)
T ss_pred             hhhhhHHHHHHHHHhcchhhhH----------HHHHHHHHHHHHhh--HHHHHHHHHHHHHHcCCccchhHHHHHHHHHH
Confidence            4778888888888877522111          12345777777766  4555544444333322210  01 22344444


Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHH-HHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCC
Q 027083           78 LGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALI-YAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRD  156 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li-~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~  156 (228)
                      ..+....+++.|..++.....   ..|+.+--++++ +.+...|+++.|.+.++...+.+..--+.+-..|..+|...|+
T Consensus       188 q~~~~~~~~d~A~~~l~kAlq---a~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~  264 (389)
T COG2956         188 QQALASSDVDRARELLKKALQ---ADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGK  264 (389)
T ss_pred             HHHhhhhhHHHHHHHHHHHHh---hCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCC
Confidence            444455678888888877654   245555445555 5678888999999998888877666667778888889999999


Q ss_pred             HHHHHHHHHHHHHCC
Q 027083          157 QKAALSVIDEMVNAG  171 (228)
Q Consensus       157 ~~~a~~~~~~m~~~g  171 (228)
                      +++....+.++.+..
T Consensus       265 ~~~~~~fL~~~~~~~  279 (389)
T COG2956         265 PAEGLNFLRRAMETN  279 (389)
T ss_pred             HHHHHHHHHHHHHcc
Confidence            888888888777643

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

Probab=97.83  E-value=0.0032  Score=47.34  Aligned_cols=134  Identities=9%  Similarity=0.017  Sum_probs=90.6

Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHH-HccCC--HHH
Q 027083           83 IWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAH-LTNRD--QKA  159 (228)
Q Consensus        83 ~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~-~~~g~--~~~  159 (228)
                      .++.+++...++...+.  -..|...|..+-..|...|++++|...|++..+... -+...+..+-.++ .+.|+  .++
T Consensus        52 ~~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P-~~~~~~~~lA~aL~~~~g~~~~~~  128 (198)
T PRK10370         52 QQTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRG-ENAELYAALATVLYYQAGQHMTPQ  128 (198)
T ss_pred             chhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCCCcHH
Confidence            55666776666666652  345666777777888888888888888888777642 2666666666653 56666  488


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHH
Q 027083          160 ALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLE  222 (228)
Q Consensus       160 a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~  222 (228)
                      |.+++++..+..- -+..++..+-..+...|++++|...++.+.+..-. +..-+ .+|.+.+
T Consensus       129 A~~~l~~al~~dP-~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~-~~~r~-~~i~~i~  188 (198)
T PRK10370        129 TREMIDKALALDA-NEVTALMLLASDAFMQADYAQAIELWQKVLDLNSP-RVNRT-QLVESIN  188 (198)
T ss_pred             HHHHHHHHHHhCC-CChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CccHH-HHHHHHH
Confidence            8888887776432 24566667777778888888888888888775543 34333 3445543

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

Probab=97.83  E-value=0.005  Score=47.32  Aligned_cols=130  Identities=12%  Similarity=0.022  Sum_probs=103.6

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +...-+.........|++..|...|.+...  .-.||...||.+=-+|-+.|++++|..-|.+..+... -+....|.|-
T Consensus        99 d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~-~~p~~~nNlg  175 (257)
T COG5010          99 DRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELAP-NEPSIANNLG  175 (257)
T ss_pred             cHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhcc-CCchhhhhHH
Confidence            666666678888899999999999999886  5678899999999999999999999999988776533 3566677777


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALA  202 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m  202 (228)
                      -.+.-.|+.+.|..++..-...+-. |...-..+.......|+++.|+.+...-
T Consensus       176 ms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~~~e  228 (257)
T COG5010         176 MSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIAVQE  228 (257)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhcccc
Confidence            7788889999999999887776533 4455555777778889999998876543

>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=97.82  E-value=0.00081  Score=42.62  Aligned_cols=92  Identities=23%  Similarity=0.131  Sum_probs=52.8

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHc
Q 027083           74 NCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLT  153 (228)
Q Consensus        74 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~  153 (228)
                      ..+-..+...|++++|...+++..+.  ...+...+..+-..+...+++++|.+.++...+.. ..+..++..+...+..
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            33444555566666677666666542  12233455556666666666666666666655543 2233455666666666


Q ss_pred             cCCHHHHHHHHHHHH
Q 027083          154 NRDQKAALSVIDEMV  168 (228)
Q Consensus       154 ~g~~~~a~~~~~~m~  168 (228)
                      .|+.+.|...+....
T Consensus        81 ~~~~~~a~~~~~~~~   95 (100)
T cd00189          81 LGKYEEALEAYEKAL   95 (100)
T ss_pred             HHhHHHHHHHHHHHH
Confidence            666666666665544

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.82  E-value=0.0022  Score=45.54  Aligned_cols=109  Identities=14%  Similarity=0.000  Sum_probs=83.8

Q ss_pred             HHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 027083           91 QTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNA  170 (228)
Q Consensus        91 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  170 (228)
                      .++++..+   +.|+.  +..+-..+...|++++|...|+...... ..+...|..+-.++.+.|++++|...|+.....
T Consensus        14 ~~~~~al~---~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         14 DILKQLLS---VDPET--VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHH---cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            34444443   34553  4456677888999999999999988765 347888888888999999999999999988864


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          171 GFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       171 g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      . ..+...+..+-.++...|+.++|...+....+..
T Consensus        88 ~-p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359         88 D-ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             C-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            3 3366778888888889999999999998887744

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

Probab=97.79  E-value=0.0048  Score=46.34  Aligned_cols=128  Identities=13%  Similarity=0.155  Sum_probs=95.9

Q ss_pred             HHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHH-HHhcCC--HHHHHH
Q 027083           51 DSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYA-FGKLKK--TFEASR  127 (228)
Q Consensus        51 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~-~~~~~~--~~~a~~  127 (228)
                      .+....+.......+.  |...|..+-..|...|+.++|...|++..+-  -.-|...+..+-.+ +...|+  .++|.+
T Consensus        56 ~~~i~~l~~~L~~~P~--~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~A~~  131 (198)
T PRK10370         56 EAQLQALQDKIRANPQ--NSEQWALLGEYYLWRNDYDNALLAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQTRE  131 (198)
T ss_pred             HHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            3444444444443443  8889999999999999999999999998862  22356677777776 467777  599999


Q ss_pred             HHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 027083          128 VFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRR  185 (228)
Q Consensus       128 ~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  185 (228)
                      ++++..+.... +...+..+-..+.+.|++++|...++.+.+.. .|+..-+. +|++
T Consensus       132 ~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~-~~~~~r~~-~i~~  186 (198)
T PRK10370        132 MIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDLN-SPRVNRTQ-LVES  186 (198)
T ss_pred             HHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCccHHH-HHHH
Confidence            99999887643 77888999999999999999999999987654 45554444 3354

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

Probab=97.71  E-value=0.018  Score=47.01  Aligned_cols=117  Identities=9%  Similarity=-0.023  Sum_probs=72.3

Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCH-HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHH
Q 027083           84 WDLDRAYQTFEAVGSSFGLTPDI-HSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALS  162 (228)
Q Consensus        84 ~~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~  162 (228)
                      +..+.+.+.+..  . ....|+. .....+-..+...|++++|...+++..+.. +.+...+..+-..+...|++++|.+
T Consensus        94 ~~~~~~~~~l~~--~-~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~  169 (355)
T cd05804          94 GMRDHVARVLPL--W-APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIA  169 (355)
T ss_pred             cCchhHHHHHhc--c-CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHH
Confidence            444445544443  1 1233333 333445566777888888888888877654 2345566777777778888888888


Q ss_pred             HHHHHHHCCC-CCCH--HHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          163 VIDEMVNAGF-APSK--ETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       163 ~~~~m~~~g~-~p~~--~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      .+++.....- .|+.  ..|..+...+...|+.++|..+++....
T Consensus       170 ~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~  214 (355)
T cd05804         170 FMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIA  214 (355)
T ss_pred             HHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            8777654321 2332  2344566677777888888888877643

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.

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

Probab=97.71  E-value=0.026  Score=50.43  Aligned_cols=194  Identities=11%  Similarity=0.032  Sum_probs=140.8

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|..++.+..+..          +.....|.+|-..|=+.|  +..+.+.......- ..|. |...|-.+=....
T Consensus       153 g~~eeA~~i~~EvIkqd----------p~~~~ay~tL~~IyEqrG--d~eK~l~~~llAAH-L~p~-d~e~W~~ladls~  218 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQD----------PRNPIAYYTLGEIYEQRG--DIEKALNFWLLAAH-LNPK-DYELWKRLADLSE  218 (895)
T ss_pred             CCHHHHHHHHHHHHHhC----------ccchhhHHHHHHHHHHcc--cHHHHHHHHHHHHh-cCCC-ChHHHHHHHHHHH
Confidence            78899999999887762          223457899999999999  45555444332222 2222 6678888888888


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC----cHhhHHHHHHHHHccCCH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKP----NAMSYSLLVDAHLTNRDQ  157 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p----~~~t~~~li~~~~~~g~~  157 (228)
                      +.|+++.|.-.|.+..+.  -+++...+=--...|-+.|+...|+.-|.++.+....-    ...+--.+++.+...++-
T Consensus       219 ~~~~i~qA~~cy~rAI~~--~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~  296 (895)
T KOG2076|consen  219 QLGNINQARYCYSRAIQA--NPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNER  296 (895)
T ss_pred             hcccHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHH
Confidence            999999999999999873  34566666667788999999999999999998763211    233344556777778888


Q ss_pred             HHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcch
Q 027083          158 KAALSVIDEMVNA-GFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNT  211 (228)
Q Consensus       158 ~~a~~~~~~m~~~-g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~  211 (228)
                      +.|.+.+..-... +-..+...++.+...|......+.+......+......+|.
T Consensus       297 e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~  351 (895)
T KOG2076|consen  297 ERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDD  351 (895)
T ss_pred             HHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCCh
Confidence            8898888876653 33456677888888888888888888887777764333333

>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=97.68  E-value=0.0015  Score=41.28  Aligned_cols=95  Identities=17%  Similarity=0.058  Sum_probs=76.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 027083          109 YNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVR  188 (228)
Q Consensus       109 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~  188 (228)
                      +..+...+...|++++|...+++..+.. ..+...+..+-..+...|++++|.+.++...... ..+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            5566778888999999999999987763 2345778888889999999999999999877654 2344678888889999


Q ss_pred             cCChhhHHHHHHHHHHc
Q 027083          189 EMDEESNDRVEALAKKF  205 (228)
Q Consensus       189 ~~~~~~a~~~~~~m~~~  205 (228)
                      .|+.+.|...+....+.
T Consensus        81 ~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          81 LGKYEEALEAYEKALEL   97 (100)
T ss_pred             HHhHHHHHHHHHHHHcc
Confidence            99999999988877653

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.67  E-value=0.026  Score=50.43  Aligned_cols=143  Identities=10%  Similarity=-0.009  Sum_probs=98.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHH-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIH-SYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLL  147 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~l  147 (228)
                      +...+-.|-......|..++|..+++....   +.||.. ....+...+.+.+.+++|....++..+... -+....+.+
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~---~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p-~~~~~~~~~  160 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQ---RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGS-SSAREILLE  160 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHh---hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCC-CCHHHHHHH
Confidence            456666666777777888888888888765   456544 566677778888888888888888776532 244455666


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHH
Q 027083          148 VDAHLTNRDQKAALSVIDEMVNAGFAPS-KETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNIL  218 (228)
Q Consensus       148 i~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  218 (228)
                      -.++.+.|+.++|.++|++....  .|+ ..++..+-.++-..|+.++|...++...+..-. ....|+..+
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~--~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~-~~~~~~~~~  229 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQ--HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGD-GARKLTRRL  229 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCc-chHHHHHHH
Confidence            66677778888888888887762  233 567777777777888888888888777664332 334444443

>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=97.66  E-value=0.0013  Score=45.47  Aligned_cols=98  Identities=15%  Similarity=0.103  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHH
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVD  149 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~  149 (228)
                      ..++..+|.+++..|+++....+.+..   .|+.++...=.         +.         .-..+...|+..+-.+++.
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~---WgI~~~~~~~~---------~~---------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSV---WGIDVNGKKKE---------GD---------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHh---cCCCCCCcccc---------Cc---------cCCCCCCCCCHHHHHHHHH
Confidence            456777777777777777777766543   34433321000         00         1123455677777777777


Q ss_pred             HHHccCCHHHHHHHHHHHH-HCCCCCCHHHHHHHHHHHHh
Q 027083          150 AHLTNRDQKAALSVIDEMV-NAGFAPSKETLKKVRRRCVR  188 (228)
Q Consensus       150 ~~~~~g~~~~a~~~~~~m~-~~g~~p~~~t~~~li~~~~~  188 (228)
                      +|+..|++..|+++++... ..++.-+..+|..|++-+..
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            7777777777777777654 44666667777777765443

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

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.58  E-value=0.0015  Score=45.18  Aligned_cols=99  Identities=15%  Similarity=0.125  Sum_probs=66.7

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 027083          105 DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRR  184 (228)
Q Consensus       105 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~  184 (228)
                      |..++.++|-++++.|+++....+.+..-  |+.++.         -...+.         --......|+..+..+++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~---------~~~~~~---------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNG---------KKKEGD---------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCC---------ccccCc---------cCCCCCCCCCHHHHHHHHH
Confidence            34566667777777777666666665432  222111         000010         1134568999999999999


Q ss_pred             HHHhcCChhhHHHHHHHHHH-cCCCcchhhHHHHHHHHHh
Q 027083          185 RCVREMDEESNDRVEALAKK-FDIRMNTENRKNILFNLEY  223 (228)
Q Consensus       185 ~~~~~~~~~~a~~~~~~m~~-~g~~~~~~~~~~li~~l~~  223 (228)
                      +|+.++++..|.++.+...+ .++..+...+..|+.-...
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            99999999999999877764 7888888888888764443

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

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

Probab=97.55  E-value=0.0035  Score=53.91  Aligned_cols=127  Identities=17%  Similarity=0.106  Sum_probs=70.6

Q ss_pred             cchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHH
Q 027083           31 PFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYN  110 (228)
Q Consensus        31 ~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~  110 (228)
                      ...+|.++-++|+-.+  +...++..+.+.....+-  ..++|+.+=+-+....++|.|...|.....     .|...||
T Consensus       420 sPesWca~GNcfSLQk--dh~~Aik~f~RAiQldp~--faYayTLlGhE~~~~ee~d~a~~~fr~Al~-----~~~rhYn  490 (638)
T KOG1126|consen  420 SPESWCALGNCFSLQK--DHDTAIKCFKRAIQLDPR--FAYAYTLLGHESIATEEFDKAMKSFRKALG-----VDPRHYN  490 (638)
T ss_pred             CcHHHHHhcchhhhhh--HHHHHHHHHHHhhccCCc--cchhhhhcCChhhhhHHHHhHHHHHHhhhc-----CCchhhH
Confidence            3568999999999888  455555555544332222  567777777777777777777777765433     4555555


Q ss_pred             HHHH---HHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHH
Q 027083          111 ALIY---AFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEM  167 (228)
Q Consensus       111 ~li~---~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m  167 (228)
                      ++-.   .|.|.+.++.|+-.|+....-+.. +.+.--.+...+-+.|+.++|++++++.
T Consensus       491 AwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A  549 (638)
T KOG1126|consen  491 AWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKA  549 (638)
T ss_pred             HHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHH
Confidence            5442   355555555555555554433211 2233333333333444444444444443

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

Probab=97.52  E-value=0.034  Score=47.25  Aligned_cols=132  Identities=14%  Similarity=0.039  Sum_probs=109.6

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +.+|...|+.--+...++.|+.+|.+..+. +..+ .+++++++|.-||. ++..-|.++|+-=.+. +.-++.--+..+
T Consensus       366 tLv~~~~mn~irR~eGlkaaR~iF~kaR~~-~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk-f~d~p~yv~~Yl  442 (656)
T KOG1914|consen  366 TLVYCQYMNFIRRAEGLKAARKIFKKARED-KRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKK-FGDSPEYVLKYL  442 (656)
T ss_pred             ceehhHHHHHHHHhhhHHHHHHHHHHHhhc-cCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHh-cCCChHHHHHHH
Confidence            458999999999999999999999999996 7777 89999999998886 5678899999863332 223445557788


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSK--ETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      +-+..-++-..+..+|+.....++.||.  ..|..+|+-=+..|++..+..+-+++..
T Consensus       443 dfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  443 DFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            8888889999999999999988777765  8999999999999999999888766653

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.51  E-value=0.026  Score=43.36  Aligned_cols=152  Identities=16%  Similarity=0.066  Sum_probs=106.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCH----HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHh--
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDI----HSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAM--  142 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~--  142 (228)
                      ....+-.+...+...|+.+.|...|++....   .|+.    ..+..+-.++.+.|++++|...++++.+..  |+..  
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~  106 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESR---YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH--PNHPDA  106 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCch
Confidence            5667777888889999999999999999763   2332    366777889999999999999999998753  3322  


Q ss_pred             --hHHHHHHHHHcc--------CCHHHHHHHHHHHHHCCCCCCH-HHH-----------------HHHHHHHHhcCChhh
Q 027083          143 --SYSLLVDAHLTN--------RDQKAALSVIDEMVNAGFAPSK-ETL-----------------KKVRRRCVREMDEES  194 (228)
Q Consensus       143 --t~~~li~~~~~~--------g~~~~a~~~~~~m~~~g~~p~~-~t~-----------------~~li~~~~~~~~~~~  194 (228)
                        ++..+-.++...        |+.++|.+.|+...+..  |+. ..+                 ..+-..+.+.|+.+.
T Consensus       107 ~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~  184 (235)
T TIGR03302       107 DYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVA  184 (235)
T ss_pred             HHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHH
Confidence              344444444433        77899999999987643  332 111                 123456778899999


Q ss_pred             HHHHHHHHHHcCC--CcchhhHHHHHHHHHhhhhc
Q 027083          195 NDRVEALAKKFDI--RMNTENRKNILFNLEYSASY  227 (228)
Q Consensus       195 a~~~~~~m~~~g~--~~~~~~~~~li~~l~~~~~~  227 (228)
                      |...+....+..-  ......+..+..++.-+++|
T Consensus       185 A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~  219 (235)
T TIGR03302       185 AINRFETVVENYPDTPATEEALARLVEAYLKLGLK  219 (235)
T ss_pred             HHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCH
Confidence            9999998887532  22345666666666655544

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).

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.48  E-value=0.0089  Score=40.29  Aligned_cols=99  Identities=18%  Similarity=0.044  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CcHhhHHHHH
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGL-TPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVK--PNAMSYSLLV  148 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--p~~~t~~~li  148 (228)
                      ++-.+...+.+.|+.++|...|+++.....- ......+..+-..+.+.|+++.|...|+........  .....+..+-
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            3444555566667777777777777653110 111234445666677777777777777766543211  1134455556


Q ss_pred             HHHHccCCHHHHHHHHHHHHHC
Q 027083          149 DAHLTNRDQKAALSVIDEMVNA  170 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~  170 (228)
                      .++.+.|+.++|.+.+++..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            6666677777777777766654

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.

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

Probab=97.46  E-value=0.011  Score=49.28  Aligned_cols=127  Identities=13%  Similarity=0.064  Sum_probs=97.8

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHH-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-HhhHHHH
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIH-SYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN-AMSYSLL  147 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~t~~~l  147 (228)
                      ..-|...+..| ..|+.++|+..++...+.   .||.. -.....+.+.+.++.++|.+.++.+...  .|+ ...+-.+
T Consensus       307 aa~YG~A~~~~-~~~~~d~A~~~l~~L~~~---~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~  380 (484)
T COG4783         307 AAQYGRALQTY-LAGQYDEALKLLQPLIAA---QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNL  380 (484)
T ss_pred             HHHHHHHHHHH-HhcccchHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHH
Confidence            44555555544 568999999999998863   45555 4455567899999999999999998876  566 6667777


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 027083          148 VDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAK  203 (228)
Q Consensus       148 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~  203 (228)
                      -.++.+.|++.+|..++++.... .+-|...|..|-++|...|+..++.....+..
T Consensus       381 a~all~~g~~~eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~  435 (484)
T COG4783         381 AQALLKGGKPQEAIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARAEGY  435 (484)
T ss_pred             HHHHHhcCChHHHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            88899999999999999877654 35578999999999998888777766554443

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.43  E-value=0.042  Score=43.98  Aligned_cols=126  Identities=17%  Similarity=0.074  Sum_probs=89.4

Q ss_pred             hHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC-HHhHHHH
Q 027083           34 SLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD-IHSYNAL  112 (228)
Q Consensus        34 ~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~l  112 (228)
                      .|..+-..|.+.|.  ...+...+.+.....|.  +...|+.+-..+...|+.++|...|++..+   +.|+ ...|..+
T Consensus        66 ~~~~~g~~~~~~g~--~~~A~~~~~~Al~l~P~--~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~---l~P~~~~a~~~l  138 (296)
T PRK11189         66 LHYERGVLYDSLGL--RALARNDFSQALALRPD--MADAYNYLGIYLTQAGNFDAAYEAFDSVLE---LDPTYNYAYLNR  138 (296)
T ss_pred             HHHHHHHHHHHCCC--HHHHHHHHHHHHHcCCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHH
Confidence            35666667777774  44444445544444443  678899999999999999999999999876   3454 5677888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 027083          113 IYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       113 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      -..+...|++++|.+.|+...+.  .|+..............+++++|.+.|.+..
T Consensus       139 g~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        139 GIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            88889999999999999998765  3543322222223445678999999997654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.41  E-value=0.013  Score=39.45  Aligned_cols=98  Identities=14%  Similarity=0.020  Sum_probs=78.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc----HhhHHHHHHHHHccCCHHHHHHHHHHHHHCC--CCCCHHHHHH
Q 027083          108 SYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN----AMSYSLLVDAHLTNRDQKAALSVIDEMVNAG--FAPSKETLKK  181 (228)
Q Consensus       108 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~t~~~  181 (228)
                      ++-.+...+.+.|++++|.+.|+.+.+..  |+    ...+..+-.++.+.|+++.|.+.|+......  ......++..
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~   81 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKY--PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLK   81 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHH
Confidence            45666778889999999999999998653  33    3567778899999999999999999988642  1122466777


Q ss_pred             HHHHHHhcCChhhHHHHHHHHHHcCC
Q 027083          182 VRRRCVREMDEESNDRVEALAKKFDI  207 (228)
Q Consensus       182 li~~~~~~~~~~~a~~~~~~m~~~g~  207 (228)
                      +..++...|+.+.|...+..+.+..-
T Consensus        82 ~~~~~~~~~~~~~A~~~~~~~~~~~p  107 (119)
T TIGR02795        82 LGMSLQELGDKEKAKATLQQVIKRYP  107 (119)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHHHCc
Confidence            78889999999999999999988753

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.

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

Probab=97.41  E-value=0.05  Score=44.42  Aligned_cols=98  Identities=15%  Similarity=0.049  Sum_probs=74.4

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCcH--hhHHH
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGV-KPNA--MSYSL  146 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~~--~t~~~  146 (228)
                      ......+-..+...|++++|...+++....  .+.+...+..+-..|...|++++|...+++...... .|+.  ..|..
T Consensus       114 ~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~  191 (355)
T cd05804         114 WYLLGMLAFGLEEAGQYDRAEEAARRALEL--NPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWH  191 (355)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHH
Confidence            334444555677899999999999999873  234456777888899999999999999998776432 2332  34567


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHH
Q 027083          147 LVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       147 li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      +-..+...|+.++|.+++++...
T Consensus       192 la~~~~~~G~~~~A~~~~~~~~~  214 (355)
T cd05804         192 LALFYLERGDYEAALAIYDTHIA  214 (355)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHhc
Confidence            88889999999999999998754

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.

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

Probab=97.40  E-value=0.0018  Score=50.50  Aligned_cols=32  Identities=25%  Similarity=0.199  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 027083          160 ALSVIDEMVNAGFAPSKETLKKVRRRCVREMD  191 (228)
Q Consensus       160 a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~  191 (228)
                      +.+++++|...|+-||..+-..|+++|.+-+.
T Consensus       142 ~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  142 AIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            55666666666666666666666666666544

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

Probab=97.40  E-value=0.014  Score=41.39  Aligned_cols=128  Identities=16%  Similarity=0.071  Sum_probs=83.4

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHH--hH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYK-SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIH--SY  109 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~--~~  109 (228)
                      ..|..++..+.+.+.   ...-..+..+....+..+ .....-.+-..+...|++++|...|+..... ...|+..  ..
T Consensus        13 ~~y~~~~~~~~~~~~---~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~   88 (145)
T PF09976_consen   13 ALYEQALQALQAGDP---AKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLAR   88 (145)
T ss_pred             HHHHHHHHHHHCCCH---HHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHH
Confidence            357777777754442   222222333333333210 1122222336677899999999999999985 4333222  33


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHH
Q 027083          110 NALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDE  166 (228)
Q Consensus       110 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~  166 (228)
                      -.+-..+...|++++|...++......  .....+...=+.+.+.|+.++|...|+.
T Consensus        89 l~LA~~~~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   89 LRLARILLQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            445678889999999999997754433  3556677888889999999999999875

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

Probab=97.39  E-value=0.0067  Score=48.17  Aligned_cols=144  Identities=14%  Similarity=0.089  Sum_probs=99.4

Q ss_pred             hHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHH
Q 027083           34 SLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALI  113 (228)
Q Consensus        34 ~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li  113 (228)
                      +|..+|+..-+.+-  ...+-..+.+..........++...++|..++ .++.+.|..||+...+.  +..+...|..-|
T Consensus         3 v~i~~m~~~~r~~g--~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~-~~d~~~A~~Ife~glk~--f~~~~~~~~~Y~   77 (280)
T PF05843_consen    3 VWIQYMRFMRRTEG--IEAARKVFKRARKDKRCTYHVYVAYALMEYYC-NKDPKRARKIFERGLKK--FPSDPDFWLEYL   77 (280)
T ss_dssp             HHHHHHHHHHHHHH--HHHHHHHHHHHHCCCCS-THHHHHHHHHHHHT-CS-HHHHHHHHHHHHHH--HTT-HHHHHHHH
T ss_pred             HHHHHHHHHHHhCC--hHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH--CCCCHHHHHHHH
Confidence            57788888888773  44444444444443333335555555554432 46778899999999884  677888899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCcH----hhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 027083          114 YAFGKLKKTFEASRVFEHLVSLGVKPNA----MSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRC  186 (228)
Q Consensus       114 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~  186 (228)
                      +.+.+.++.+.|..+|++....  .|..    ..|...++-=.+.|+.+.+..+.+++.+.  .|+..++..+++-|
T Consensus        78 ~~l~~~~d~~~aR~lfer~i~~--l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~ry  150 (280)
T PF05843_consen   78 DFLIKLNDINNARALFERAISS--LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDRY  150 (280)
T ss_dssp             HHHHHTT-HHHHHHHHHHHCCT--SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCCT
T ss_pred             HHHHHhCcHHHHHHHHHHHHHh--cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHHh
Confidence            9999999999999999998765  3333    48999999999999999999999888863  45555555554433

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.

>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=97.38  E-value=0.075  Score=45.88  Aligned_cols=135  Identities=13%  Similarity=0.051  Sum_probs=104.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcC-------------CCCCCHHhH--HHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSF-------------GLTPDIHSY--NALIYAFGKLKKTFEASRVFEHLVSLG  136 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-------------~~~p~~~~~--~~li~~~~~~~~~~~a~~~~~~m~~~g  136 (228)
                      +|+.+-..|......+-..+++.......             .-.|+...|  .-+-..|-..|+.++|....++.... 
T Consensus       145 lF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h-  223 (517)
T PF12569_consen  145 LFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH-  223 (517)
T ss_pred             HHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc-
Confidence            77778777776666666666666654321             123455445  44456788999999999999998876 


Q ss_pred             CCCc-HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCc
Q 027083          137 VKPN-AMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRM  209 (228)
Q Consensus       137 ~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~  209 (228)
                       .|+ +..|.+--..+-+.|++++|.+.++..+... .-|...=+.....+.|.|++++|..++....+.+..|
T Consensus       224 -tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~  295 (517)
T PF12569_consen  224 -TPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDP  295 (517)
T ss_pred             -CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCc
Confidence             455 6778888899999999999999999888654 3477777788889999999999999999999888744

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 [], [].

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.38  E-value=0.012  Score=42.79  Aligned_cols=62  Identities=6%  Similarity=-0.059  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCC--CHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTP--DIHSYNALIYAFGKLKKTFEASRVFEHLVS  134 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  134 (228)
                      .|..+...+...|++++|...|++.... ...|  ...++..+-..|.+.|++++|...++...+
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l-~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRL-EIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc-cccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3344444444445555555555554431 1111  112444444445555555555555544443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.38  E-value=0.046  Score=48.92  Aligned_cols=143  Identities=12%  Similarity=0.010  Sum_probs=108.5

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHH-hHH
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIH-SYN  110 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~-~~~  110 (228)
                      ...+-.|-....+.|+  ..++...+.......|-  +....-.+...+.+.+++++|+...++....   .|+.. ..+
T Consensus        86 ~~~~~~La~i~~~~g~--~~ea~~~l~~~~~~~Pd--~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~---~p~~~~~~~  158 (694)
T PRK15179         86 ELFQVLVARALEAAHR--SDEGLAVWRGIHQRFPD--SSEAFILMLRGVKRQQGIEAGRAEIELYFSG---GSSSAREIL  158 (694)
T ss_pred             HHHHHHHHHHHHHcCC--cHHHHHHHHHHHhhCCC--cHHHHHHHHHHHHHhccHHHHHHHHHHHhhc---CCCCHHHHH
Confidence            4556667777777774  55555566665554554  7778888889999999999999999999863   56555 556


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 027083          111 ALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVR  183 (228)
Q Consensus       111 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li  183 (228)
                      .+=.++.+.|+.++|..+|++....+ .-+..++..+=.++-+.|+.++|...|+...+. ..|....|+..+
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~~~  229 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA-IGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-hCcchHHHHHHH
Confidence            66678899999999999999998743 234788888899999999999999999987754 234555555444

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

Probab=97.37  E-value=0.02  Score=44.42  Aligned_cols=150  Identities=18%  Similarity=0.125  Sum_probs=96.7

Q ss_pred             HHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHH----
Q 027083           41 ACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAF----  116 (228)
Q Consensus        41 ~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~----  116 (228)
                      .|+..|  +..+++......   .    +....-.=...+.+...++.|....+.|..-    -+..|.+.|-+++    
T Consensus       117 i~~~~~--~~deAl~~~~~~---~----~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i----ded~tLtQLA~awv~la  183 (299)
T KOG3081|consen  117 IYMHDG--DFDEALKALHLG---E----NLEAAALNVQILLKMHRFDLAEKELKKMQQI----DEDATLTQLAQAWVKLA  183 (299)
T ss_pred             HhhcCC--ChHHHHHHHhcc---c----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc----chHHHHHHHHHHHHHHh
Confidence            345555  455555554431   1    2333333345556777888999999998863    3556666554444    


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHHhcCChhhH
Q 027083          117 GKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVR-RRCVREMDEESN  195 (228)
Q Consensus       117 ~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li-~~~~~~~~~~~a  195 (228)
                      .-.+.+.+|.-+|++|-.+ ..|++.+-|....++...|++++|..++++.....-+ |..|...+| .+.-...+.+..
T Consensus       184 ~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~  261 (299)
T KOG3081|consen  184 TGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVT  261 (299)
T ss_pred             ccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHH
Confidence            4446789999999998653 4789999999999999999999999999888765433 344444444 444444444555


Q ss_pred             HHHHHHHHHc
Q 027083          196 DRVEALAKKF  205 (228)
Q Consensus       196 ~~~~~~m~~~  205 (228)
                      .+....+...
T Consensus       262 ~r~l~QLk~~  271 (299)
T KOG3081|consen  262 ERNLSQLKLS  271 (299)
T ss_pred             HHHHHHHHhc
Confidence            5666665553

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

Probab=97.34  E-value=0.00055  Score=43.74  Aligned_cols=81  Identities=16%  Similarity=0.114  Sum_probs=37.1

Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHH
Q 027083           83 IWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALS  162 (228)
Q Consensus        83 ~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~  162 (228)
                      .|+.+.|..+|+++.......|+...+-.+-.+|.+.|++++|..+++. ...+. .+....-.+-.+|.+.|++++|.+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            3555666666666554311112233333355566666666666666655 21111 122222233455555666666665


Q ss_pred             HHH
Q 027083          163 VID  165 (228)
Q Consensus       163 ~~~  165 (228)
                      +|+
T Consensus        80 ~l~   82 (84)
T PF12895_consen   80 ALE   82 (84)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            554

>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=97.33  E-value=0.017  Score=47.93  Aligned_cols=121  Identities=17%  Similarity=0.068  Sum_probs=91.2

Q ss_pred             HHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHH
Q 027083           37 PLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAF  116 (228)
Q Consensus        37 ~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~  116 (228)
                      +|+..+...++  ...+...++++....+   +  ..-.+...+...++-.+|.++.++..++  .+-|....+.-.+.|
T Consensus       174 ~Ll~~l~~t~~--~~~ai~lle~L~~~~p---e--v~~~LA~v~l~~~~E~~AI~ll~~aL~~--~p~d~~LL~~Qa~fL  244 (395)
T PF09295_consen  174 TLLKYLSLTQR--YDEAIELLEKLRERDP---E--VAVLLARVYLLMNEEVEAIRLLNEALKE--NPQDSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHhhccc--HHHHHHHHHHHHhcCC---c--HHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            34555555553  4555555665555442   4  3445777777788888999999998863  334666677777789


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCcHh-hHHHHHHHHHccCCHHHHHHHHHHHH
Q 027083          117 GKLKKTFEASRVFEHLVSLGVKPNAM-SYSLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       117 ~~~~~~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      .+.++.+.|..+.++....  .|+.. +|..|..+|.+.|+++.|+..++.+-
T Consensus       245 l~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999999999999876  56555 99999999999999999999988875

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

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

Probab=97.30  E-value=0.00069  Score=43.28  Aligned_cols=80  Identities=15%  Similarity=0.172  Sum_probs=59.8

Q ss_pred             cCCHHHHHHHHHHHHhCCC-CCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCChhhHH
Q 027083          119 LKKTFEASRVFEHLVSLGV-KPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSK-ETLKKVRRRCVREMDEESND  196 (228)
Q Consensus       119 ~~~~~~a~~~~~~m~~~g~-~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~a~  196 (228)
                      .|+++.|..+++++.+... .|+...+-.+-.++.+.|+.++|.++++. .  ...|+. ...-.+-.+|...|+.++|.
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~--~~~~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-L--KLDPSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-H--THHHCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-h--CCCCCCHHHHHHHHHHHHHhCCHHHHH
Confidence            5789999999999987743 23566666689999999999999999988 2  223332 34445577899999999999


Q ss_pred             HHHHH
Q 027083          197 RVEAL  201 (228)
Q Consensus       197 ~~~~~  201 (228)
                      .+++.
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            98864

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

Probab=97.28  E-value=0.0085  Score=53.86  Aligned_cols=131  Identities=11%  Similarity=-0.030  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHh------------cCCHHHHHHHHHHHHhCCCCC
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGK------------LKKTFEASRVFEHLVSLGVKP  139 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~------------~~~~~~a~~~~~~m~~~g~~p  139 (228)
                      .+..+=+.+.+...+..|.+-|..+.++....+|+++.-+|=+.|.+            .+..+.|.++|.+..+... -
T Consensus       566 arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dp-k  644 (1018)
T KOG2002|consen  566 ARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDP-K  644 (1018)
T ss_pred             HHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCc-c
Confidence            34333345555555555555555444432333455544333332221            1234445555555554432 2


Q ss_pred             cHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          140 NAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       140 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      |...=|.+=-.++..|++..|.+||.+.++... -...+|-.+-++|.-.|++..|.++|+...+
T Consensus       645 N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lk  708 (1018)
T KOG2002|consen  645 NMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLK  708 (1018)
T ss_pred             hhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444445555555555555555555555554432 1223344455555555555555555555444

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.27  E-value=0.016  Score=46.76  Aligned_cols=130  Identities=13%  Similarity=0.103  Sum_probs=91.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHc
Q 027083           74 NCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLT  153 (228)
Q Consensus        74 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~  153 (228)
                      -++-+++.-..++++++-.++.+++ .=..-|.+.|| +-++++-.|...+|+++|=+...-.++-+..-.+.|-.+|.+
T Consensus       363 QsmAs~fFL~~qFddVl~YlnSi~s-YF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~  440 (557)
T KOG3785|consen  363 QSMASYFFLSFQFDDVLTYLNSIES-YFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIR  440 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH-HhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHh
Confidence            3445556667788999988888887 34555555555 568999999999999999776655555344444566678899


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHHhcCChhhHHHHHHHHHHcCCC
Q 027083          154 NRDQKAALSVIDEMVNAGFAPSKETLKKVR-RRCVREMDEESNDRVEALAKKFDIR  208 (228)
Q Consensus       154 ~g~~~~a~~~~~~m~~~g~~p~~~t~~~li-~~~~~~~~~~~a~~~~~~m~~~g~~  208 (228)
                      .+.++.|.+++-.+.   -..+..+.-.+| .-|.+.+++--|-..|+.+....-.
T Consensus       441 nkkP~lAW~~~lk~~---t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~  493 (557)
T KOG3785|consen  441 NKKPQLAWDMMLKTN---TPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPT  493 (557)
T ss_pred             cCCchHHHHHHHhcC---CchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCC
Confidence            999999988775444   233444444444 5677888888888888888775543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.26  E-value=0.021  Score=41.55  Aligned_cols=136  Identities=13%  Similarity=0.070  Sum_probs=88.0

Q ss_pred             HHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--cHhhHHHHHHHHHccCCHHHHHHHHHH
Q 027083           89 AYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKP--NAMSYSLLVDAHLTNRDQKAALSVIDE  166 (228)
Q Consensus        89 a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p--~~~t~~~li~~~~~~g~~~~a~~~~~~  166 (228)
                      +...+..+.+..+-.--...|..+...+...|++++|...|++.......|  ...+|..+-..+...|+.++|.+.++.
T Consensus        18 ~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~   97 (168)
T CHL00033         18 VADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQ   97 (168)
T ss_pred             chhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            333444443222333345667888888889999999999999987653222  235788888899999999999999988


Q ss_pred             HHHCCCCCC-HHHHHHHHHHHH-------hcCChhhHHHHHHHHHH---cCCCcchhhHHHHHHHHHhhhh
Q 027083          167 MVNAGFAPS-KETLKKVRRRCV-------REMDEESNDRVEALAKK---FDIRMNTENRKNILFNLEYSAS  226 (228)
Q Consensus       167 m~~~g~~p~-~~t~~~li~~~~-------~~~~~~~a~~~~~~m~~---~g~~~~~~~~~~li~~l~~~~~  226 (228)
                      ....  .|+ ..++..+...+.       ..|+++.|...+.....   ..+..++..+..+-..|.-.++
T Consensus        98 Al~~--~~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~~~~~~~~~~~~~~  166 (168)
T CHL00033         98 ALER--NPFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGNYIEAQNWLKITGR  166 (168)
T ss_pred             HHHh--CcCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHhcC
Confidence            7754  333 455555655666       77888877666654432   2334455555555555555444

>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=97.26  E-value=0.11  Score=44.98  Aligned_cols=129  Identities=12%  Similarity=0.054  Sum_probs=101.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHH
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD-IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDA  150 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  150 (228)
                      ++..+-..|-..|+.++|++..++....   .|+ +..|..--+.|-+.|++++|.+.++....... -|...-+--...
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~h---tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy  271 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIEH---TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDL-ADRYINSKCAKY  271 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhc---CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCh-hhHHHHHHHHHH
Confidence            4455566777899999999999998873   466 45777778899999999999999999887764 488888889999


Q ss_pred             HHccCCHHHHHHHHHHHHHCCCCCCH------HHH--HHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          151 HLTNRDQKAALSVIDEMVNAGFAPSK------ETL--KKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       151 ~~~~g~~~~a~~~~~~m~~~g~~p~~------~t~--~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      +.|.|++++|.+++....+.+..|-.      ..|  ...-.+|.+.|+...|..-+..+.+
T Consensus       272 ~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  272 LLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            99999999999999988877765532      222  2224678899999888877666655

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=97.24  E-value=0.0091  Score=46.71  Aligned_cols=102  Identities=19%  Similarity=0.200  Sum_probs=82.2

Q ss_pred             CCCHHHHHHHHHHHHHc-----CCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCH----------------HHH
Q 027083           67 YKSVAAINCVILGCANI-----WDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKT----------------FEA  125 (228)
Q Consensus        67 ~~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~----------------~~a  125 (228)
                      ..|..+|-..+..+...     +.++-....++.|+. .|+.-|..+|+.||+.+=|-...                +=+
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~e-yGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~  142 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKE-YGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCA  142 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHH-hcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHH
Confidence            44788898888888754     567777777888988 69999999999999988765432                237


Q ss_pred             HHHHHHHHhCCCCCcHhhHHHHHHHHHccCCH-HHHHHHHHHHHH
Q 027083          126 SRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQ-KAALSVIDEMVN  169 (228)
Q Consensus       126 ~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~-~~a~~~~~~m~~  169 (228)
                      .+++++|...|+.||-.+-..|++++++.+.+ .+..++.-.|-+
T Consensus       143 I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmPk  187 (406)
T KOG3941|consen  143 IKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMPK  187 (406)
T ss_pred             HHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhhh
Confidence            88999999999999999999999999999876 455555555554

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

Probab=97.21  E-value=0.018  Score=47.42  Aligned_cols=102  Identities=16%  Similarity=0.066  Sum_probs=72.7

Q ss_pred             HHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHH
Q 027083           79 GCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQK  158 (228)
Q Consensus        79 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~  158 (228)
                      .+...|+++.|.+.|++..+.  -.-+...|..+-.+|.+.|++++|...+++..+.. ..+...|..+-.+|...|+++
T Consensus        11 ~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         11 EAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            445678888888888888763  22345567777778888888888888888887654 235667777778888888888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 027083          159 AALSVIDEMVNAGFAPSKETLKKVRRR  185 (228)
Q Consensus       159 ~a~~~~~~m~~~g~~p~~~t~~~li~~  185 (228)
                      +|...|++...  +.|+...+...+..
T Consensus        88 eA~~~~~~al~--l~P~~~~~~~~l~~  112 (356)
T PLN03088         88 TAKAALEKGAS--LAPGDSRFTKLIKE  112 (356)
T ss_pred             HHHHHHHHHHH--hCCCCHHHHHHHHH
Confidence            88888887775  34555444444433

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

Probab=97.16  E-value=0.15  Score=48.11  Aligned_cols=163  Identities=14%  Similarity=0.041  Sum_probs=125.5

Q ss_pred             cchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC---HH
Q 027083           31 PFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD---IH  107 (228)
Q Consensus        31 ~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~---~~  107 (228)
                      +...|..|...|-+.+..+.+..+...+-..  ..-  ....|......+.+..+-+.|..++.+..+-   -|-   ..
T Consensus      1529 ~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK--F~q--~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~---lPk~eHv~ 1601 (1710)
T KOG1070|consen 1529 AYTVHLKLLGIYEKSEKNDEADELLRLMLKK--FGQ--TRKVWIMYADFLLRQNEAEAARELLKRALKS---LPKQEHVE 1601 (1710)
T ss_pred             hHHHHHHHHHHHHHhhcchhHHHHHHHHHHH--hcc--hhhHHHHHHHHHhcccHHHHHHHHHHHHHhh---cchhhhHH
Confidence            3456888999999988655555444433222  221  5569999999999999999999999998762   343   33


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHH
Q 027083          108 SYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSK--ETLKKVRRR  185 (228)
Q Consensus       108 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~t~~~li~~  185 (228)
                      ...-....=.++|+.+.+..+|+.....-.+ -...|+..|+.=.++|+.+.+..+|++....++.|-.  ..|...++.
T Consensus      1602 ~IskfAqLEFk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLey 1680 (1710)
T KOG1070|consen 1602 FISKFAQLEFKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEY 1680 (1710)
T ss_pred             HHHHHHHHHhhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHH
Confidence            4555666677999999999999999876433 5678999999999999999999999999999998864  788888888


Q ss_pred             HHhcCChhhHHHHHHH
Q 027083          186 CVREMDEESNDRVEAL  201 (228)
Q Consensus       186 ~~~~~~~~~a~~~~~~  201 (228)
                      =...|+-..++.+=..
T Consensus      1681 Ek~~Gde~~vE~VKar 1696 (1710)
T KOG1070|consen 1681 EKSHGDEKNVEYVKAR 1696 (1710)
T ss_pred             HHhcCchhhHHHHHHH
Confidence            7777887776655433

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.15  E-value=0.0023  Score=38.88  Aligned_cols=52  Identities=19%  Similarity=0.107  Sum_probs=24.2

Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSL  135 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  135 (228)
                      +.|++++|.++|++....  .+-|...+-.+..+|.+.|++++|..+++.+...
T Consensus         3 ~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344555555555555442  1113334444555555555555555555554443

...

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

Probab=97.14  E-value=0.12  Score=43.29  Aligned_cols=197  Identities=14%  Similarity=0.063  Sum_probs=136.9

Q ss_pred             HHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcC
Q 027083            5 QRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIW   84 (228)
Q Consensus         5 ~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~   84 (228)
                      ++|...|+...+..          +.....|+-+-+-|.....  -..+...+.+.....|.  |-..|-.|=++|.-.+
T Consensus       347 EKAv~YFkRALkLN----------p~~~~aWTLmGHEyvEmKN--t~AAi~sYRrAvdi~p~--DyRAWYGLGQaYeim~  412 (559)
T KOG1155|consen  347 EKAVMYFKRALKLN----------PKYLSAWTLMGHEYVEMKN--THAAIESYRRAVDINPR--DYRAWYGLGQAYEIMK  412 (559)
T ss_pred             HHHHHHHHHHHhcC----------cchhHHHHHhhHHHHHhcc--cHHHHHHHHHHHhcCch--hHHHHhhhhHHHHHhc
Confidence            45666666554442          1113457777788887764  22333333333333333  7788888889999889


Q ss_pred             CHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHH
Q 027083           85 DLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSV  163 (228)
Q Consensus        85 ~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~  163 (228)
                      ...-|+-.|++...   ++| |...|.+|=++|.+.+++++|++.|.....-|- .+...+..|-+.|-+-++.++|-..
T Consensus       413 Mh~YaLyYfqkA~~---~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l~~LakLye~l~d~~eAa~~  488 (559)
T KOG1155|consen  413 MHFYALYYFQKALE---LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSALVRLAKLYEELKDLNEAAQY  488 (559)
T ss_pred             chHHHHHHHHHHHh---cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHHHHHHHHHHHHHhHHHHHHH
Confidence            99999988888765   445 677999999999999999999999999887663 3678899999999999999999887


Q ss_pred             HHHHHH----CCCCCCHHHHHH--HHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHH
Q 027083          164 IDEMVN----AGFAPSKETLKK--VRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNL  221 (228)
Q Consensus       164 ~~~m~~----~g~~p~~~t~~~--li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l  221 (228)
                      |....+    .|..-+......  |-..+.+.+++++|........+.  .+..+-=+.+++.+
T Consensus       489 yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~--~~e~eeak~LlRei  550 (559)
T KOG1155|consen  489 YEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG--ETECEEAKALLREI  550 (559)
T ss_pred             HHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC--CchHHHHHHHHHHH
Confidence            776553    344333222222  345677889999988776665544  56666666666544

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

Probab=97.11  E-value=0.055  Score=41.71  Aligned_cols=121  Identities=14%  Similarity=0.032  Sum_probs=95.9

Q ss_pred             HHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHH
Q 027083           38 LVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAF  116 (228)
Q Consensus        38 ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~  116 (228)
                      ......+.|  +...+...+.+.....++  |-.+|+.+=.+|-+.|+.++|..-|.+..+   +.| +....|.+--.|
T Consensus       106 ~gk~~~~~g--~~~~A~~~~rkA~~l~p~--d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~---L~~~~p~~~nNlgms~  178 (257)
T COG5010         106 QGKNQIRNG--NFGEAVSVLRKAARLAPT--DWEAWNLLGAALDQLGRFDEARRAYRQALE---LAPNEPSIANNLGMSL  178 (257)
T ss_pred             HHHHHHHhc--chHHHHHHHHHHhccCCC--ChhhhhHHHHHHHHccChhHHHHHHHHHHH---hccCCchhhhhHHHHH
Confidence            555566666  466666666665555554  889999999999999999999999999876   334 455778888899


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHH
Q 027083          117 GKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDE  166 (228)
Q Consensus       117 ~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~  166 (228)
                      .-.|+.+.|..++......+.. |...-..+.-..+..|++++|+++...
T Consensus       179 ~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~~~  227 (257)
T COG5010         179 LLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIAVQ  227 (257)
T ss_pred             HHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhccc
Confidence            9999999999999998877643 667777777778999999999987653

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

Probab=97.08  E-value=0.11  Score=45.38  Aligned_cols=180  Identities=11%  Similarity=-0.015  Sum_probs=103.1

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhCh-hcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGF-ETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      |.+++|.+++++-.+.+..+..          -|-.+-+.+-+.++ +...++|..-.+....     .+-.|-.+-+.=
T Consensus       665 d~~eeA~rllEe~lk~fp~f~K----------l~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~-----~ipLWllLakle  729 (913)
T KOG0495|consen  665 DNVEEALRLLEEALKSFPDFHK----------LWLMLGQIEEQMENIEMAREAYLQGTKKCPN-----SIPLWLLLAKLE  729 (913)
T ss_pred             hhHHHHHHHHHHHHHhCCchHH----------HHHHHhHHHHHHHHHHHHHHHHHhccccCCC-----CchHHHHHHHHH
Confidence            5677777777666655432222          24445555555554 2233333333222222     334676666666


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHH
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAA  160 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  160 (228)
                      -+.|.+-.|+.+++.-+.+  .+-|...|-..|++=.+.|..+.|..++.+..+. +.-+...|.--|-...+.++-...
T Consensus       730 Ek~~~~~rAR~ildrarlk--NPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks  806 (913)
T KOG0495|consen  730 EKDGQLVRARSILDRARLK--NPKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKS  806 (913)
T ss_pred             HHhcchhhHHHHHHHHHhc--CCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHH
Confidence            6778999999999998863  4567889999999999999999999988877665 233445555555544444432222


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          161 LSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       161 ~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      .+.++   +  ..-|....-++-..|-....++.++..|...++
T Consensus       807 ~DALk---k--ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk  845 (913)
T KOG0495|consen  807 IDALK---K--CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVK  845 (913)
T ss_pred             HHHHH---h--ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            22221   1  122333344444444444445555544444444

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

Probab=97.07  E-value=0.15  Score=43.03  Aligned_cols=127  Identities=16%  Similarity=0.102  Sum_probs=98.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHH
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAH  151 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~  151 (228)
                      .|---+..=-..|++.+|.++|+...+   .+|+...|++.|+.=.+-+.++.|..+|+..+-.  .|+..+|---..-=
T Consensus       143 lWyKY~ymEE~LgNi~gaRqiferW~~---w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE  217 (677)
T KOG1915|consen  143 LWYKYIYMEEMLGNIAGARQIFERWME---WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFE  217 (677)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHc---CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHH
Confidence            444444555567999999999999864   6899999999999999999999999999998754  59999999888888


Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----hcCChhhHHHHHHHHHHc
Q 027083          152 LTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCV----REMDEESNDRVEALAKKF  205 (228)
Q Consensus       152 ~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~----~~~~~~~a~~~~~~m~~~  205 (228)
                      -++|.+..+..++....+.  .-|...-..|+-+|+    +...++.|.-++....+.
T Consensus       218 ~k~g~~~~aR~VyerAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~  273 (677)
T KOG1915|consen  218 EKHGNVALARSVYERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH  273 (677)
T ss_pred             HhcCcHHHHHHHHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            8999999999999876642  113333344444444    456677888887777654

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

Probab=97.06  E-value=0.086  Score=44.34  Aligned_cols=130  Identities=14%  Similarity=0.081  Sum_probs=105.6

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +...|---+.+=.++..+..|..+|+..... =...|. .|---+-+=-..|++..|.++|+.-..  ..||...|++.|
T Consensus       106 ~itLWlkYae~Emknk~vNhARNv~dRAvt~-lPRVdq-lWyKY~ymEE~LgNi~gaRqiferW~~--w~P~eqaW~sfI  181 (677)
T KOG1915|consen  106 NITLWLKYAEFEMKNKQVNHARNVWDRAVTI-LPRVDQ-LWYKYIYMEEMLGNIAGARQIFERWME--WEPDEQAWLSFI  181 (677)
T ss_pred             cchHHHHHHHHHHhhhhHhHHHHHHHHHHHh-cchHHH-HHHHHHHHHHHhcccHHHHHHHHHHHc--CCCcHHHHHHHH
Confidence            5566766666667888999999999998863 222233 334444455567999999999999764  589999999999


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      +.=.+-+.++.|..+++....  +.|++.+|-.-..-=-+.|++..+..+++...+
T Consensus       182 ~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie  235 (677)
T KOG1915|consen  182 KFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIE  235 (677)
T ss_pred             HHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            999999999999999999886  459999999888888889999999999988775

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.05  E-value=0.0061  Score=43.24  Aligned_cols=71  Identities=25%  Similarity=0.281  Sum_probs=44.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHH-----HCCCCCCHHHHH
Q 027083          109 YNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMV-----NAGFAPSKETLK  180 (228)
Q Consensus       109 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~-----~~g~~p~~~t~~  180 (228)
                      ...++..+...|+++.|.++.+.+.... +.|...|-.+|.+|.+.|+...|.++|+.+.     +.|+.|+..+-.
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            4555666677788888888877776654 3366678888888888888888877777765     347777766543

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

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.05  E-value=0.07  Score=38.98  Aligned_cols=87  Identities=6%  Similarity=-0.025  Sum_probs=64.4

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC--HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD--IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSL  146 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~  146 (228)
                      ....+..+-..+...|+.++|...|++..+. ...++  ...+..+-..+.+.|++++|...+++..+... -+...+..
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~  111 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKL-EEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNP-KQPSALNN  111 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-hhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHH
Confidence            4556677777788889999999999998763 33332  45788888899999999999999998877532 24556666


Q ss_pred             HHHHHHccCCH
Q 027083          147 LVDAHLTNRDQ  157 (228)
Q Consensus       147 li~~~~~~g~~  157 (228)
                      +-..+...|+.
T Consensus       112 lg~~~~~~g~~  122 (172)
T PRK02603        112 IAVIYHKRGEK  122 (172)
T ss_pred             HHHHHHHcCCh
Confidence            66677766653

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.03  E-value=0.0034  Score=38.06  Aligned_cols=64  Identities=16%  Similarity=0.172  Sum_probs=47.5

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 027083          117 GKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVR  183 (228)
Q Consensus       117 ~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li  183 (228)
                      .+.|++++|.++|+++..... -+...+-.+..+|.+.|++++|.++++.+...  .|+...|..++
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l~   65 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNP-DNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQLL   65 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTT-TSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHHH
Confidence            467888999999999877642 27777778889999999999999998877764  46655555444

...

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.03  E-value=0.12  Score=41.16  Aligned_cols=130  Identities=14%  Similarity=0.044  Sum_probs=72.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhh---cCCCCCC--HHhHHHHHHHHHhc-CCHHHHHHHHHHHHh----CCCCC--
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGS---SFGLTPD--IHSYNALIYAFGKL-KKTFEASRVFEHLVS----LGVKP--  139 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~---~~~~~p~--~~~~~~li~~~~~~-~~~~~a~~~~~~m~~----~g~~p--  139 (228)
                      .|.....+|-+. ++++|...+++...   +.| .|+  ..++..+-..|-.. |++++|.+.|++...    .| .+  
T Consensus        77 ~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G-~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~  153 (282)
T PF14938_consen   77 AYEEAANCYKKG-DPDEAIECYEKAIEIYREAG-RFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHS  153 (282)
T ss_dssp             HHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHH
T ss_pred             HHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC-cHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-Chhh
Confidence            333333443333 66666666665432   111 122  22455555667776 788888888877533    23 22  


Q ss_pred             cHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCC-----CCCHH-H-HHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          140 NAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGF-----APSKE-T-LKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       140 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~-----~p~~~-t-~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      -..++.-+...+.+.|++++|.++|++....-.     +++.. . +.++| ++...|+...|...++.....
T Consensus       154 a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l-~~L~~~D~v~A~~~~~~~~~~  225 (282)
T PF14938_consen  154 AAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAIL-CHLAMGDYVAARKALERYCSQ  225 (282)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHH-HHHHTT-HHHHHHHHHHHGTT
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHH-HHHHcCCHHHHHHHHHHHHhh
Confidence            234566777788888999999999988775432     22332 2 23333 444557888888888877654

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

Probab=96.95  E-value=0.28  Score=44.27  Aligned_cols=180  Identities=12%  Similarity=0.031  Sum_probs=114.4

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      +++.+|+..++++.+.+            |...|..++.+++........+++...+...+..+.  |..|..++-.+|.
T Consensus        23 ~qfkkal~~~~kllkk~------------Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~--D~~tLq~l~~~y~   88 (932)
T KOG2053|consen   23 SQFKKALAKLGKLLKKH------------PNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT--DDLTLQFLQNVYR   88 (932)
T ss_pred             HHHHHHHHHHHHHHHHC------------CCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC--chHHHHHHHHHHH
Confidence            45667888888777664            445677888888765554566666555555544443  8899999999999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccC------
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNR------  155 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g------  155 (228)
                      +.++.++|..+|++...   ..|+......++.+|.+-+++.+-.++==+|-+ .+.-++..|.++|+.....-      
T Consensus        89 d~~~~d~~~~~Ye~~~~---~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~  164 (932)
T KOG2053|consen   89 DLGKLDEAVHLYERANQ---KYPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENEL  164 (932)
T ss_pred             HHhhhhHHHHHHHHHHh---hCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCccc
Confidence            99999999999999975   468888889999999999987664333323322 23446677777777665431      


Q ss_pred             ----CHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhhHHHHH
Q 027083          156 ----DQKAALSVIDEMVNAGFAP-SKETLKKVRRRCVREMDEESNDRVE  199 (228)
Q Consensus       156 ----~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~  199 (228)
                          -...|.+.++.+.+.+-+. +..-.-.-...+-..|..++|..++
T Consensus       165 ~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l  213 (932)
T KOG2053|consen  165 LDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFL  213 (932)
T ss_pred             ccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHH
Confidence                1234555555555433111 1111111122333445566666665

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

Probab=96.94  E-value=0.048  Score=44.90  Aligned_cols=91  Identities=9%  Similarity=0.056  Sum_probs=76.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChh
Q 027083          114 YAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEE  193 (228)
Q Consensus       114 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~  193 (228)
                      ..+...|++++|...|++..+..- -+...|..+-.+|.+.|++++|...+++..... ..+...|..+-.+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            456678999999999999987653 367788888899999999999999999988743 225677888888999999999


Q ss_pred             hHHHHHHHHHHcC
Q 027083          194 SNDRVEALAKKFD  206 (228)
Q Consensus       194 ~a~~~~~~m~~~g  206 (228)
                      .|...++...+..
T Consensus        88 eA~~~~~~al~l~  100 (356)
T PLN03088         88 TAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999988755

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

Probab=96.92  E-value=0.084  Score=47.83  Aligned_cols=119  Identities=11%  Similarity=0.076  Sum_probs=88.7

Q ss_pred             CHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHH
Q 027083           85 DLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVI  164 (228)
Q Consensus        85 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~  164 (228)
                      ..+.|+++|.+..+  .-+-|.+.-|-+=-.++.+|++..|..+|.+...... -+..+|-.+-++|...|++..|+++|
T Consensus       627 ~~~KAlq~y~kvL~--~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmY  703 (1018)
T KOG2002|consen  627 HQEKALQLYGKVLR--NDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMY  703 (1018)
T ss_pred             HHHHHHHHHHHHHh--cCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHH
Confidence            35678888888776  2344666666676778888899999999988877653 25567888888899999999999888


Q ss_pred             HHHH-HCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          165 DEMV-NAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       165 ~~m~-~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      +... +..-+-+......|-+++-+.|.+.++.+........-
T Consensus       704 e~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~  746 (1018)
T KOG2002|consen  704 ENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLA  746 (1018)
T ss_pred             HHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            8744 44445567788888888888888888887766555433

>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=96.89  E-value=0.01  Score=42.07  Aligned_cols=72  Identities=21%  Similarity=0.260  Sum_probs=53.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCcHhhHH
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVS-----LGVKPNAMSYS  145 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~~p~~~t~~  145 (228)
                      +...+...+...|+.+.|..+.+.....  -+.|...|-.+|.+|...|+...|.+.|+.+.+     .|+.|+..|-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~--dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALAL--DPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH--STT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            5566677778899999999999999873  455788999999999999999999999998743     48889887643

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

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

Probab=96.86  E-value=0.076  Score=46.66  Aligned_cols=180  Identities=14%  Similarity=0.075  Sum_probs=117.5

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC----------
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGL----------  102 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~----------  102 (228)
                      ..|..+|.+|...|..+.++.+... ..+  .+|  +...|+.+.+..-..--.+.|.++++....+...          
T Consensus       425 emw~~vi~CY~~lg~~~kaeei~~q-~le--k~~--d~~lyc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~  499 (777)
T KOG1128|consen  425 EMWDPVILCYLLLGQHGKAEEINRQ-ELE--KDP--DPRLYCLLGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNK  499 (777)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHHH-Hhc--CCC--cchhHHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccccccch
Confidence            3478899999999964444443222 222  333  6677777776665555566677776665432000          


Q ss_pred             ---------------CC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-HhhHHHHHHHHHccCCHHHHHHHHH
Q 027083          103 ---------------TP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN-AMSYSLLVDAHLTNRDQKAALSVID  165 (228)
Q Consensus       103 ---------------~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a~~~~~  165 (228)
                                     .| -..+|=..=-+..+.++++.|.+.|..-..-  .|| ...||.+=.+|.+.|+-.+|...++
T Consensus       500 ~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~  577 (777)
T KOG1128|consen  500 DFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLK  577 (777)
T ss_pred             hHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHH
Confidence                           00 1122222333455777888888888887654  455 5569999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCC-CcchhhHHHHHHH
Q 027083          166 EMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDI-RMNTENRKNILFN  220 (228)
Q Consensus       166 ~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~  220 (228)
                      +-.+.+ .-+...|..-+....+.|.+++|.+.+..+.+... ..|......++..
T Consensus       578 EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~d~~vl~~iv~~  632 (777)
T KOG1128|consen  578 EALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKDDEVLLIIVRT  632 (777)
T ss_pred             HHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhcccchhhHHHHHH
Confidence            988877 55566666677777888999999988877775332 2255555555543

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

Probab=96.86  E-value=0.1  Score=46.84  Aligned_cols=162  Identities=12%  Similarity=0.070  Sum_probs=119.4

Q ss_pred             HHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHh
Q 027083           39 VVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGK  118 (228)
Q Consensus        39 l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~  118 (228)
                      +-++....-......+...-... ...+.-+...|.-+-.++.+.|..++|..+|..+... ..--+...|--+-.+|-.
T Consensus       384 ~icL~~L~~~e~~e~ll~~l~~~-n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~-~~~~~~~vw~~~a~c~~~  461 (895)
T KOG2076|consen  384 MICLVHLKERELLEALLHFLVED-NVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNR-EGYQNAFVWYKLARCYME  461 (895)
T ss_pred             hhhhhcccccchHHHHHHHHHHh-cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcC-ccccchhhhHHHHHHHHH
Confidence            33444433334555555444332 2334446778888999999999999999999999985 444457889999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCC-cHhhHHHHHHHHHccCCHHHHHHHHHHHH--------HCCCCCCHHHHHHHHHHHHhc
Q 027083          119 LKKTFEASRVFEHLVSLGVKP-NAMSYSLLVDAHLTNRDQKAALSVIDEMV--------NAGFAPSKETLKKVRRRCVRE  189 (228)
Q Consensus       119 ~~~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~--------~~g~~p~~~t~~~li~~~~~~  189 (228)
                      .|..+.|...|+......  | +...-.+|-+.+-+.|+.++|.+++..+.        ..++.|+...-....+.+...
T Consensus       462 l~e~e~A~e~y~kvl~~~--p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~  539 (895)
T KOG2076|consen  462 LGEYEEAIEFYEKVLILA--PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQV  539 (895)
T ss_pred             HhhHHHHHHHHHHHHhcC--CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHh
Confidence            999999999999988653  3 33344556666788999999999999854        345777777777777888888


Q ss_pred             CChhhHHHHHHHHHH
Q 027083          190 MDEESNDRVEALAKK  204 (228)
Q Consensus       190 ~~~~~a~~~~~~m~~  204 (228)
                      |+.++-..+...|+.
T Consensus       540 gk~E~fi~t~~~Lv~  554 (895)
T KOG2076|consen  540 GKREEFINTASTLVD  554 (895)
T ss_pred             hhHHHHHHHHHHHHH
Confidence            998887777666655

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

Probab=96.80  E-value=0.17  Score=39.44  Aligned_cols=139  Identities=12%  Similarity=0.104  Sum_probs=102.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDA  150 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  150 (228)
                      ..-..-...|++.|+.++|++......       +....-.=+..+.|..+++.|++.++.|.+-   -+-.|-+-|-++
T Consensus       109 i~~l~aa~i~~~~~~~deAl~~~~~~~-------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~a  178 (299)
T KOG3081|consen  109 IDLLLAAIIYMHDGDFDEALKALHLGE-------NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQA  178 (299)
T ss_pred             HHHHHhhHHhhcCCChHHHHHHHhccc-------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHH
Confidence            333344456788999999999877521       2222333344567788899999999999863   355666655555


Q ss_pred             HHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHH
Q 027083          151 HLT----NRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNL  221 (228)
Q Consensus       151 ~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l  221 (228)
                      +.+    .+.+.+|.-+|++|-++ ..|+.-+.+-...++...|++++|+.+.+.......+ ++++...+|.+-
T Consensus       179 wv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a  251 (299)
T KOG3081|consen  179 WVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLA  251 (299)
T ss_pred             HHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHH
Confidence            543    46789999999998753 6789999999999999999999999999999987776 577777766543

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

Probab=96.75  E-value=0.04  Score=44.57  Aligned_cols=107  Identities=17%  Similarity=0.115  Sum_probs=80.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHH
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAH  151 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~  151 (228)
                      +.+.-|.-|...|+.+.|.++-.+.+-     ||..-|-..|++|++.++|++.+++-..      +-+++-|..++.+|
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fkv-----~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~  247 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFKV-----PDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEAC  247 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcCC-----cHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHH
Confidence            445557777888998888888666642     7899999999999999999988876543      23569999999999


Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHH
Q 027083          152 LTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVE  199 (228)
Q Consensus       152 ~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~  199 (228)
                      .+.|...+|..++..     +     ++..-+..|.+.|++.+|.+..
T Consensus       248 ~~~~~~~eA~~yI~k-----~-----~~~~rv~~y~~~~~~~~A~~~A  285 (319)
T PF04840_consen  248 LKYGNKKEASKYIPK-----I-----PDEERVEMYLKCGDYKEAAQEA  285 (319)
T ss_pred             HHCCCHHHHHHHHHh-----C-----ChHHHHHHHHHCCCHHHHHHHH
Confidence            999999999888765     1     1244566677777777766553

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

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.75  E-value=0.042  Score=39.37  Aligned_cols=83  Identities=11%  Similarity=0.036  Sum_probs=45.3

Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHh-HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHS-YNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAA  160 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  160 (228)
                      ..|++++|.++|+....   +.|.... |-.|=-++-..|++++|...|........ -|+..+-.+=.++...|+.+.|
T Consensus        47 ~~G~l~~A~~~f~~L~~---~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~~~~A  122 (157)
T PRK15363         47 EVKEFAGAARLFQLLTI---YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDNVCYA  122 (157)
T ss_pred             HCCCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHHH
Confidence            55666666666666554   2333332 23333444555666666666666555543 3555555555556666666666


Q ss_pred             HHHHHHHH
Q 027083          161 LSVIDEMV  168 (228)
Q Consensus       161 ~~~~~~m~  168 (228)
                      .+.|+...
T Consensus       123 ~~aF~~Ai  130 (157)
T PRK15363        123 IKALKAVV  130 (157)
T ss_pred             HHHHHHHH
Confidence            66665444

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

Probab=96.72  E-value=0.29  Score=41.19  Aligned_cols=143  Identities=15%  Similarity=-0.020  Sum_probs=101.0

Q ss_pred             HHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027083           56 QLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD-IHSYNALIYAFGKLKKTFEASRVFEHLVS  134 (228)
Q Consensus        56 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~  134 (228)
                      .+..+....|-  |...+......+.+.++.++|.+-++.+...   .|+ ....-.+-++|.+.|.+.+|.+++++...
T Consensus       328 ~l~~L~~~~P~--N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l---~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~  402 (484)
T COG4783         328 LLQPLIAAQPD--NPYYLELAGDILLEANKAKEAIERLKKALAL---DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLF  402 (484)
T ss_pred             HHHHHHHhCCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc---CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhh
Confidence            33334444443  7778888888999999999999999999863   576 44555566899999999999999999877


Q ss_pred             CCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC--CCcchh
Q 027083          135 LGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD--IRMNTE  212 (228)
Q Consensus       135 ~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~~~~~  212 (228)
                      .. +-|+..|..|-.+|...|+..++..-.-+                  +++..|+++.|........+..  -.|+-.
T Consensus       403 ~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A~~~l~~A~~~~~~~~~~~a  463 (484)
T COG4783         403 ND-PEDPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQAIIFLMRASQQVKLGFPDWA  463 (484)
T ss_pred             cC-CCCchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHHHHHHHHHHHhccCCcHHHH
Confidence            64 55999999999999999998887765544                  3445555555555544444322  234444


Q ss_pred             hHHHHHHHHH
Q 027083          213 NRKNILFNLE  222 (228)
Q Consensus       213 ~~~~li~~l~  222 (228)
                      -+...|..+.
T Consensus       464 R~dari~~~~  473 (484)
T COG4783         464 RADARIDQLR  473 (484)
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.63  E-value=0.16  Score=37.02  Aligned_cols=84  Identities=14%  Similarity=0.091  Sum_probs=64.0

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc--HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 027083          106 IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN--AMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPS-KETLKKV  182 (228)
Q Consensus       106 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~l  182 (228)
                      ...+..+-..+...|++++|...|++..+....+.  ...+..+-..+.+.|++++|...+++....  .|+ ...+..+
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l  112 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNNI  112 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHH
Confidence            34567777788999999999999999876543332  467888899999999999999999987764  343 4555566


Q ss_pred             HHHHHhcCC
Q 027083          183 RRRCVREMD  191 (228)
Q Consensus       183 i~~~~~~~~  191 (228)
                      -..+...|+
T Consensus       113 g~~~~~~g~  121 (172)
T PRK02603        113 AVIYHKRGE  121 (172)
T ss_pred             HHHHHHcCC
Confidence            666666665

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

Probab=96.58  E-value=0.021  Score=34.23  Aligned_cols=53  Identities=19%  Similarity=0.132  Sum_probs=26.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 027083          115 AFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       115 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      .+.+.|++++|.+.|++..+... -+...+..+-.++.+.|++++|...|++..
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQDP-DNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCST-THHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34455555555555555554431 144445555555555555555555555443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.48  E-value=0.28  Score=37.98  Aligned_cols=31  Identities=16%  Similarity=0.244  Sum_probs=15.5

Q ss_pred             CcHhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 027083          139 PNAMSYSLLVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       139 p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      .|...|.-+-..|...|++++|.-.++++.-
T Consensus       152 ~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  152 NDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             CcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            3455555555555555555555555544443

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

Probab=96.45  E-value=0.73  Score=42.48  Aligned_cols=131  Identities=9%  Similarity=0.032  Sum_probs=74.5

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHH-
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVD-  149 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~-  149 (228)
                      ..+-.+-.+|-+.|+.+++..++++..+- . .-|....|.+-..|... ++++|..++......-+  +..-|+.+.. 
T Consensus       117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L~~-D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i--~~kq~~~~~e~  191 (906)
T PRK14720        117 LALRTLAEAYAKLNENKKLKGVWERLVKA-D-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRFI--KKKQYVGIEEI  191 (906)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhc-C-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHH--hhhcchHHHHH
Confidence            45555666777779999999999999983 4 55677888888888888 89998888776654311  1111111111 


Q ss_pred             --HH--HccCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          150 --AH--LTNRDQKAALSVIDEMVNA-GFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       150 --~~--~~~g~~~~a~~~~~~m~~~-g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                        -+  ....+++.-..+.+.+... |..--..++--+-..|....+++++..++..+.+..
T Consensus       192 W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~  253 (906)
T PRK14720        192 WSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHD  253 (906)
T ss_pred             HHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcC
Confidence              11  1112233333333333322 333334444445555555555555555555555443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=96.39  E-value=0.074  Score=47.14  Aligned_cols=100  Identities=16%  Similarity=0.106  Sum_probs=65.8

Q ss_pred             HHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHH
Q 027083           50 LDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVF  129 (228)
Q Consensus        50 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  129 (228)
                      +..++..+..++....   -+--|..+-..|+..|+++.|.++|-+--.          ++..|.+|.++|.+++|.++-
T Consensus       748 w~kai~ildniqdqk~---~s~yy~~iadhyan~~dfe~ae~lf~e~~~----------~~dai~my~k~~kw~da~kla  814 (1636)
T KOG3616|consen  748 WKKAISILDNIQDQKT---ASGYYGEIADHYANKGDFEIAEELFTEADL----------FKDAIDMYGKAGKWEDAFKLA  814 (1636)
T ss_pred             hhhhHhHHHHhhhhcc---ccccchHHHHHhccchhHHHHHHHHHhcch----------hHHHHHHHhccccHHHHHHHH
Confidence            4444444444444333   234577778888999999999988876543          577889999999999998887


Q ss_pred             HHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHH
Q 027083          130 EHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVI  164 (228)
Q Consensus       130 ~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~  164 (228)
                      ++..  |.+...+.|-+--.-+-++|++.+|++++
T Consensus       815 ~e~~--~~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  815 EECH--GPEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHhc--CchhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            7654  33444555655555555566666655543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.35  E-value=0.15  Score=42.74  Aligned_cols=131  Identities=13%  Similarity=0.068  Sum_probs=101.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC-CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhh-HHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFG-LTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMS-YSL  146 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t-~~~  146 (228)
                      -+.+|++.|+.--+...++.|+.+|-+..+. + +.|+++.++++|.-++. |+..-|.++|+-=...  .||... -+-
T Consensus       396 ~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~-~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~k  471 (660)
T COG5107         396 LTFVFCVHLNYVLRKRGLEAARKLFIKLRKE-GIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEK  471 (660)
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHhcc-CCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHH
Confidence            4678999999999999999999999999995 7 78999999999998875 5677889999763332  355444 466


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          147 LVDAHLTNRDQKAALSVIDEMVNAGFAPS--KETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       147 li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      .+.-+.+-++-+.|..+|+.-+.+ +.-+  ...|..+|+.=+..|++..+..+-+.+..
T Consensus       472 yl~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         472 YLLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            777788899999999999854422 1222  46888889888888888777766655543

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.35  E-value=0.41  Score=38.41  Aligned_cols=128  Identities=11%  Similarity=0.164  Sum_probs=78.6

Q ss_pred             HHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHh--cCC----HHHHHHHHHHHHhCCC---CCcHhhHHHHHHHHHccCC
Q 027083           86 LDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGK--LKK----TFEASRVFEHLVSLGV---KPNAMSYSLLVDAHLTNRD  156 (228)
Q Consensus        86 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~--~~~----~~~a~~~~~~m~~~g~---~p~~~t~~~li~~~~~~g~  156 (228)
                      ++....+++.+++. |++-+.++|-+..-....  ..+    ...|..+|+.|++.+.   .++-..+.+|+..  ..++
T Consensus        78 ~~~~~~~y~~L~~~-gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~  154 (297)
T PF13170_consen   78 FKEVLDIYEKLKEA-GFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSED  154 (297)
T ss_pred             HHHHHHHHHHHHHh-ccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--cccc
Confidence            45567788888884 888887777663333222  222    4557788888887753   3566667777665  4443


Q ss_pred             H----HHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhc-CC--hhhHHHHHHHHHHcCCCcchhhHHH
Q 027083          157 Q----KAALSVIDEMVNAGFAPSKE-TLKKVRRRCVRE-MD--EESNDRVEALAKKFDIRMNTENRKN  216 (228)
Q Consensus       157 ~----~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~-~~--~~~a~~~~~~m~~~g~~~~~~~~~~  216 (228)
                      +    +.++.+++.+.+.|+..+-. -+-+-+-++... .+  +.++..+++.+.+.|+++....|..
T Consensus       155 ~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~  222 (297)
T PF13170_consen  155 VEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPT  222 (297)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccH
Confidence            3    45567777777777766432 222333333322 11  4466777888888888877777663

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.31  E-value=0.14  Score=40.20  Aligned_cols=99  Identities=17%  Similarity=0.114  Sum_probs=69.5

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcH----hhHHHHHHHHHccCCHHHHHHHHHHHHHCC-CCC-CHHHH
Q 027083          106 IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNA----MSYSLLVDAHLTNRDQKAALSVIDEMVNAG-FAP-SKETL  179 (228)
Q Consensus       106 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~t~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p-~~~t~  179 (228)
                      ...|+..+..+.+.|++++|...|+.+.+.  .|+.    ..+-.+-.+|...|++++|...|+.+.+.- -.| ....+
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl  220 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHH
Confidence            445777776667778888998888888775  3443    466677778888889999998888887531 111 23344


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          180 KKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       180 ~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      -.+...+...|+.+.|..+++.+.+.-
T Consensus       221 ~klg~~~~~~g~~~~A~~~~~~vi~~y  247 (263)
T PRK10803        221 FKVGVIMQDKGDTAKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            445556677888899998888877643

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

Probab=96.27  E-value=0.41  Score=38.82  Aligned_cols=128  Identities=19%  Similarity=0.080  Sum_probs=89.9

Q ss_pred             hHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHH
Q 027083           34 SLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALI  113 (228)
Q Consensus        34 ~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li  113 (228)
                      +.+..|.-+...|....++.+.  .+   -..  |+..-|-+-|.+++..+++++-..+...  +     -.+.-|-.++
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~--k~---Fkv--~dkrfw~lki~aLa~~~~w~eL~~fa~s--k-----KsPIGyepFv  244 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLK--KE---FKV--PDKRFWWLKIKALAENKDWDELEKFAKS--K-----KSPIGYEPFV  244 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHH--HH---cCC--cHHHHHHHHHHHHHhcCCHHHHHHHHhC--C-----CCCCChHHHH
Confidence            4455567777777533333322  11   133  3888999999999999999988876442  1     1347899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 027083          114 YAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMD  191 (228)
Q Consensus       114 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~  191 (228)
                      ++|.+.|...+|.++...          .++..-+..|.+.|++.+|.+.-.+.+      |......+...+.....
T Consensus       245 ~~~~~~~~~~eA~~yI~k----------~~~~~rv~~y~~~~~~~~A~~~A~~~k------d~~~L~~i~~~~~~~~~  306 (319)
T PF04840_consen  245 EACLKYGNKKEASKYIPK----------IPDEERVEMYLKCGDYKEAAQEAFKEK------DIDLLKQILKRCPGNND  306 (319)
T ss_pred             HHHHHCCCHHHHHHHHHh----------CChHHHHHHHHHCCCHHHHHHHHHHcC------CHHHHHHHHHHCCCCCh
Confidence            999999999999988866          344788899999999999987654433      55555555555544433

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

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

Probab=96.27  E-value=0.13  Score=43.99  Aligned_cols=118  Identities=12%  Similarity=-0.030  Sum_probs=62.0

Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCC----CcHhhHHHHHHHHH
Q 027083           80 CANIWDLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSL--GVK----PNAMSYSLLVDAHL  152 (228)
Q Consensus        80 ~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~----p~~~t~~~li~~~~  152 (228)
                      |...++.+.|.+.|.+...   +.| |....|-+=-.....+.+.+|...|+.....  .+.    .-..+++.|=.+|.
T Consensus       390 y~~t~n~kLAe~Ff~~A~a---i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~R  466 (611)
T KOG1173|consen  390 YMRTNNLKLAEKFFKQALA---IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYR  466 (611)
T ss_pred             HHHhccHHHHHHHHHHHHh---cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHH
Confidence            4455666666666666643   333 3444444444444556666666666554311  000    12334555555666


Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHH
Q 027083          153 TNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEAL  201 (228)
Q Consensus       153 ~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~  201 (228)
                      +.+..++|+..++.-.... .-|..++.++--.+...|+++.|...+..
T Consensus       467 kl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhK  514 (611)
T KOG1173|consen  467 KLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHK  514 (611)
T ss_pred             HHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHH
Confidence            6666666666666544321 23555555555556666666666655544

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

Probab=96.23  E-value=0.031  Score=33.43  Aligned_cols=56  Identities=18%  Similarity=0.098  Sum_probs=45.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027083           78 LGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSL  135 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  135 (228)
                      ..+...|++++|...|++..+. . +-+...+..+-.++.+.|++++|...|++..+.
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~-~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQ-D-PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCC-S-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH-C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4567889999999999999984 2 225567777778999999999999999998754

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

Probab=96.14  E-value=0.71  Score=39.20  Aligned_cols=126  Identities=14%  Similarity=0.151  Sum_probs=67.3

Q ss_pred             HHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCC-CHHhHHHHH
Q 027083           35 LYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTP-DIHSYNALI  113 (228)
Q Consensus        35 ~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li  113 (228)
                      |--+-..|....  +....+..+.+.....+-  |..+|..-=..+.-.+++++|..=|++..+   +.| +.+.|-.+-
T Consensus       363 yI~~a~~y~d~~--~~~~~~~~F~~A~~ldp~--n~dvYyHRgQm~flL~q~e~A~aDF~Kai~---L~pe~~~~~iQl~  435 (606)
T KOG0547|consen  363 YIKRAAAYADEN--QSEKMWKDFNKAEDLDPE--NPDVYYHRGQMRFLLQQYEEAIADFQKAIS---LDPENAYAYIQLC  435 (606)
T ss_pred             HHHHHHHHhhhh--ccHHHHHHHHHHHhcCCC--CCchhHhHHHHHHHHHHHHHHHHHHHHHhh---cChhhhHHHHHHH
Confidence            444455555544  333444344333333333  333454444444455566666666666554   223 233344443


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 027083          114 YAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       114 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      -+.-|.+.+++++..|++.+++ ++..+..||..-..+...+++++|.+-++..+
T Consensus       436 ~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai  489 (606)
T KOG0547|consen  436 CALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAI  489 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHH
Confidence            4444566677777777776554 33345666666666677777777776666554

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.13  E-value=0.22  Score=39.23  Aligned_cols=98  Identities=16%  Similarity=0.018  Sum_probs=74.0

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCH----HhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCcHhh
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDI----HSYNALIYAFGKLKKTFEASRVFEHLVSLG--VKPNAMS  143 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~p~~~t  143 (228)
                      ...|...+....+.|+.++|...|+.+.+.   .|+.    ..+--+-..|...|++++|...|+.+.+.-  .......
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~---yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dA  219 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKK---YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADA  219 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH---CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHH
Confidence            566777777777789999999999999874   2443    345566678999999999999999998642  1112344


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHC
Q 027083          144 YSLLVDAHLTNRDQKAALSVIDEMVNA  170 (228)
Q Consensus       144 ~~~li~~~~~~g~~~~a~~~~~~m~~~  170 (228)
                      +-.+...+...|+.++|.++++...+.
T Consensus       220 l~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        220 MFKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444556677899999999999988764

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=96.12  E-value=0.42  Score=43.18  Aligned_cols=172  Identities=13%  Similarity=0.064  Sum_probs=104.1

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHH-HHHhchhhc-------CCCCCCHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVY-FQLENLSRA-------EPPYKSVAAI   73 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~-~~~~~~~~~-------~~~~~~~~~~   73 (228)
                      |+.|.|+.-.+-++..               ..|..+.+.|.+..+-+.+..- -.++...+.       ..+. +...-
T Consensus       742 G~MD~AfksI~~IkS~---------------~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eak  805 (1416)
T KOG3617|consen  742 GSMDAAFKSIQFIKSD---------------SVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAK  805 (1416)
T ss_pred             ccHHHHHHHHHHHhhh---------------HHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhH
Confidence            5666666666655544               5689999999998876655542 122221111       1110 11111


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHc
Q 027083           74 NCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLT  153 (228)
Q Consensus        74 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~  153 (228)
                      ..  -.....|.+++|+.+|.+.++          |..|=+.|-..|++++|.++-+.=.+-+.+   .||..--.-+-.
T Consensus       806 vA--vLAieLgMlEeA~~lYr~ckR----------~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr---~Tyy~yA~~Lea  870 (1416)
T KOG3617|consen  806 VA--VLAIELGMLEEALILYRQCKR----------YDLLNKLYQSQGMWSEAFEIAETKDRIHLR---NTYYNYAKYLEA  870 (1416)
T ss_pred             HH--HHHHHHhhHHHHHHHHHHHHH----------HHHHHHHHHhcccHHHHHHHHhhccceehh---hhHHHHHHHHHh
Confidence            11  223478999999999999988          566777888999999999988765444433   556555555566


Q ss_pred             cCCHHHHHHHHHHHH-----------HC--------CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          154 NRDQKAALSVIDEMV-----------NA--------GFAPSKETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       154 ~g~~~~a~~~~~~m~-----------~~--------g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      .++.+.|++.|+.-.           +.        .-+.|...|.-.-+.+-..|+.+.|..++....+
T Consensus       871 r~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D  940 (1416)
T KOG3617|consen  871 RRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD  940 (1416)
T ss_pred             hccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh
Confidence            677777776654321           10        0122444444444555566777777777765543

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

Probab=96.07  E-value=1  Score=41.50  Aligned_cols=128  Identities=16%  Similarity=0.156  Sum_probs=81.9

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC------
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD------  105 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~------  105 (228)
                      ...+-.|++.+...+.  ...+....+......|-.+...-+..+  .+...++.+.+..+  .+..  -+..+      
T Consensus        31 ~~a~~~Li~~~~~~~~--~deai~i~~~~l~~~P~~i~~yy~~G~--l~~q~~~~~~~~lv--~~l~--~~~~~~~~~~v  102 (906)
T PRK14720         31 FKELDDLIDAYKSENL--TDEAKDICEEHLKEHKKSISALYISGI--LSLSRRPLNDSNLL--NLID--SFSQNLKWAIV  102 (906)
T ss_pred             HHHHHHHHHHHHhcCC--HHHHHHHHHHHHHhCCcceehHHHHHH--HHHhhcchhhhhhh--hhhh--hcccccchhHH
Confidence            4568889999977774  445544444444444433343333333  44455555555544  2222  11112      


Q ss_pred             -------------HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 027083          106 -------------IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       106 -------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                                   ...+-.+-.+|-+.|+.++|..+++++.+.. .-|+..-|-+-..|... ++++|++++.....
T Consensus       103 e~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~  177 (906)
T PRK14720        103 EHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIY  177 (906)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHH
Confidence                         2345556677778899999999999998877 44788888888888888 89999888776654

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.02  E-value=0.92  Score=39.43  Aligned_cols=134  Identities=15%  Similarity=0.088  Sum_probs=90.3

Q ss_pred             CCHHHHHHHHHHHHHcC-----CHHHHHHHHHHHhhcCCCCCCHH-hHHHHHHHHHhc--------CCHHHHHHHHHHHH
Q 027083           68 KSVAAINCVILGCANIW-----DLDRAYQTFEAVGSSFGLTPDIH-SYNALIYAFGKL--------KKTFEASRVFEHLV  133 (228)
Q Consensus        68 ~~~~~~~~ll~~~~~~~-----~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~--------~~~~~a~~~~~~m~  133 (228)
                      .|...|...+.+.....     +.+.|..+|++..+   ..||-. .|..+-.++...        ..+..+.+..+...
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~---ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK---SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            38889999998876432     36789999999876   356643 333322222221        11233333333322


Q ss_pred             hC-CCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          134 SL-GVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       134 ~~-g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      .. ....++..|.++--.....|++++|...+++....+  |+...|..+-..+...|+.++|...+....+.+
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            21 123456778777666667899999999999988765  788889988899999999999999988876644

>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=96.00  E-value=0.064  Score=32.42  Aligned_cols=59  Identities=22%  Similarity=0.167  Sum_probs=27.4

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccC-CHHHHHHHHHH
Q 027083          107 HSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNR-DQKAALSVIDE  166 (228)
Q Consensus       107 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g-~~~~a~~~~~~  166 (228)
                      .+|..+=..+.+.|++++|...|++..+.. +-+...|..+-.++.+.| ++++|++.++.
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~   63 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEK   63 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHH
Confidence            344444444455555555555555544432 123444444444444554 35555554444

...

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

Probab=95.96  E-value=0.93  Score=38.97  Aligned_cols=155  Identities=9%  Similarity=-0.009  Sum_probs=106.2

Q ss_pred             cchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHH
Q 027083           31 PFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYN  110 (228)
Q Consensus        31 ~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~  110 (228)
                      +..+|...|+.--|..=.+.+...  +.+........-.+++++++|..+|. +|.+.|.++|+-=.++  ..-+..--.
T Consensus       365 ~tLv~~~~mn~irR~eGlkaaR~i--F~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk--f~d~p~yv~  439 (656)
T KOG1914|consen  365 LTLVYCQYMNFIRRAEGLKAARKI--FKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKK--FGDSPEYVL  439 (656)
T ss_pred             CceehhHHHHHHHHhhhHHHHHHH--HHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHh--cCCChHHHH
Confidence            455688888877775522333333  33333322221288999999998885 6889999999976653  333444457


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCc--HhhHHHHHHHHHccCCHHHHHHHHHHHHHC-C--CCCCHHHHHHHHHH
Q 027083          111 ALIYAFGKLKKTFEASRVFEHLVSLGVKPN--AMSYSLLVDAHLTNRDQKAALSVIDEMVNA-G--FAPSKETLKKVRRR  185 (228)
Q Consensus       111 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~t~~~li~~~~~~g~~~~a~~~~~~m~~~-g--~~p~~~t~~~li~~  185 (228)
                      ..++-+...++-.+|..+|+....++..||  ...|..+|+-=..-|+...+.++-+++... .  ..|...+-..+++-
T Consensus       440 ~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~R  519 (656)
T KOG1914|consen  440 KYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDR  519 (656)
T ss_pred             HHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHH
Confidence            788889999999999999999998865554  478999999999999999999988876632 1  23333333445555


Q ss_pred             HHhcC
Q 027083          186 CVREM  190 (228)
Q Consensus       186 ~~~~~  190 (228)
                      |.-.+
T Consensus       520 Y~~~d  524 (656)
T KOG1914|consen  520 YGILD  524 (656)
T ss_pred             Hhhcc
Confidence            54443

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=95.94  E-value=0.32  Score=38.42  Aligned_cols=140  Identities=9%  Similarity=0.095  Sum_probs=99.9

Q ss_pred             cHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHc--CCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHH
Q 027083           49 TLDSVYFQLENLSRAEPPYKSVAAINCVILGCANI--WDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEAS  126 (228)
Q Consensus        49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~--~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~  126 (228)
                      ...+++..+...........|..+...+++.....  .....--++.+.+....+-.++..+.-.+|+.+++.+++..-.
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~  222 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLF  222 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHH
Confidence            35555555553222111222777888888887762  2444555566666655577899999999999999999999999


Q ss_pred             HHHHHHHhC-CCCCcHhhHHHHHHHHHccCCHHHHHHHHHH-----HHHCCCCCCHHHHHHHHHHHHh
Q 027083          127 RVFEHLVSL-GVKPNAMSYSLLVDAHLTNRDQKAALSVIDE-----MVNAGFAPSKETLKKVRRRCVR  188 (228)
Q Consensus       127 ~~~~~m~~~-g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~-----m~~~g~~p~~~t~~~li~~~~~  188 (228)
                      ++++.-... +..-|..-|..+|+.-...|+..-...+.++     +++.|+..+...-.++-+.+.+
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~~  290 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFKK  290 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHHh
Confidence            999887665 6677999999999999999998888777765     2356777777776666655544

>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=95.93  E-value=0.033  Score=34.71  Aligned_cols=60  Identities=23%  Similarity=0.311  Sum_probs=35.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCc-HhhHHHHHHHHHccCCHHHHHHHHHHH
Q 027083          108 SYNALIYAFGKLKKTFEASRVFEHLVSL----GV-KPN-AMSYSLLVDAHLTNRDQKAALSVIDEM  167 (228)
Q Consensus       108 ~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~-~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m  167 (228)
                      +|+.+-..|.+.|++++|...|++..+.    |- .|+ ..+++.+-.+|...|++++|++.+++.
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4566666666666666666666655322    11 122 455666666667777777777766654

...

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=95.92  E-value=0.28  Score=35.21  Aligned_cols=93  Identities=8%  Similarity=-0.044  Sum_probs=73.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMD  191 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~  191 (228)
                      +=.-+...|++++|+++|+-+...... +..-|-.|=-++-..|++++|++.+....... .-|...+-.+-.++...|+
T Consensus        41 ~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG~  118 (157)
T PRK15363         41 YAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACDN  118 (157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCC
Confidence            334467789999999999998876533 66677777788888899999999998877655 2456777778889999999


Q ss_pred             hhhHHHHHHHHHHcC
Q 027083          192 EESNDRVEALAKKFD  206 (228)
Q Consensus       192 ~~~a~~~~~~m~~~g  206 (228)
                      .+.|+..|+..+...
T Consensus       119 ~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        119 VCYAIKALKAVVRIC  133 (157)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999998877643

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

Probab=95.89  E-value=0.94  Score=38.49  Aligned_cols=128  Identities=12%  Similarity=0.174  Sum_probs=91.0

Q ss_pred             HHHHHHHHHH--HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-------CcHh
Q 027083           72 AINCVILGCA--NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVK-------PNAM  142 (228)
Q Consensus        72 ~~~~ll~~~~--~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-------p~~~  142 (228)
                      .|.-+-.+|+  +.+.++++...|++.+++  ++--..+||-.-..+...++++.|.+-|+......-.       +.+.
T Consensus       428 ~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~pl  505 (606)
T KOG0547|consen  428 AYAYIQLCCALYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPL  505 (606)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhh
Confidence            3333334443  678899999999999984  6566678888889999999999999999987654211       1222


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          143 SYSLLVDAHLTNRDQKAALSVIDEMVNAGFAP-SKETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       143 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      .--+++-.- -.+++..|..++....+.  -| ....|..|-..-.+.|++++|..+|+.-..
T Consensus       506 V~Ka~l~~q-wk~d~~~a~~Ll~KA~e~--Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  506 VHKALLVLQ-WKEDINQAENLLRKAIEL--DPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             hhhhHhhhc-hhhhHHHHHHHHHHHHcc--CchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            223333322 348888999988876653  33 357788888888899999999999887654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.88  E-value=0.63  Score=36.43  Aligned_cols=146  Identities=10%  Similarity=-0.003  Sum_probs=95.0

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHH---
Q 027083           74 NCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDA---  150 (228)
Q Consensus        74 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~---  150 (228)
                      ++++.+.-..+...-....+++..++ ..+-+......|.+.--+.|+.+.|...|++..+..-+.|..+++.++.-   
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~-~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKY-YPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHh-CCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            55555555667777778888888874 66677788888888888889999999999887766556677777666543   


Q ss_pred             --HHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHh
Q 027083          151 --HLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEY  223 (228)
Q Consensus       151 --~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~  223 (228)
                        |.-+++...|...+.+.....- .|...-|.=.-+.--.|+..+|....+.|...  .|......+++++|+-
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~-~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~~~nL~t  331 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDP-RNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESVLFNLTT  331 (366)
T ss_pred             hheecccchHHHHHHHhhccccCC-CchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhHHHHHHH
Confidence              3345667777777766654321 12222222222222346777888887777654  4556666666666553

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.81  E-value=1.6  Score=40.58  Aligned_cols=115  Identities=15%  Similarity=0.055  Sum_probs=67.0

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDA  150 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  150 (228)
                      ..|..+-.+=.+.|.+.+|.+-|=  +.     -|...|.-+|+...+.|.+++..+.+.-..+...+|...  +.||-+
T Consensus      1105 ~vWsqlakAQL~~~~v~dAieSyi--ka-----dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~A 1175 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGLVKDAIESYI--KA-----DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFA 1175 (1666)
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHH--hc-----CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHH
Confidence            366666666666666666665432  22     256667777777777777777777665554444444443  466677


Q ss_pred             HHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHH
Q 027083          151 HLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEAL  201 (228)
Q Consensus       151 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~  201 (228)
                      |++.+++.+.++++       ..|+......+=+-|...+.++.|+-++..
T Consensus      1176 yAkt~rl~elE~fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~ 1219 (1666)
T KOG0985|consen 1176 YAKTNRLTELEEFI-------AGPNVANIQQVGDRCFEEKMYEAAKLLYSN 1219 (1666)
T ss_pred             HHHhchHHHHHHHh-------cCCCchhHHHHhHHHhhhhhhHHHHHHHHH
Confidence            77777665554433       245555555555555555555555554443

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

Probab=95.70  E-value=0.39  Score=43.36  Aligned_cols=130  Identities=18%  Similarity=0.121  Sum_probs=76.5

Q ss_pred             HHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH--HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHH
Q 027083           50 LDSVYFQLENLSRAEPPYKSVAAINCVILGCA--NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASR  127 (228)
Q Consensus        50 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  127 (228)
                      ...++....+.....|   | ..|..+++++.  +.|..++|..+++....- +.. |..|..++-.+|...+..++|..
T Consensus        25 fkkal~~~~kllkk~P---n-~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~-~~~-D~~tLq~l~~~y~d~~~~d~~~~   98 (932)
T KOG2053|consen   25 FKKALAKLGKLLKKHP---N-ALYAKVLKALSLFRLGKGDEALKLLEALYGL-KGT-DDLTLQFLQNVYRDLGKLDEAVH   98 (932)
T ss_pred             HHHHHHHHHHHHHHCC---C-cHHHHHHHHHHHHHhcCchhHHHHHhhhccC-CCC-chHHHHHHHHHHHHHhhhhHHHH
Confidence            4455555555544343   3 25566666665  567777777766666542 322 66777777777777777777777


Q ss_pred             HHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 027083          128 VFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVR  188 (228)
Q Consensus       128 ~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~  188 (228)
                      +|++..+.  -|+-.--..+..+|.|.+++.+--++=-+|-+ .+.-....|.++++....
T Consensus        99 ~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilq  156 (932)
T KOG2053|consen   99 LYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQ  156 (932)
T ss_pred             HHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHH
Confidence            77776543  56666666677777776665443333222222 223345666666665544

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.70  E-value=0.76  Score=36.00  Aligned_cols=142  Identities=15%  Similarity=0.087  Sum_probs=94.2

Q ss_pred             HHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHH
Q 027083           35 LYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIY  114 (228)
Q Consensus        35 ~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  114 (228)
                      .++++.++--.|  +....+..+.+.....++ .+......+...-.+.||.+.|...|+...+. .-+.|..+++.++.
T Consensus       180 my~~~~~llG~k--Ey~iS~d~~~~vi~~~~e-~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~-~~kL~~~q~~~~V~  255 (366)
T KOG2796|consen  180 MYSMANCLLGMK--EYVLSVDAYHSVIKYYPE-QEPQLLSGLGRISMQIGDIKTAEKYFQDVEKV-TQKLDGLQGKIMVL  255 (366)
T ss_pred             HHHHHHHHhcch--hhhhhHHHHHHHHHhCCc-ccHHHHHHHHHHHHhcccHHHHHHHHHHHHHH-HhhhhccchhHHHH
Confidence            344555444444  333333333333333333 37777888888888999999999999988874 56677777776664


Q ss_pred             -----HHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 027083          115 -----AFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVR  183 (228)
Q Consensus       115 -----~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li  183 (228)
                           .|.-.+++.+|.+.|++..... ..|++.-|.---+..--|+..+|.+.+..|+..  .|...+-++++
T Consensus       256 ~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~~  326 (366)
T KOG2796|consen  256 MNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESVL  326 (366)
T ss_pred             hhhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhHH
Confidence                 3556678899999998876553 235566666555556678999999999998874  45555544443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.67  E-value=0.41  Score=37.91  Aligned_cols=103  Identities=18%  Similarity=0.187  Sum_probs=81.5

Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHH
Q 027083           80 CANIWDLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQK  158 (228)
Q Consensus        80 ~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~  158 (228)
                      ..+.+++++|+..|.+...   +.| |.+-|..--.+|++.|.++.|.+=.+...+.. ..-..+|..|=.+|...|+++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~---l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIE---LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHh---cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHH
Confidence            4567889999999999876   444 56677888889999999999998888776543 235678999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 027083          159 AALSVIDEMVNAGFAPSKETLKKVRRRCVR  188 (228)
Q Consensus       159 ~a~~~~~~m~~~g~~p~~~t~~~li~~~~~  188 (228)
                      +|.+.|+.-.+  +.|+-.+|..=++....
T Consensus       167 ~A~~aykKaLe--ldP~Ne~~K~nL~~Ae~  194 (304)
T KOG0553|consen  167 EAIEAYKKALE--LDPDNESYKSNLKIAEQ  194 (304)
T ss_pred             HHHHHHHhhhc--cCCCcHHHHHHHHHHHH
Confidence            99999885544  78888888877766543

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.66  E-value=1.7  Score=40.48  Aligned_cols=85  Identities=13%  Similarity=0.054  Sum_probs=52.3

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNAL  112 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  112 (228)
                      ..|+.|-.+=.+.|+  ..++...+.+     ..  |...|.-++..+.+.|.+++-.+.+.-.+++ .-.|.  .=+.|
T Consensus      1105 ~vWsqlakAQL~~~~--v~dAieSyik-----ad--Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~--id~eL 1172 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGL--VKDAIESYIK-----AD--DPSNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPY--IDSEL 1172 (1666)
T ss_pred             HHHHHHHHHHHhcCc--hHHHHHHHHh-----cC--CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCcc--chHHH
Confidence            457777777666664  2233222221     11  4557888888888888888877765544443 33343  33577


Q ss_pred             HHHHHhcCCHHHHHHHH
Q 027083          113 IYAFGKLKKTFEASRVF  129 (228)
Q Consensus       113 i~~~~~~~~~~~a~~~~  129 (228)
                      |-+|++.+++.+.+.+.
T Consensus      1173 i~AyAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1173 IFAYAKTNRLTELEEFI 1189 (1666)
T ss_pred             HHHHHHhchHHHHHHHh
Confidence            88888888777766554

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=95.60  E-value=1.4  Score=38.33  Aligned_cols=144  Identities=19%  Similarity=0.086  Sum_probs=91.7

Q ss_pred             cchhHHHHHHHHHhhCh---hcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHc--------CCHHHHHHHHHHHhhc
Q 027083           31 PFTSLYPLVVACSRKGF---ETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANI--------WDLDRAYQTFEAVGSS   99 (228)
Q Consensus        31 ~~~~~~~ll~~~~~~g~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~--------~~~~~a~~~~~~m~~~   99 (228)
                      +...|...+.+......   .+...+...+++.....|-  +...|..+--++...        .++..+.+..++....
T Consensus       336 ~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~--~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al  413 (517)
T PRK10153        336 QGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPD--FTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVAL  413 (517)
T ss_pred             CHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCC--cHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhc
Confidence            35788888888655332   3345555555555554443  445555443333221        1233444444443321


Q ss_pred             CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHH
Q 027083          100 FGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETL  179 (228)
Q Consensus       100 ~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  179 (228)
                      .....+...|.++--.....|++++|...+++....+  |+...|..+-..+...|+.++|.+.+++...  +.|..-||
T Consensus       414 ~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~--L~P~~pt~  489 (517)
T PRK10153        414 PELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFN--LRPGENTL  489 (517)
T ss_pred             ccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCCchH
Confidence            1123345667766555666799999999999998875  7899999999999999999999999987655  45655555


Q ss_pred             H
Q 027083          180 K  180 (228)
Q Consensus       180 ~  180 (228)
                      .
T Consensus       490 ~  490 (517)
T PRK10153        490 Y  490 (517)
T ss_pred             H
Confidence            4

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.55  E-value=0.64  Score=39.15  Aligned_cols=63  Identities=13%  Similarity=0.089  Sum_probs=32.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCH----HhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDI----HSYNALIYAFGKLKKTFEASRVFEHLVS  134 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~  134 (228)
                      +...|+.+=.+|.+.|++++|...|++...   +.|+.    .+|..+-.+|.+.|+.++|...+++..+
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALe---L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALE---LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344555555555555555555555555443   23432    2355555555555555555555555543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.45  E-value=0.19  Score=30.59  Aligned_cols=54  Identities=13%  Similarity=0.100  Sum_probs=26.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 027083          115 AFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       115 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      .|.+.++++.|.++++.+...+. .+...|...-.++.+.|++++|.+.|+...+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDP-DDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCc-ccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            34455555555555555544421 2344444444445555555555555555443

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

Probab=95.40  E-value=0.34  Score=38.27  Aligned_cols=80  Identities=20%  Similarity=0.199  Sum_probs=67.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHH-----CCCCCCHHHHHHH
Q 027083          108 SYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVN-----AGFAPSKETLKKV  182 (228)
Q Consensus       108 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~t~~~l  182 (228)
                      ++..++..+..+|+++.+...++++.... .-|...|-.+|.+|.+.|+...|++.++.+.+     .|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            46778888999999999999999998775 34889999999999999999999999888775     5899999888887


Q ss_pred             HHHHHh
Q 027083          183 RRRCVR  188 (228)
Q Consensus       183 i~~~~~  188 (228)
                      .+....
T Consensus       234 ~~~~~~  239 (280)
T COG3629         234 EEILRQ  239 (280)
T ss_pred             HHHhcc
Confidence            777443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.39  E-value=0.13  Score=41.11  Aligned_cols=101  Identities=17%  Similarity=0.164  Sum_probs=60.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC--CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSF--GLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSL  146 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~  146 (228)
                      +..+...++..-....+++++...+-..+...  ...|+... .++++-+. .-+++.+..++..-.+.|+.||..|++.
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~~c~  140 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFTFCL  140 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH-HHHHHHHH-ccChHHHHHHHhCcchhccccchhhHHH
Confidence            44444444444444566777766666665421  12233222 22333333 3356677777777777777777777777


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCC
Q 027083          147 LVDAHLTNRDQKAALSVIDEMVNAG  171 (228)
Q Consensus       147 li~~~~~~g~~~~a~~~~~~m~~~g  171 (228)
                      +|+.+.+.++..+|.++...|..+.
T Consensus       141 l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  141 LMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHHH
Confidence            7777777777777777777766543

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

Probab=95.37  E-value=0.63  Score=40.04  Aligned_cols=118  Identities=11%  Similarity=0.065  Sum_probs=90.1

Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ....+.+..++|-++....+.++|..+++.|==.|--.|+++.|...|+...+.. +-|-.+||.|=..++...+-++|+
T Consensus       406 ~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAI  484 (579)
T KOG1125|consen  406 DSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAI  484 (579)
T ss_pred             CHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHH
Confidence            3344667788888887765655777777777777888899999999999988764 237788999999999999999999


Q ss_pred             HHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHH
Q 027083          162 SVIDEMVNAGFAPS-KETLKKVRRRCVREMDEESNDRVEALA  202 (228)
Q Consensus       162 ~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m  202 (228)
                      ..+++..+  ++|+ +.+..-|--+|...|.+.+|...+-..
T Consensus       485 sAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~A  524 (579)
T KOG1125|consen  485 SAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEA  524 (579)
T ss_pred             HHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHH
Confidence            99998776  5665 233334555778889988888765443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.27  E-value=1.3  Score=36.15  Aligned_cols=51  Identities=12%  Similarity=0.038  Sum_probs=24.0

Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHH-HHHHhcCCHHHHHHHHH
Q 027083           78 LGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALI-YAFGKLKKTFEASRVFE  130 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li-~~~~~~~~~~~a~~~~~  130 (228)
                      .+.+..|...+|.++|-++.. ..+ -|..+|..++ ++|.+++.++.|+.++-
T Consensus       401 QAk~atgny~eaEelf~~is~-~~i-kn~~~Y~s~LArCyi~nkkP~lAW~~~l  452 (557)
T KOG3785|consen  401 QAKLATGNYVEAEELFIRISG-PEI-KNKILYKSMLARCYIRNKKPQLAWDMML  452 (557)
T ss_pred             HHHHHhcChHHHHHHHhhhcC-hhh-hhhHHHHHHHHHHHHhcCCchHHHHHHH
Confidence            444445555555555555443 111 2334443333 45555555555555543

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

Probab=95.20  E-value=2.1  Score=37.91  Aligned_cols=141  Identities=7%  Similarity=-0.124  Sum_probs=82.4

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +...|......=-..|..++...+|.+...  .++-....|-...+.+...|++..|..++.+.-+... .+...|-+-+
T Consensus       549 k~slWlra~~~ek~hgt~Esl~Allqkav~--~~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~p-nseeiwlaav  625 (913)
T KOG0495|consen  549 KKSLWLRAAMFEKSHGTRESLEALLQKAVE--QCPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANP-NSEEIWLAAV  625 (913)
T ss_pred             hhHHHHHHHHHHHhcCcHHHHHHHHHHHHH--hCCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC-CcHHHHHHHH
Confidence            444555544444455666666666666665  2444445555555666666777777777766655432 2555666666


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKN  216 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  216 (228)
                      ..-.+..+++.|..+|..-+.  ..|+...|..-+..-.-.++.++|.++.+...+  ..|+.+-+..
T Consensus       626 Kle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk--~fp~f~Kl~l  689 (913)
T KOG0495|consen  626 KLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEALRLLEEALK--SFPDFHKLWL  689 (913)
T ss_pred             HHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHH--hCCchHHHHH
Confidence            666677777777777764443  456666666555555555666666666655443  2344444433

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

Probab=95.20  E-value=2  Score=37.82  Aligned_cols=168  Identities=10%  Similarity=0.049  Sum_probs=95.7

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKS--VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYN  110 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~  110 (228)
                      ..|.-+-+-.++.-  +....+..-..+.++....+|  -..|++|-+.|.+.|+++.|.++|++-..+   ..+..-|+
T Consensus       211 qlw~elcdlis~~p--~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~---v~tvrDFt  285 (835)
T KOG2047|consen  211 QLWLELCDLISQNP--DKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT---VMTVRDFT  285 (835)
T ss_pred             hHHHHHHHHHHhCc--chhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh---heehhhHH
Confidence            34655555555544  233333232223333333334  357899999999999999999999998764   35666677


Q ss_pred             HHHHHHHhcCCHHHHH----------------------HHHHHHHhCC-----------CCCcHhhHHHHHHHHHccCCH
Q 027083          111 ALIYAFGKLKKTFEAS----------------------RVFEHLVSLG-----------VKPNAMSYSLLVDAHLTNRDQ  157 (228)
Q Consensus       111 ~li~~~~~~~~~~~a~----------------------~~~~~m~~~g-----------~~p~~~t~~~li~~~~~~g~~  157 (228)
                      .+.++|+....-..+.                      .-|+.+....           -..+..+|..-+..  ..|++
T Consensus       286 ~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l--~e~~~  363 (835)
T KOG2047|consen  286 QIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKL--YEGNA  363 (835)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhhh--hcCCh
Confidence            8888877554322221                      1222221110           01122233333321  23556


Q ss_pred             HHHHHHHHHHHHCCCCC------CHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCC
Q 027083          158 KAALSVIDEMVNAGFAP------SKETLKKVRRRCVREMDEESNDRVEALAKKFDIR  208 (228)
Q Consensus       158 ~~a~~~~~~m~~~g~~p------~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~  208 (228)
                      .+-...+.+..+. +.|      -...|..+-+-|-+.|+++.|+.+++...+-.++
T Consensus       364 ~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~  419 (835)
T KOG2047|consen  364 AEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYK  419 (835)
T ss_pred             HHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCcc
Confidence            6666666666542 112      2345666677777888888888888887776654

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

Probab=95.16  E-value=2.1  Score=37.75  Aligned_cols=57  Identities=9%  Similarity=0.045  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHL  132 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  132 (228)
                      .+|.-.|...-..+-++.+.+++++..+   +.|.  .-+--|..+++.+++++|-+-+...
T Consensus       139 rIW~lyl~Fv~~~~lPets~rvyrRYLk---~~P~--~~eeyie~L~~~d~~~eaa~~la~v  195 (835)
T KOG2047|consen  139 RIWDLYLKFVESHGLPETSIRVYRRYLK---VAPE--AREEYIEYLAKSDRLDEAAQRLATV  195 (835)
T ss_pred             cchHHHHHHHHhCCChHHHHHHHHHHHh---cCHH--HHHHHHHHHHhccchHHHHHHHHHh
Confidence            3555555555566666666666666654   2232  3566666666666666666655543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=95.03  E-value=1.4  Score=35.02  Aligned_cols=110  Identities=16%  Similarity=0.180  Sum_probs=65.4

Q ss_pred             HHHHHc-CCHHHHHHHHHHHhhc---CCCCCC--HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-----CcHh-hHH
Q 027083           78 LGCANI-WDLDRAYQTFEAVGSS---FGLTPD--IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVK-----PNAM-SYS  145 (228)
Q Consensus        78 ~~~~~~-~~~~~a~~~~~~m~~~---~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-----p~~~-t~~  145 (228)
                      ..|-.. |+++.|.+.|++...-   .+ .+.  ..++..+...+.+.|++++|..+|++....-..     ++.. .|-
T Consensus       122 ~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l  200 (282)
T PF14938_consen  122 EIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFL  200 (282)
T ss_dssp             HHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHH
Confidence            333344 5666666666654321   12 111  335677778899999999999999998775332     2222 222


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHC--CCCCC--HHHHHHHHHHHHh
Q 027083          146 LLVDAHLTNRDQKAALSVIDEMVNA--GFAPS--KETLKKVRRRCVR  188 (228)
Q Consensus       146 ~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~--~~t~~~li~~~~~  188 (228)
                      ..+-++...|++..|.+.|++....  ++..+  ......||.+|-.
T Consensus       201 ~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~  247 (282)
T PF14938_consen  201 KAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEE  247 (282)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHh
Confidence            3344667789999999999998754  44443  3556666777644

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=95.01  E-value=0.16  Score=45.10  Aligned_cols=105  Identities=8%  Similarity=0.026  Sum_probs=73.1

Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHH
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAA  160 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  160 (228)
                      .....+.+|..+.+.+..+   +.-+.-|.-+-+-|...|+++-|+++|.+-         ..++--|..|.+.|+|++|
T Consensus       743 i~akew~kai~ildniqdq---k~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da  810 (1636)
T KOG3616|consen  743 IGAKEWKKAISILDNIQDQ---KTASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDA  810 (1636)
T ss_pred             hhhhhhhhhHhHHHHhhhh---ccccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHH
Confidence            4456677888888877654   233445777889999999999999999663         2356778899999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHH
Q 027083          161 LSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVE  199 (228)
Q Consensus       161 ~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~  199 (228)
                      .++-.+..  |-......|-+=.+-+-..|.+.+|++++
T Consensus       811 ~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  811 FKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            98765443  33334455555444455556666666554

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.98  E-value=1.4  Score=35.13  Aligned_cols=36  Identities=11%  Similarity=0.158  Sum_probs=18.6

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhC
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKG   46 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g   46 (228)
                      |+.++|+..|+...+.         +.+.|...||.-+..|.+..
T Consensus       158 gqyEaAvqkFqaAlqv---------sGyqpllAYniALaHy~~~q  193 (459)
T KOG4340|consen  158 GQYEAAVQKFQAALQV---------SGYQPLLAYNLALAHYSSRQ  193 (459)
T ss_pred             ccHHHHHHHHHHHHhh---------cCCCchhHHHHHHHHHhhhh
Confidence            4555555555555555         44444445555554444443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.90  E-value=0.23  Score=39.68  Aligned_cols=99  Identities=16%  Similarity=0.163  Sum_probs=58.4

Q ss_pred             chhHHHHHHHHHhhCh-hcHHHHHHHHhchhhc-CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhH
Q 027083           32 FTSLYPLVVACSRKGF-ETLDSVYFQLENLSRA-EPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSY  109 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~-~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~  109 (228)
                      ..+-..++..-.+... .+....+..++..... ..+....++|-.++    ..=+++++..+...=.. .|+-||..++
T Consensus        64 ~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irll----lky~pq~~i~~l~npIq-YGiF~dqf~~  138 (418)
T KOG4570|consen   64 SLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLL----LKYDPQKAIYTLVNPIQ-YGIFPDQFTF  138 (418)
T ss_pred             eeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHH----HccChHHHHHHHhCcch-hccccchhhH
Confidence            3444445544443333 3444444444443322 23333344432222    23366777777777666 5888888888


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027083          110 NALIYAFGKLKKTFEASRVFEHLVSL  135 (228)
Q Consensus       110 ~~li~~~~~~~~~~~a~~~~~~m~~~  135 (228)
                      +.+|+.+.+.+++.+|.++...|...
T Consensus       139 c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  139 CLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            88888888888888888887776544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=94.89  E-value=0.35  Score=29.40  Aligned_cols=62  Identities=16%  Similarity=0.045  Sum_probs=49.0

Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhh
Q 027083           78 LGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMS  143 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t  143 (228)
                      ..|.+.++++.|.++++.+..-  -+.+...+...=.++.+.|++++|...|+...+.  .|+...
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~--~p~~~~   64 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALEL--DPDDPELWLQRARCLFQLGRYEEALEDLERALEL--SPDDPD   64 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHh--CcccchhhHHHHHHHHHhccHHHHHHHHHHHHHH--CCCcHH
Confidence            5678899999999999999873  2335556777778899999999999999998876  454443

>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=94.83  E-value=0.26  Score=29.66  Aligned_cols=64  Identities=22%  Similarity=0.112  Sum_probs=52.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcC-CHHHHHHHHHHHHh
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLK-KTFEASRVFEHLVS  134 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~  134 (228)
                      +..+|..+=..+...|++++|...|++..+. . +-+...|..+=.+|.+.| ++++|.+.++...+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~-~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIEL-D-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH-S-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-C-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            4567888888889999999999999999873 2 235667888888899999 79999999988764

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=94.77  E-value=0.85  Score=31.26  Aligned_cols=101  Identities=17%  Similarity=0.111  Sum_probs=57.0

Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCCCCHH--hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc----HhhHHHHHHHHHc
Q 027083           80 CANIWDLDRAYQTFEAVGSSFGLTPDIH--SYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN----AMSYSLLVDAHLT  153 (228)
Q Consensus        80 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~t~~~li~~~~~  153 (228)
                      +-..|+.++|..+|++-... |......  .+-.+-..|...|++++|..++++....  .|+    ......+--++..
T Consensus        11 ~d~~G~~~~Ai~~Y~~Al~~-gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~--~p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen   11 HDSLGREEEAIPLYRRALAA-GLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE--FPDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHhcCCHHHHHHHHHHHHHc-CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCccccHHHHHHHHHHHHH
Confidence            34567777777777777763 6554422  3333445677777777777777776654  233    1111112234556


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 027083          154 NRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCV  187 (228)
Q Consensus       154 ~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~  187 (228)
                      .|+.++|.+.+-....    ++...|..-|..|+
T Consensus        88 ~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   88 LGRPKEALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             CCCHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            6777777776654332    33335555555554

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

Probab=94.69  E-value=0.68  Score=40.08  Aligned_cols=122  Identities=16%  Similarity=0.204  Sum_probs=78.8

Q ss_pred             HHHHHHHhhCh-hcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHH--HH
Q 027083           37 PLVVACSRKGF-ETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNA--LI  113 (228)
Q Consensus        37 ~ll~~~~~~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~--li  113 (228)
                      .++.-..+.+. .+..+++....++....+.  +...+.+=+-+..+.+.+++|+.+.+.-.       -..+++.  +=
T Consensus        14 ~l~t~ln~~~~~~e~e~a~k~~~Kil~~~pd--d~~a~~cKvValIq~~ky~~ALk~ikk~~-------~~~~~~~~~fE   84 (652)
T KOG2376|consen   14 ALLTDLNRHGKNGEYEEAVKTANKILSIVPD--DEDAIRCKVVALIQLDKYEDALKLIKKNG-------ALLVINSFFFE   84 (652)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHhcCCC--cHhhHhhhHhhhhhhhHHHHHHHHHHhcc-------hhhhcchhhHH
Confidence            33444444443 4677777777777766643  66677777777888888888885543322       1122333  34


Q ss_pred             HHHH--hcCCHHHHHHHHHHHHhCCCCCcHh-hHHHHHHHHHccCCHHHHHHHHHHHHHCCC
Q 027083          114 YAFG--KLKKTFEASRVFEHLVSLGVKPNAM-SYSLLVDAHLTNRDQKAALSVIDEMVNAGF  172 (228)
Q Consensus       114 ~~~~--~~~~~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~g~~~~a~~~~~~m~~~g~  172 (228)
                      ++||  +.+..|+|...++     |..++.. +-..--..+.+.|++++|.++++.+.+++.
T Consensus        85 KAYc~Yrlnk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~  141 (652)
T KOG2376|consen   85 KAYCEYRLNKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNS  141 (652)
T ss_pred             HHHHHHHcccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            5665  6688888888887     3333333 555555667788999999999998887664

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

Probab=94.68  E-value=2.4  Score=36.72  Aligned_cols=131  Identities=15%  Similarity=0.099  Sum_probs=94.7

Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHh
Q 027083           64 EPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD-IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAM  142 (228)
Q Consensus        64 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  142 (228)
                      .+..+|..+.+.|=-.|--.|+++.|.+.|+....   ++|+ ..+||-|=-.++...+.++|...|++..+....--.+
T Consensus       424 ~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~---v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~  500 (579)
T KOG1125|consen  424 LPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQ---VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRV  500 (579)
T ss_pred             CCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHh---cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeee
Confidence            33334666777777777788999999999999975   4665 5589999999999999999999999998764332344


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHH---HCC------CCCCHHHHHHHHHHHHhcCChhhHHHH
Q 027083          143 SYSLLVDAHLTNRDQKAALSVIDEMV---NAG------FAPSKETLKKVRRRCVREMDEESNDRV  198 (228)
Q Consensus       143 t~~~li~~~~~~g~~~~a~~~~~~m~---~~g------~~p~~~t~~~li~~~~~~~~~~~a~~~  198 (228)
                      =||.-|+ |...|.+++|.+.|-+..   ..+      -.++...|.+|=.++.-.++.+.+.++
T Consensus       501 RyNlgIS-~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  501 RYNLGIS-CMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             ehhhhhh-hhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            4666665 789999999988776643   331      223456787777677666766644443

>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=94.58  E-value=0.18  Score=31.25  Aligned_cols=64  Identities=20%  Similarity=0.121  Sum_probs=50.0

Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHC----CC-CCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          141 AMSYSLLVDAHLTNRDQKAALSVIDEMVNA----GF-APS-KETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       141 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      ..+|+.+-..|.+.|++++|++.|++..+.    |- .|+ ..++..+-..+...|+.++|.+.++...+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            457888999999999999999999987643    21 233 46777778889999999999999887654

...

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.54  E-value=1.1  Score=37.70  Aligned_cols=64  Identities=17%  Similarity=0.156  Sum_probs=47.0

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcH----hhHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 027083          105 DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNA----MSYSLLVDAHLTNRDQKAALSVIDEMVNA  170 (228)
Q Consensus       105 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~t~~~li~~~~~~g~~~~a~~~~~~m~~~  170 (228)
                      +...++.+-.+|.+.|++++|...|++..+.  .|+.    .+|..+-.+|...|+.++|.+.+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4556777777888888888888888876654  4553    35777888888888888888888777664

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.48  E-value=2.1  Score=34.41  Aligned_cols=121  Identities=11%  Similarity=0.149  Sum_probs=79.1

Q ss_pred             HHHHHHHHHHHhhcCCC--CCCHHhHHHHHHHHHhcCC----HHHHHHHHHHHHhCCCCCcH--hhHHHHHHHHHccCC-
Q 027083           86 LDRAYQTFEAVGSSFGL--TPDIHSYNALIYAFGKLKK----TFEASRVFEHLVSLGVKPNA--MSYSLLVDAHLTNRD-  156 (228)
Q Consensus        86 ~~~a~~~~~~m~~~~~~--~p~~~~~~~li~~~~~~~~----~~~a~~~~~~m~~~g~~p~~--~t~~~li~~~~~~g~-  156 (228)
                      ...+..+|+.|++++.+  .++.+++.+++..  ..++    .+.++.+|+.+.+.|+..+-  .+-+.++..+-.... 
T Consensus       119 ~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~  196 (297)
T PF13170_consen  119 IQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQE  196 (297)
T ss_pred             HHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchH
Confidence            56799999999986432  5677788888766  3333    46688899999998877543  444445544433333 


Q ss_pred             -HHHHHHHHHHHHHCCCCCCHHHHHHH-HHHHHhcCC---hhhHHHHHHHHHH-cCCC
Q 027083          157 -QKAALSVIDEMVNAGFAPSKETLKKV-RRRCVREMD---EESNDRVEALAKK-FDIR  208 (228)
Q Consensus       157 -~~~a~~~~~~m~~~g~~p~~~t~~~l-i~~~~~~~~---~~~a~~~~~~m~~-~g~~  208 (228)
                       ...+.++++.+++.|+++....|..+ +-++...+.   ++....+.+.+.+ .|+.
T Consensus       197 ~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~~~~~~~i~ev~~~L~~~k~~~  254 (297)
T PF13170_consen  197 KVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPEEKIVEEIKEVIDELKEQKGFG  254 (297)
T ss_pred             HHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCchHHHHHHHHHHHHHHhhCcccC
Confidence             34788999999999999988887754 223333333   4444455555554 3444

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

Probab=94.45  E-value=3  Score=36.13  Aligned_cols=139  Identities=13%  Similarity=0.089  Sum_probs=98.8

Q ss_pred             HHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC-CC---CC-CHHhHHHHHHHH
Q 027083           42 CSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSF-GL---TP-DIHSYNALIYAF  116 (228)
Q Consensus        42 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~---~p-~~~~~~~li~~~  116 (228)
                      |.+.+....++.++..  .....|.  |....+-+=-..-..+.+.+|...|+...... .+   ++ -..+++.|=.+|
T Consensus       390 y~~t~n~kLAe~Ff~~--A~ai~P~--Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~  465 (611)
T KOG1173|consen  390 YMRTNNLKLAEKFFKQ--ALAIAPS--DPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAY  465 (611)
T ss_pred             HHHhccHHHHHHHHHH--HHhcCCC--cchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHH
Confidence            4444544444444432  2333333  55666655555556788999999998876210 11   11 234578888899


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 027083          117 GKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCV  187 (228)
Q Consensus       117 ~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~  187 (228)
                      .+.+.+++|...|+...... .-|..|+.++--.|...|+++.|.+.|.+  ...++||-.+-..++..+.
T Consensus       466 Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhK--aL~l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  466 RKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHK--ALALKPDNIFISELLKLAI  533 (611)
T ss_pred             HHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHH--HHhcCCccHHHHHHHHHHH
Confidence            99999999999999987664 45899999999999999999999999984  4458999988888887543

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.40  E-value=0.87  Score=29.76  Aligned_cols=62  Identities=18%  Similarity=0.183  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH-HcCCCcchhhHHHHHHHH
Q 027083          158 KAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAK-KFDIRMNTENRKNILFNL  221 (228)
Q Consensus       158 ~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~-~~g~~~~~~~~~~li~~l  221 (228)
                      -++.+-++.+....+.|+.....+.+++|.|.+++..|.++++-++ +.|.  +..+|..++.-+
T Consensus        24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lqei   86 (103)
T cd00923          24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQEI   86 (103)
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHHHH
Confidence            3444455555555666666666666666666666666666666544 3332  334555555443

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=94.30  E-value=4.5  Score=37.63  Aligned_cols=136  Identities=11%  Similarity=0.025  Sum_probs=85.5

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhc---CCCCCCHHh-H-HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcH---h
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSS---FGLTPDIHS-Y-NALIYAFGKLKKTFEASRVFEHLVSLGVKPNA---M  142 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~p~~~~-~-~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~---~  142 (228)
                      ..+..+-......|+.+.|.+.+++...-   .+..+.... . ...+..+...|+.+.|...+.+..........   .
T Consensus       613 ~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~  692 (903)
T PRK04841        613 QCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQG  692 (903)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHH
Confidence            34444555667889999999998887531   111111101 1 11234456688999999998775542211111   1


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHH----CCCCCCH-HHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          143 SYSLLVDAHLTNRDQKAALSVIDEMVN----AGFAPSK-ETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       143 t~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      .+..+-.++...|+.++|...+++...    .|..++. .+...+-.++.+.|+.++|...+....+..
T Consensus       693 ~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        693 QWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            134566677888999999999888764    2433332 455555667888999999998888877654

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

Probab=94.27  E-value=2  Score=38.30  Aligned_cols=134  Identities=15%  Similarity=0.141  Sum_probs=100.4

Q ss_pred             cHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC-HHhHHHHHHHHHhcCCHHHHHH
Q 027083           49 TLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD-IHSYNALIYAFGKLKKTFEASR  127 (228)
Q Consensus        49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~  127 (228)
                      +.......++......+.  -..+|-.+=.+..+.++++.|.+.|..-..   ..|| ...||++=.+|.+.+.-.+|.+
T Consensus       500 ~fs~~~~hle~sl~~npl--q~~~wf~~G~~ALqlek~q~av~aF~rcvt---L~Pd~~eaWnNls~ayi~~~~k~ra~~  574 (777)
T KOG1128|consen  500 DFSEADKHLERSLEINPL--QLGTWFGLGCAALQLEKEQAAVKAFHRCVT---LEPDNAEAWNNLSTAYIRLKKKKRAFR  574 (777)
T ss_pred             hHHHHHHHHHHHhhcCcc--chhHHHhccHHHHHHhhhHHHHHHHHHHhh---cCCCchhhhhhhhHHHHHHhhhHHHHH
Confidence            455555566555555555  344666655556688999999999998875   4565 5589999999999999999999


Q ss_pred             HHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHh
Q 027083          128 VFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAG-FAPSKETLKKVRRRCVR  188 (228)
Q Consensus       128 ~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~t~~~li~~~~~  188 (228)
                      .+.+..+.+ .-+...|...+....+-|.+++|++.++++.+.. -+.|...-..++....+
T Consensus       575 ~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~d~~vl~~iv~~~~~  635 (777)
T KOG1128|consen  575 KLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKDDEVLLIIVRTVLE  635 (777)
T ss_pred             HHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhcccchhhHHHHHHHHh
Confidence            999998887 5577888888888899999999999999887432 22366666666555443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.24  E-value=1.3  Score=30.99  Aligned_cols=24  Identities=17%  Similarity=-0.003  Sum_probs=11.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHH
Q 027083          109 YNALIYAFGKLKKTFEASRVFEHL  132 (228)
Q Consensus       109 ~~~li~~~~~~~~~~~a~~~~~~m  132 (228)
                      ...+++.|.+.+.++++.-++..+
T Consensus        72 ~~~~~~~c~~~~l~~~~~~l~~k~   95 (140)
T smart00299       72 IEKVGKLCEKAKLYEEAVELYKKD   95 (140)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHhh
Confidence            334555555555555555555443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=94.18  E-value=1.2  Score=30.52  Aligned_cols=101  Identities=11%  Similarity=0.004  Sum_probs=71.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCc--HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC---H-HHHHHHHHHHHh
Q 027083          115 AFGKLKKTFEASRVFEHLVSLGVKPN--AMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPS---K-ETLKKVRRRCVR  188 (228)
Q Consensus       115 ~~~~~~~~~~a~~~~~~m~~~g~~p~--~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~-~t~~~li~~~~~  188 (228)
                      ++-..|+.++|..+|++....|....  ...+-.+-+++...|++++|..+|++.....  |+   . .....+--++..
T Consensus        10 a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen   10 AHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHH
Confidence            45567999999999999999886654  3456667778888999999999999877542  44   1 111222346778


Q ss_pred             cCChhhHHHHHHHHHHcCCCcchhhHHHHHHHH
Q 027083          189 EMDEESNDRVEALAKKFDIRMNTENRKNILFNL  221 (228)
Q Consensus       189 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l  221 (228)
                      .|+.++|...+-...-    ++...|..-|...
T Consensus        88 ~gr~~eAl~~~l~~la----~~~~~y~ra~~~y  116 (120)
T PF12688_consen   88 LGRPKEALEWLLEALA----ETLPRYRRAIRFY  116 (120)
T ss_pred             CCCHHHHHHHHHHHHH----HHHHHHHHHHHHH
Confidence            8999999887665443    3444666665543

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

Probab=94.12  E-value=1.2  Score=35.32  Aligned_cols=79  Identities=18%  Similarity=0.126  Sum_probs=66.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCcHhhHHH
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVS-----LGVKPNAMSYSL  146 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~~p~~~t~~~  146 (228)
                      ++..+...+...|+.+.+...+++....  =+-|...|..+|.+|.+.|+...|.+.|+++.+     .|+.|...+...
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~--dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIEL--DPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            4566777788889999999999998863  345888999999999999999999999998866     599999999888


Q ss_pred             HHHHHH
Q 027083          147 LVDAHL  152 (228)
Q Consensus       147 li~~~~  152 (228)
                      ......
T Consensus       233 y~~~~~  238 (280)
T COG3629         233 YEEILR  238 (280)
T ss_pred             HHHHhc
Confidence            888733

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=94.01  E-value=2.5  Score=33.56  Aligned_cols=145  Identities=11%  Similarity=0.035  Sum_probs=105.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHh-cC-CHHHHHHHHHHHHhC-CCCCcHhhHHHHHH
Q 027083           73 INCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGK-LK-KTFEASRVFEHLVSL-GVKPNAMSYSLLVD  149 (228)
Q Consensus        73 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~-~~-~~~~a~~~~~~m~~~-g~~p~~~t~~~li~  149 (228)
                      |..+++   ....+-+|+++|+...-+..+--|..+...+++.... .+ ....-.++.+.+.+. +-.++..+--.+|+
T Consensus       134 Y~~LVk---~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~  210 (292)
T PF13929_consen  134 YWDLVK---RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILE  210 (292)
T ss_pred             HHHHHH---hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHH
Confidence            666665   4557888999999543312577788888888888776 22 344445555555543 45789999999999


Q ss_pred             HHHccCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCChhhHHHHHHH-----HHHcCCCcchhhHHHHHHH
Q 027083          150 AHLTNRDQKAALSVIDEMVNA-GFAPSKETLKKVRRRCVREMDEESNDRVEAL-----AKKFDIRMNTENRKNILFN  220 (228)
Q Consensus       150 ~~~~~g~~~~a~~~~~~m~~~-g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~-----m~~~g~~~~~~~~~~li~~  220 (228)
                      .+++.+++.+-.++.+.-... +..-|...|...|+.....|+.+..+.+...     +.+.|+..+...-..+-+-
T Consensus       211 ~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~L  287 (292)
T PF13929_consen  211 ILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSEL  287 (292)
T ss_pred             HHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHH
Confidence            999999999999988776654 6677999999999999999998887777543     4456677666555544433

>PLN02789 farnesyltranstransferase

Probab=93.97  E-value=2.8  Score=34.04  Aligned_cols=166  Identities=8%  Similarity=-0.000  Sum_probs=100.2

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCC--HHHHHHHHHHHhhcCCCCCCHHhHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWD--LDRAYQTFEAVGSSFGLTPDIHSYN  110 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~--~~~a~~~~~~m~~~~~~~p~~~~~~  110 (228)
                      .+|+.--.++.+.|. ...+++....+.....+-  +..+|+..--.+.+.|.  .+.+..+.+.+.+.  -.-|...|+
T Consensus        72 taW~~R~~iL~~L~~-~l~eeL~~~~~~i~~npk--nyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~--dpkNy~AW~  146 (320)
T PLN02789         72 TVWHFRRLCLEALDA-DLEEELDFAEDVAEDNPK--NYQIWHHRRWLAEKLGPDAANKELEFTRKILSL--DAKNYHAWS  146 (320)
T ss_pred             HHHHHHHHHHHHcch-hHHHHHHHHHHHHHHCCc--chHHhHHHHHHHHHcCchhhHHHHHHHHHHHHh--CcccHHHHH
Confidence            345544444444442 234455444444443333  66677755444555554  26678888887762  234666888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHcc---CCH----HHHHHHHHHHHHCCCCCCHHHHHHHH
Q 027083          111 ALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTN---RDQ----KAALSVIDEMVNAGFAPSKETLKKVR  183 (228)
Q Consensus       111 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~---g~~----~~a~~~~~~m~~~g~~p~~~t~~~li  183 (228)
                      ..--.+.+.|+++++...++++.+.+.. |...|+.....+.+.   |..    +...+...+.+... .-|...|+-+-
T Consensus       147 ~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~  224 (320)
T PLN02789        147 HRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILAN-PRNESPWRYLR  224 (320)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhC-CCCcCHHHHHH
Confidence            8888888889999999999999887754 677777766655443   222    34555555555432 23567777777


Q ss_pred             HHHHhc----CChhhHHHHHHHHHHc
Q 027083          184 RRCVRE----MDEESNDRVEALAKKF  205 (228)
Q Consensus       184 ~~~~~~----~~~~~a~~~~~~m~~~  205 (228)
                      ..+...    +...++........+.
T Consensus       225 ~ll~~~~~~l~~~~~~~~~~~~~~~~  250 (320)
T PLN02789        225 GLFKDDKEALVSDPEVSSVCLEVLSK  250 (320)
T ss_pred             HHHhcCCcccccchhHHHHHHHhhcc
Confidence            777662    3334566666665553

>PRK15331 chaperone protein SicA; Provisional

Probab=93.91  E-value=1.7  Score=31.45  Aligned_cols=85  Identities=14%  Similarity=0.005  Sum_probs=44.5

Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ..|++++|..+|.-...- +. -|..-|..|=.+|-..+.+++|...|........ -|+..+--.=.++...|+.+.|.
T Consensus        49 ~~Gk~~eA~~~F~~L~~~-d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A~  125 (165)
T PRK15331         49 NQGRLDEAETFFRFLCIY-DF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKAR  125 (165)
T ss_pred             HCCCHHHHHHHHHHHHHh-Cc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHHH
Confidence            456666666666666541 11 1122233444445555666666666665443332 23333444445666666666666


Q ss_pred             HHHHHHHH
Q 027083          162 SVIDEMVN  169 (228)
Q Consensus       162 ~~~~~m~~  169 (228)
                      ..|.....
T Consensus       126 ~~f~~a~~  133 (165)
T PRK15331        126 QCFELVNE  133 (165)
T ss_pred             HHHHHHHh
Confidence            66655544

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=93.80  E-value=0.91  Score=29.98  Aligned_cols=43  Identities=16%  Similarity=0.200  Sum_probs=21.3

Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 027083          161 LSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAK  203 (228)
Q Consensus       161 ~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~  203 (228)
                      .+-++.+....+.|+.....+.+++|.|.+++..|.++++-+.
T Consensus        30 rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK   72 (108)
T PF02284_consen   30 RRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIK   72 (108)
T ss_dssp             HHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3344444445555555555555566655555555555555544

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 ....

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

Probab=93.71  E-value=4.4  Score=35.37  Aligned_cols=163  Identities=13%  Similarity=0.102  Sum_probs=98.4

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH--------HHhhcCCCC
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFE--------AVGSSFGLT  103 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~--------~m~~~~~~~  103 (228)
                      ...+.+|+..+.+........+-..+...-. ..|.-+..+--.++......|+++.|.+++.        .+.+ .+..
T Consensus       339 ~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~-~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~-~~~~  416 (652)
T KOG2376|consen  339 ESLFPILLQEATKVREKKHKKAIELLLQFAD-GHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILE-AKHL  416 (652)
T ss_pred             hHHHHHHHHHHHHHHHHHHhhhHHHHHHHhc-cCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhh-hccC
Confidence            3445666666666543212222222222222 2232245566667777788899999999888        5544 2444


Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCc----HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHH
Q 027083          104 PDIHSYNALIYAFGKLKKTFEASRVFEHLVSL--GVKPN----AMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKE  177 (228)
Q Consensus       104 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~p~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  177 (228)
                      |  .+-.+++..+.+.++-+.|..++++....  .-.+.    ..++.-+...=.+.|..++|..+++++.+.. .+|..
T Consensus       417 P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~  493 (652)
T KOG2376|consen  417 P--GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN-PNDTD  493 (652)
T ss_pred             h--hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHH
Confidence            4  44566777788888877777777765432  00122    2233333344456788999999999888753 56788


Q ss_pred             HHHHHHHHHHhcCChhhHHHHHH
Q 027083          178 TLKKVRRRCVREMDEESNDRVEA  200 (228)
Q Consensus       178 t~~~li~~~~~~~~~~~a~~~~~  200 (228)
                      +...++.+|++. +.+.|+.+-.
T Consensus       494 ~l~~lV~a~~~~-d~eka~~l~k  515 (652)
T KOG2376|consen  494 LLVQLVTAYARL-DPEKAESLSK  515 (652)
T ss_pred             HHHHHHHHHHhc-CHHHHHHHhh
Confidence            888888888886 4566655543

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=93.71  E-value=1.3  Score=31.34  Aligned_cols=84  Identities=17%  Similarity=0.218  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC-----CCCCHHhHHHHHHHHHhcCC-HHHHHHHHHHHHhCCCCCcHhh
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFG-----LTPDIHSYNALIYAFGKLKK-TFEASRVFEHLVSLGVKPNAMS  143 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-----~~p~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~g~~p~~~t  143 (228)
                      ....|++|+-.+.-++......+++.+..= .     -..+..+|++++++.++... ---+..+|+.|++.+.+++..-
T Consensus        39 ~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l-~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~d  117 (145)
T PF13762_consen   39 TIFINCILNHLASYQNFSGVVSILEHLHFL-NTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSD  117 (145)
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHh-hHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHH
Confidence            456788888888888888888888877430 0     01234456666666655544 2234556666666556666666


Q ss_pred             HHHHHHHHHcc
Q 027083          144 YSLLVDAHLTN  154 (228)
Q Consensus       144 ~~~li~~~~~~  154 (228)
                      |..||.++.+.
T Consensus       118 y~~li~~~l~g  128 (145)
T PF13762_consen  118 YSCLIKAALRG  128 (145)
T ss_pred             HHHHHHHHHcC
Confidence            66666665554

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=93.48  E-value=2.2  Score=33.93  Aligned_cols=101  Identities=16%  Similarity=0.098  Sum_probs=81.0

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChhh
Q 027083          116 FGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPS-KETLKKVRRRCVREMDEES  194 (228)
Q Consensus       116 ~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~  194 (228)
                      ..+.+++++|...|.+..... .-|++-|.---.+|.+-|..+.|.+-.+.-..  +-|. ..+|..|=.+|...|++++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCcHHH
Confidence            467899999999999998764 34788888889999999999999887765554  3343 4788888889999999999


Q ss_pred             HHHHHHHHHHcCCCcchhhHHHHHHHH
Q 027083          195 NDRVEALAKKFDIRMNTENRKNILFNL  221 (228)
Q Consensus       195 a~~~~~~m~~~g~~~~~~~~~~li~~l  221 (228)
                      |.+.|...  ..+.|+.++|+.=+...
T Consensus       168 A~~aykKa--LeldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  168 AIEAYKKA--LELDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHHhh--hccCCCcHHHHHHHHHH
Confidence            99987655  45788888998766544

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=93.35  E-value=4.5  Score=34.35  Aligned_cols=144  Identities=16%  Similarity=0.115  Sum_probs=97.2

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhH-HH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSY-NA  111 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~-~~  111 (228)
                      .+|.+.|+.--+..=..++..++.-  ....+..-+++++++++|..++. ||...|..+|+-=...   -||...| +-
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k--~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~---f~d~~~y~~k  471 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIK--LRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK---FPDSTLYKEK  471 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHH--HhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh---CCCchHHHHH
Confidence            3577777777665422344444433  33333334489999999998874 7888999999875542   3555544 66


Q ss_pred             HHHHHHhcCCHHHHHHHHH----HHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 027083          112 LIYAFGKLKKTFEASRVFE----HLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCV  187 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~----~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~  187 (228)
                      .+.-+...++-+.|..+|+    ++.+...   -..|..+|+-=..-|+...+..+=+.|..  +.|-..+......-|.
T Consensus       472 yl~fLi~inde~naraLFetsv~r~~~~q~---k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~Sry~  546 (660)
T COG5107         472 YLLFLIRINDEENARALFETSVERLEKTQL---KRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFTSRYA  546 (660)
T ss_pred             HHHHHHHhCcHHHHHHHHHHhHHHHHHhhh---hHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHHHHHh
Confidence            7778889999999999999    4433322   46899999988899999888887777765  3454444444444443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=93.25  E-value=2.6  Score=37.64  Aligned_cols=26  Identities=12%  Similarity=0.109  Sum_probs=13.7

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAV   96 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m   96 (228)
                      ..|+.+=..++....+++|.+.|..-
T Consensus       797 ~A~r~ig~~fa~~~~We~A~~yY~~~  822 (1189)
T KOG2041|consen  797 DAFRNIGETFAEMMEWEEAAKYYSYC  822 (1189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34555555555555555555555443

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.19  E-value=1.2  Score=37.91  Aligned_cols=100  Identities=12%  Similarity=-0.016  Sum_probs=53.6

Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCC
Q 027083           77 ILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRD  156 (228)
Q Consensus        77 l~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~  156 (228)
                      .....+.|+++.|.++.       .-.++...|..|-+...+.|+++-|++.|++..         -|..|+--|.-.|+
T Consensus       325 FeLAl~lg~L~~A~~~a-------~~~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~  388 (443)
T PF04053_consen  325 FELALQLGNLDIALEIA-------KELDDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGD  388 (443)
T ss_dssp             HHHHHHCT-HHHHHHHC-------CCCSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-
T ss_pred             hHHHHhcCCHHHHHHHH-------HhcCcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCC
Confidence            34444556666655542       223355567777777777777777776665532         24455555566666


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHH
Q 027083          157 QKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRV  198 (228)
Q Consensus       157 ~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~  198 (228)
                      .+...++.+.....|-      +|..+.++.-.|++++..++
T Consensus       389 ~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~l  424 (443)
T PF04053_consen  389 REKLSKLAKIAEERGD------INIAFQAALLLGDVEECVDL  424 (443)
T ss_dssp             HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHH
T ss_pred             HHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHHH
Confidence            6665555555444442      45555555566666554443

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=93.02  E-value=2.2  Score=29.85  Aligned_cols=117  Identities=15%  Similarity=0.164  Sum_probs=70.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHh---HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHS---YNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYS  145 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~---~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~  145 (228)
                      +..-||-+|--....-+-+-..++++.+-+-    .|...   .-.+|.+|.+.|                  .+....+
T Consensus        33 ni~E~NWvICNiiDaa~C~yvv~~LdsIGki----FDis~C~NlKrVi~C~~~~n------------------~~se~vD   90 (161)
T PF09205_consen   33 NIKEYNWVICNIIDAADCDYVVETLDSIGKI----FDISKCGNLKRVIECYAKRN------------------KLSEYVD   90 (161)
T ss_dssp             -HHHHTHHHHHHHHH--HHHHHHHHHHHGGG----S-GGG-S-THHHHHHHHHTT---------------------HHHH
T ss_pred             CccccceeeeecchhhchhHHHHHHHHHhhh----cCchhhcchHHHHHHHHHhc------------------chHHHHH
Confidence            4555666666555555555555565555442    12221   123333333333                  3556677


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCC
Q 027083          146 LLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIR  208 (228)
Q Consensus       146 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~  208 (228)
                      .-++....+|+-+.-.++.+++.+ +-.|++...-.+-.+|.+.|+..++..++...-+.|++
T Consensus        91 ~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   91 LALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            778888888988888888888776 34778888888999999999999999999999998875

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=92.96  E-value=2.4  Score=30.09  Aligned_cols=98  Identities=9%  Similarity=0.127  Sum_probs=72.0

Q ss_pred             HhhcCCCCCCHH--hHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-----CCcHhhHHHHHHHHHccCCH-HHHHHHHHHH
Q 027083           96 VGSSFGLTPDIH--SYNALIYAFGKLKKTFEASRVFEHLVSLGV-----KPNAMSYSLLVDAHLTNRDQ-KAALSVIDEM  167 (228)
Q Consensus        96 m~~~~~~~p~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-----~p~~~t~~~li~~~~~~g~~-~~a~~~~~~m  167 (228)
                      |.+ .+..++..  ..|+++.-...-+.+....++++.+..-..     ..+..+|.+++.+.+..... --+..+|+-|
T Consensus        28 ~~~-~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~L  106 (145)
T PF13762_consen   28 MQE-ENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFL  106 (145)
T ss_pred             hhh-cccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHH
Confidence            444 26666654  458888888888888888888887743211     24667899999999777763 4457788889


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCChhh
Q 027083          168 VNAGFAPSKETLKKVRRRCVREMDEES  194 (228)
Q Consensus       168 ~~~g~~p~~~t~~~li~~~~~~~~~~~  194 (228)
                      ++.+.+++..-|..+|.++.+....+.
T Consensus       107 k~~~~~~t~~dy~~li~~~l~g~~~~~  133 (145)
T PF13762_consen  107 KKNDIEFTPSDYSCLIKAALRGYFHDS  133 (145)
T ss_pred             HHcCCCCCHHHHHHHHHHHHcCCCCcc
Confidence            988899999999999999887744433

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=92.68  E-value=3.7  Score=34.03  Aligned_cols=125  Identities=15%  Similarity=0.057  Sum_probs=86.4

Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcC----CC---------CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhH
Q 027083           78 LGCANIWDLDRAYQTFEAVGSSF----GL---------TPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSY  144 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~~----~~---------~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~  144 (228)
                      +.+.+.|++..|..-|+...+-.    +.         ..-..+++.+--+|.|.+++..|.+..+.....+ .+|.-.-
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KAL  294 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKAL  294 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHH
Confidence            35567778887777777643311    11         2235578889999999999999999999988765 4566666


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-hcCC-hhhHHHHHHHHHHc
Q 027083          145 SLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCV-REMD-EESNDRVEALAKKF  205 (228)
Q Consensus       145 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~-~~~~-~~~a~~~~~~m~~~  205 (228)
                      -.-=.++...|+++.|+..|+.+.+  +.|+-..-..=|..|. +... .+....+|..|...
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            6666788889999999999998876  5676555555444444 3333 34445777777653

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=92.37  E-value=6  Score=36.85  Aligned_cols=130  Identities=10%  Similarity=-0.043  Sum_probs=77.8

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHH--HHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIY--AFGKLKKTFEASRVFEHLVSLGVKPNAMSYSL  146 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~--~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~  146 (228)
                      +...+-.+-..|++..+++.|..+.-...+  .-+.-...+|-+-.  .|.+.++..+|..-|+...+... .|...|..
T Consensus       525 daeaaaa~adtyae~~~we~a~~I~l~~~q--ka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dP-kD~n~W~g  601 (1238)
T KOG1127|consen  525 DAEAAAASADTYAEESTWEEAFEICLRAAQ--KAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDP-KDYNLWLG  601 (1238)
T ss_pred             hhhhHHHHHHHhhccccHHHHHHHHHHHhh--hchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCc-hhHHHHHH
Confidence            556666677777777777777776222221  11112222333322  35566677777777776665543 37788899


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH--HHHhcCChhhHHHHHHHHHH
Q 027083          147 LVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRR--RCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       147 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~--~~~~~~~~~~a~~~~~~m~~  204 (228)
                      +..+|.++|+...|.++|.+...  +.|+. +|.....  .-+..|...++...++.+..
T Consensus       602 LGeAY~~sGry~~AlKvF~kAs~--LrP~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  602 LGEAYPESGRYSHALKVFTKASL--LRPLS-KYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             HHHHHHhcCceehHHHhhhhhHh--cCcHh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            99999999999999999876543  44542 2222221  23456777777766666554

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=92.35  E-value=2.7  Score=30.96  Aligned_cols=63  Identities=14%  Similarity=0.065  Sum_probs=40.2

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCH--HhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDI--HSYNALIYAFGKLKKTFEASRVFEHLVS  134 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~  134 (228)
                      ..+..+-..|++.||.+.|.+.|.++... ...|..  ..+-.+|......+++..+....++...
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~-~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDY-CTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhh-cCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            45666667777777777777777777653 333332  2455666667777777777666665543

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=92.20  E-value=6.6  Score=33.35  Aligned_cols=198  Identities=11%  Similarity=0.016  Sum_probs=113.8

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++.+|..+|-+.-+.....+-.    +....--+.++++|...+-+..+.   .........+.    ..|-.+..+..
T Consensus        20 ~~~~esEkifskI~~e~~~~~f~----lkeEvl~grilnAffl~nld~Me~---~l~~l~~~~~~----s~~l~LF~~L~   88 (549)
T PF07079_consen   20 KKFQESEKIFSKIYDEKESSPFL----LKEEVLGGRILNAFFLNNLDLMEK---QLMELRQQFGK----SAYLPLFKALV   88 (549)
T ss_pred             hhhhHHHHHHHHHHHHhhcchHH----HHHHHHhhHHHHHHHHhhHHHHHH---HHHHHHHhcCC----chHHHHHHHHH
Confidence            56777888887766553222111    111233567899999887433333   33333333332    24555555543


Q ss_pred             --HcCCHHHHHHHHHHHhhc-CCCCC------------CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCcHh
Q 027083           82 --NIWDLDRAYQTFEAVGSS-FGLTP------------DIHSYNALIYAFGKLKKTFEASRVFEHLVSL----GVKPNAM  142 (228)
Q Consensus        82 --~~~~~~~a~~~~~~m~~~-~~~~p------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~~~  142 (228)
                        +.++.+.|.+.+.....+ .+.+|            |-..=+..+.++.+.|++.++..+++++...    ...-+..
T Consensus        89 ~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d  168 (549)
T PF07079_consen   89 AYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSD  168 (549)
T ss_pred             HHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHH
Confidence              667888888888877652 02222            2222277788999999999999888887654    3346899


Q ss_pred             hHHHHHHHHHccCCH---------------HHHHHHHHHHHH--C----CCCCCHHHHHHHHHHHHhc--CChhhHHHHH
Q 027083          143 SYSLLVDAHLTNRDQ---------------KAALSVIDEMVN--A----GFAPSKETLKKVRRRCVRE--MDEESNDRVE  199 (228)
Q Consensus       143 t~~~li~~~~~~g~~---------------~~a~~~~~~m~~--~----g~~p~~~t~~~li~~~~~~--~~~~~a~~~~  199 (228)
                      +||.++-.++++=-.               +.+.-..++|..  .    .+.|-...+..+++..+-.  ..+.--.+++
T Consensus       169 ~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l  248 (549)
T PF07079_consen  169 MYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQIL  248 (549)
T ss_pred             HHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHH
Confidence            999977777764211               222222333331  1    4667777777777766544  2333334444


Q ss_pred             HHHHHcCCCcc
Q 027083          200 ALAKKFDIRMN  210 (228)
Q Consensus       200 ~~m~~~g~~~~  210 (228)
                      ..=.+.-+.|+
T Consensus       249 ~~We~~yv~p~  259 (549)
T PF07079_consen  249 ENWENFYVHPN  259 (549)
T ss_pred             HHHHhhccCCc
Confidence            44444555554

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=92.16  E-value=3.6  Score=30.27  Aligned_cols=96  Identities=11%  Similarity=0.017  Sum_probs=60.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcH--hhHHHHHHHHHccCCHHHHHHHHHHHHHC---CCCCCHHHHHHH
Q 027083          108 SYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNA--MSYSLLVDAHLTNRDQKAALSVIDEMVNA---GFAPSKETLKKV  182 (228)
Q Consensus       108 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~t~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~~~t~~~l  182 (228)
                      .+..+-+-|++.|+.++|.+.|.++......|..  ..+-.+|....-.|++..+...+.+....   |-.++...--.+
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            5667777888888888888888888776555443  34667777788888888887777666543   222222222222


Q ss_pred             HHHHH--hcCChhhHHHHHHHHH
Q 027083          183 RRRCV--REMDEESNDRVEALAK  203 (228)
Q Consensus       183 i~~~~--~~~~~~~a~~~~~~m~  203 (228)
                      ..++.  ..+++..|-+.|-...
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHccC
Confidence            33322  3467777776665543

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=91.96  E-value=6.4  Score=35.44  Aligned_cols=131  Identities=11%  Similarity=-0.035  Sum_probs=84.9

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-cHhhHHHHH
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKP-NAMSYSLLV  148 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~t~~~li  148 (228)
                      ...|...-..+.+.+..++|...+.+..+  -.......|.-.=..+...|..++|...|......  .| ++.+-.++-
T Consensus       650 ~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~l--dP~hv~s~~Ala  725 (799)
T KOG4162|consen  650 QKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALAL--DPDHVPSMTALA  725 (799)
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhc--CCCCcHHHHHHH
Confidence            34455555666677777777777777665  23334445555556667777778887777766554  33 344566677


Q ss_pred             HHHHccCCHHHHHH--HHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          149 DAHLTNRDQKAALS--VIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       149 ~~~~~~g~~~~a~~--~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      ..+.+.|+...|..  ++.++.+.+ .-+...|-.+=..+-..|+.+.|-..|......
T Consensus       726 ~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  726 ELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             HHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            77777777766666  777766643 235677777777777778888877777666553

>PRK04841 transcriptional regulator MalT; Provisional

Probab=91.92  E-value=11  Score=35.21  Aligned_cols=200  Identities=13%  Similarity=0.013  Sum_probs=107.8

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHH-HHhchhhc-CCCC-C-CHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYF-QLENLSRA-EPPY-K-SVAAINCVI   77 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~-~~~~~~~~-~~~~-~-~~~~~~~ll   77 (228)
                      |++++|...+++........+..    .....+.+.+-..+...|+.+.+..+. ........ ..+. + ....+..+-
T Consensus       505 G~~~~A~~~~~~al~~~~~~g~~----~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la  580 (903)
T PRK04841        505 GELARALAMMQQTEQMARQHDVY----HYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRA  580 (903)
T ss_pred             CCHHHHHHHHHHHHHHHhhhcch----HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHH
Confidence            67777777777765542211110    001123445566677777533222221 11111111 1110 1 223344444


Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcC-CCCC--CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CcHhhH-----HHHH
Q 027083           78 LGCANIWDLDRAYQTFEAVGSSF-GLTP--DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVK-PNAMSY-----SLLV  148 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~~-~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~~~t~-----~~li  148 (228)
                      ..+...|++++|...+.+...-. ...+  ....+..+-..+...|+.+.|.+.+++....... .....+     ...+
T Consensus       581 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~  660 (903)
T PRK04841        581 QLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRL  660 (903)
T ss_pred             HHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHH
Confidence            45667799999999988865410 1112  2334455556788999999999998887542111 111111     1122


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSK---ETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~---~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      ..+...|+.+.|.+++............   ..+..+..++...|+.++|...+......
T Consensus       661 ~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~  720 (903)
T PRK04841        661 IYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNEN  720 (903)
T ss_pred             HHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4445688999999988765532211111   11345566778889999999888877654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.84  E-value=5.7  Score=31.91  Aligned_cols=138  Identities=17%  Similarity=0.125  Sum_probs=79.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHH-HHHHhcCCHHHHHHHHHHHHhC------------
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALI-YAFGKLKKTFEASRVFEHLVSL------------  135 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li-~~~~~~~~~~~a~~~~~~m~~~------------  135 (228)
                      +......+-.+|-...++..|-..+++...   ..|-..-|..-- .++-+.+.+.+|.++...|...            
T Consensus        43 ~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~q---l~P~~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~~~L~~~~lqLqa  119 (459)
T KOG4340|consen   43 SRAGLSLLGYCYYRLQEFALAAECYEQLGQ---LHPELEQYRLYQAQSLYKACIYADALRVAFLLLDNPALHSRVLQLQA  119 (459)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHh---hChHHHHHHHHHHHHHHHhcccHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            455555555566666667777777766653   234433332211 2333444444444444433220            


Q ss_pred             ------CC----------CC---cHhhHHHHHHHHHccCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCChhhH
Q 027083          136 ------GV----------KP---NAMSYSLLVDAHLTNRDQKAALSVIDEMVNA-GFAPSKETLKKVRRRCVREMDEESN  195 (228)
Q Consensus       136 ------g~----------~p---~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~t~~~li~~~~~~~~~~~a  195 (228)
                            +-          .|   +..+-+..-...-+.|+.+.|.+-|+...+- |..| ...||..+..| +.++...|
T Consensus       120 AIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqp-llAYniALaHy-~~~qyasA  197 (459)
T KOG4340|consen  120 AIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQP-LLAYNLALAHY-SSRQYASA  197 (459)
T ss_pred             HHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCCc-hhHHHHHHHHH-hhhhHHHH
Confidence                  00          02   2223333333334789999999999987765 5554 56788666555 55778899


Q ss_pred             HHHHHHHHHcCCCcch
Q 027083          196 DRVEALAKKFDIRMNT  211 (228)
Q Consensus       196 ~~~~~~m~~~g~~~~~  211 (228)
                      ......+++.|++-.+
T Consensus       198 Lk~iSEIieRG~r~HP  213 (459)
T KOG4340|consen  198 LKHISEIIERGIRQHP  213 (459)
T ss_pred             HHHHHHHHHhhhhcCC
Confidence            9999999999887544

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.59  E-value=2.6  Score=27.92  Aligned_cols=43  Identities=16%  Similarity=0.237  Sum_probs=18.3

Q ss_pred             HHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 027083           89 AYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHL  132 (228)
Q Consensus        89 a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  132 (228)
                      ..+-++.+.. ..+.|+.....+.+++|-+.+++.-|.++|+-.
T Consensus        29 ~rrglN~l~~-~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~i   71 (108)
T PF02284_consen   29 LRRGLNNLFG-YDLVPEPKIIEAALRACRRVNDFALAVRILEGI   71 (108)
T ss_dssp             HHHHHHHHTT-SSB---HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhc-cccCCChHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            4444444444 244455555555555555555555555555444

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 ....

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=91.07  E-value=3.9  Score=28.48  Aligned_cols=21  Identities=14%  Similarity=0.069  Sum_probs=10.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHH
Q 027083           76 VILGCANIWDLDRAYQTFEAV   96 (228)
Q Consensus        76 ll~~~~~~~~~~~a~~~~~~m   96 (228)
                      ++..|-+.+-++++.-++..+
T Consensus        75 ~~~~c~~~~l~~~~~~l~~k~   95 (140)
T smart00299       75 VGKLCEKAKLYEEAVELYKKD   95 (140)
T ss_pred             HHHHHHHcCcHHHHHHHHHhh
Confidence            445555555555555555444

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=91.02  E-value=9.4  Score=32.85  Aligned_cols=129  Identities=15%  Similarity=0.061  Sum_probs=80.9

Q ss_pred             HHHHHHHHHHH----cCCHHHHHHHHHHHhhcCCCCCCHHhHHHHH-HHHHhcCCHHHHHHHHHHHHhCC---CCCcHhh
Q 027083           72 AINCVILGCAN----IWDLDRAYQTFEAVGSSFGLTPDIHSYNALI-YAFGKLKKTFEASRVFEHLVSLG---VKPNAMS  143 (228)
Q Consensus        72 ~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li-~~~~~~~~~~~a~~~~~~m~~~g---~~p~~~t  143 (228)
                      +|+..+..++.    ..+.+.|.++++++..+   -|+...|.-.- +.+...|++++|.+.|++.....   .......
T Consensus       231 ~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~  307 (468)
T PF10300_consen  231 WYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLC  307 (468)
T ss_pred             HHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHH
Confidence            34444444443    35678899999998875   58877776655 34667788999999998654321   1122333


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HhcCCh-------hhHHHHHHHHHH
Q 027083          144 YSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRC-VREMDE-------ESNDRVEALAKK  204 (228)
Q Consensus       144 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~-~~~~~~-------~~a~~~~~~m~~  204 (228)
                      +--+.-++.-.+++++|.+.|..+.+.. ..+..+|.-+..+| ...++.       ++|..++..+-+
T Consensus       308 ~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  308 YFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            4444445677888999999998888642 23455555555444 334666       666666655543

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

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

Probab=90.82  E-value=9  Score=32.25  Aligned_cols=145  Identities=8%  Similarity=-0.005  Sum_probs=98.9

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHH-HHHHHhc-CCHHHHHHHHHHHHhCCCCCc-HhhHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNAL-IYAFGKL-KKTFEASRVFEHLVSLGVKPN-AMSYS  145 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l-i~~~~~~-~~~~~a~~~~~~m~~~g~~p~-~~t~~  145 (228)
                      +...|--|+++|...|.+++|.-.-++..+.  ..-+..+.+.+ -..+.-- ..-++|.++++.-.+.  .|+ .-.-+
T Consensus       367 rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~--~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~  442 (564)
T KOG1174|consen  367 RLEIYRGLFHSYLAQKRFKEANALANWTIRL--FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVN  442 (564)
T ss_pred             hHHHHHHHHHHHHhhchHHHHHHHHHHHHHH--hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHH
Confidence            6778999999999999999888777776652  34455555444 1233222 2347788888775543  454 34456


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHH
Q 027083          146 LLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNL  221 (228)
Q Consensus       146 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l  221 (228)
                      .+-.-|.+.|..+++..+++.-..  ..||....+.|-+.+.-.+.++++...|....+  +.|...--..-++-|
T Consensus       443 ~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr--~dP~~~~sl~Gl~~l  514 (564)
T KOG1174|consen  443 LIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR--QDPKSKRTLRGLRLL  514 (564)
T ss_pred             HHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCccchHHHHHHHHH
Confidence            777778888999999999886543  579999999999988888888888888776554  334444333333333

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=90.69  E-value=0.053  Score=38.19  Aligned_cols=85  Identities=9%  Similarity=-0.003  Sum_probs=57.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccC
Q 027083           76 VILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNR  155 (228)
Q Consensus        76 ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g  155 (228)
                      +|+.+.+.+.++.....++..... +...+....|.++..|++.+..+..+++++.       .+..-...++..|-+.|
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~-~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKE-NKENNPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKALRLCEKHG   84 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHT-STC-SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHHHHHHHTTT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhc-ccccCHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHHHHHHHhcc
Confidence            566666677777777777777764 5556677788888888888777777777751       22244466777777778


Q ss_pred             CHHHHHHHHHHHH
Q 027083          156 DQKAALSVIDEMV  168 (228)
Q Consensus       156 ~~~~a~~~~~~m~  168 (228)
                      .++.+.-++..+.
T Consensus        85 l~~~a~~Ly~~~~   97 (143)
T PF00637_consen   85 LYEEAVYLYSKLG   97 (143)
T ss_dssp             SHHHHHHHHHCCT
T ss_pred             hHHHHHHHHHHcc
Confidence            8877777776544

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=90.68  E-value=14  Score=34.13  Aligned_cols=24  Identities=13%  Similarity=0.044  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHH
Q 027083           72 AINCVILGCANIWDLDRAYQTFEA   95 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~   95 (228)
                      ||-.--..+-..+|++.|++.|+.
T Consensus       860 Tyy~yA~~Lear~Di~~AleyyEK  883 (1416)
T KOG3617|consen  860 TYYNYAKYLEARRDIEAALEYYEK  883 (1416)
T ss_pred             hHHHHHHHHHhhccHHHHHHHHHh
Confidence            554444555556677777766664

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=90.58  E-value=7.5  Score=30.95  Aligned_cols=102  Identities=12%  Similarity=0.065  Sum_probs=68.8

Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHcc---CCHHHHHHHHHHHHHCCCCCCHHHHH
Q 027083          104 PDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTN---RDQKAALSVIDEMVNAGFAPSKETLK  180 (228)
Q Consensus       104 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~---g~~~~a~~~~~~m~~~g~~p~~~t~~  180 (228)
                      -|...|--|=..|...|+++.|..-|..-.+.- .+++..+..+-.++..+   ..-.++.++|+++.... .-|+.+-.
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~  231 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALS  231 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHH
Confidence            366678888888888888888888888876642 23444444444444332   23467778888777532 23456666


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHcCC
Q 027083          181 KVRRRCVREMDEESNDRVEALAKKFDI  207 (228)
Q Consensus       181 ~li~~~~~~~~~~~a~~~~~~m~~~g~  207 (228)
                      .|-..+...|++.+|...++.|.+..-
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~lp  258 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLLP  258 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCC
Confidence            666678888888888888888887553

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

Probab=90.51  E-value=12  Score=33.22  Aligned_cols=99  Identities=15%  Similarity=0.131  Sum_probs=73.8

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHH-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIH-SYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      ..++-.+...+-..|+.+.|....+....   -.|+.+ .|-.=-+.+..+|+++.|..++++..+-. .||...-+-=.
T Consensus       371 lWt~y~laqh~D~~g~~~~A~~yId~AId---HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcA  446 (700)
T KOG1156|consen  371 LWTLYFLAQHYDKLGDYEVALEYIDLAID---HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCA  446 (700)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHhc---cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHH
Confidence            33444566777789999999999988764   245544 34444477889999999999999987654 45666555666


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCC
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGF  172 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~  172 (228)
                      .-..+.++.++|.++.....+.|.
T Consensus       447 KYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  447 KYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHccccHHHHHHHHHhhhccc
Confidence            667788999999999988888775

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=90.49  E-value=6.9  Score=30.40  Aligned_cols=56  Identities=9%  Similarity=0.134  Sum_probs=41.9

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 027083          148 VDAHLTNRDQKAALSVIDEMVNA--GFAPSKETLKKVRRRCVREMDEESNDRVEALAK  203 (228)
Q Consensus       148 i~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~  203 (228)
                      -.-|.+.|.+.-|..-++.+.+.  +-+........++.+|...|..+++..+...+.
T Consensus       182 a~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        182 AEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            34467778888888888888754  444456777788899999999999888776654

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=90.46  E-value=7.6  Score=30.80  Aligned_cols=166  Identities=10%  Similarity=0.039  Sum_probs=95.8

Q ss_pred             hhHHHHHHHHHhhCh-hcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHH
Q 027083           33 TSLYPLVVACSRKGF-ETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNA  111 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~  111 (228)
                      .+...|+.+|...+. .....+......+....+-+  ..++-.-|..+.+.++.+.+.+++.+|...  +.-....+..
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~--~~~~~L~l~il~~~~~~~~~~~~L~~mi~~--~~~~e~~~~~  160 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEYGNK--PEVFLLKLEILLKSFDEEEYEEILMRMIRS--VDHSESNFDS  160 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCC--cHHHHHHHHHHhccCChhHHHHHHHHHHHh--cccccchHHH
Confidence            457778888888875 33334444444444444432  346666677777799999999999999984  4434556666


Q ss_pred             HHHHH---HhcCCHHHHHHHHHHHHhCCCCCcHhh-------HHHHHHHHH----ccCCHHHHHHHHHHHHHC-CCCCCH
Q 027083          112 LIYAF---GKLKKTFEASRVFEHLVSLGVKPNAMS-------YSLLVDAHL----TNRDQKAALSVIDEMVNA-GFAPSK  176 (228)
Q Consensus       112 li~~~---~~~~~~~~a~~~~~~m~~~g~~p~~~t-------~~~li~~~~----~~g~~~~a~~~~~~m~~~-g~~p~~  176 (228)
                      ++..+   .... ...|...++.+....+.|....       .-.++..-.    ....++...+++....+. +-+.+.
T Consensus       161 ~l~~i~~l~~~~-~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~  239 (278)
T PF08631_consen  161 ILHHIKQLAEKS-PELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSA  239 (278)
T ss_pred             HHHHHHHHHhhC-cHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCH
Confidence            66655   4433 4567777777766656666541       111111110    111245555556543332 333344


Q ss_pred             HHHHHHH-------HHHHhcCChhhHHHHHHHHH
Q 027083          177 ETLKKVR-------RRCVREMDEESNDRVEALAK  203 (228)
Q Consensus       177 ~t~~~li-------~~~~~~~~~~~a~~~~~~m~  203 (228)
                      .+-.++.       ..+.+.++++.|.+.++...
T Consensus       240 ~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  240 EAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            3333332       34567789999998887654

It is also involved in sporulation [].

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=90.27  E-value=11  Score=32.43  Aligned_cols=142  Identities=9%  Similarity=0.011  Sum_probs=98.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC-----HHhHHHHHHHHHhc----CCHHHHHHHHHHHHhCCCCCcHh
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD-----IHSYNALIYAFGKL----KKTFEASRVFEHLVSLGVKPNAM  142 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-----~~~~~~li~~~~~~----~~~~~a~~~~~~m~~~g~~p~~~  142 (228)
                      .+..+++..+=.||-+.+++.+.+-.+..++.-.     ..+|+.++..++-.    ...+.|+++++.+.+.  -|+..
T Consensus       190 ~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~  267 (468)
T PF10300_consen  190 KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSA  267 (468)
T ss_pred             HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcH
Confidence            5667888888889999999999887664344332     34567777666544    5688899999999876  68888


Q ss_pred             hHHHHHHH-HHccCCHHHHHHHHHHHHHC--CCC-CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHc-CCCcchhhHH
Q 027083          143 SYSLLVDA-HLTNRDQKAALSVIDEMVNA--GFA-PSKETLKKVRRRCVREMDEESNDRVEALAKKF-DIRMNTENRK  215 (228)
Q Consensus       143 t~~~li~~-~~~~g~~~~a~~~~~~m~~~--g~~-p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~~~~~~~~  215 (228)
                      .|...-.- +...|++++|.+.|++....  .++ .....+--+.-.+.-.+++++|...+..+.+. ...+..+.|.
T Consensus       268 lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~  345 (468)
T PF10300_consen  268 LFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYL  345 (468)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHH
Confidence            77655433 34579999999999976532  221 12233444555677788999999999988874 4444444443

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=89.94  E-value=1.7  Score=23.57  Aligned_cols=26  Identities=31%  Similarity=0.404  Sum_probs=12.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027083          110 NALIYAFGKLKKTFEASRVFEHLVSL  135 (228)
Q Consensus       110 ~~li~~~~~~~~~~~a~~~~~~m~~~  135 (228)
                      ..+-..|.+.|++++|+++|++..+.
T Consensus         5 ~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    5 LALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            33444445555555555555554443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.84  E-value=8.2  Score=30.30  Aligned_cols=99  Identities=14%  Similarity=0.007  Sum_probs=71.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHH---HHHHHHhcCCHHHHHHHHHHHHhCCC--CCcHhh
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNA---LIYAFGKLKKTFEASRVFEHLVSLGV--KPNAMS  143 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~---li~~~~~~~~~~~a~~~~~~m~~~g~--~p~~~t  143 (228)
                      -...|+..+..+ +.|+..+|...|....+  ++.-+..+=|+   |-.++...|++++|..+|..+.+.--  .--+.+
T Consensus       141 ~~~~Y~~A~~~~-ksgdy~~A~~~F~~fi~--~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApda  217 (262)
T COG1729         141 ATKLYNAALDLY-KSGDYAEAEQAFQAFIK--KYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDA  217 (262)
T ss_pred             hhHHHHHHHHHH-HcCCHHHHHHHHHHHHH--cCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHH
Confidence            345888888766 45669999999998887  34444444433   45788899999999999988877521  112345


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHC
Q 027083          144 YSLLVDAHLTNRDQKAALSVIDEMVNA  170 (228)
Q Consensus       144 ~~~li~~~~~~g~~~~a~~~~~~m~~~  170 (228)
                      .--|-.+..+.|+-++|..+|++..+.
T Consensus       218 llKlg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         218 LLKLGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            555666778889999999999988764

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=89.67  E-value=5.6  Score=28.12  Aligned_cols=87  Identities=13%  Similarity=0.131  Sum_probs=56.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLL  147 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~l  147 (228)
                      ....|+.-..++ +.|+.++|.+.|+.+..+.-..| ....--.++.+|.+.++++.|...+++..+.+...--+-|--.
T Consensus        10 ~~~ly~~a~~~l-~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y   88 (142)
T PF13512_consen   10 PQELYQEAQEAL-QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYY   88 (142)
T ss_pred             HHHHHHHHHHHH-HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence            444555544443 56888888888888887532222 2334556777888888888888888888877544334556666


Q ss_pred             HHHHHccCC
Q 027083          148 VDAHLTNRD  156 (228)
Q Consensus       148 i~~~~~~g~  156 (228)
                      +.+++.-..
T Consensus        89 ~~gL~~~~~   97 (142)
T PF13512_consen   89 MRGLSYYEQ   97 (142)
T ss_pred             HHHHHHHHH
Confidence            666665333

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=89.35  E-value=0.89  Score=23.55  Aligned_cols=23  Identities=17%  Similarity=0.132  Sum_probs=13.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHH
Q 027083          109 YNALIYAFGKLKKTFEASRVFEH  131 (228)
Q Consensus       109 ~~~li~~~~~~~~~~~a~~~~~~  131 (228)
                      |+.|=..|.+.|++++|..+|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            45555566666666666666665

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=89.27  E-value=13  Score=31.71  Aligned_cols=137  Identities=11%  Similarity=0.074  Sum_probs=86.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHH--HHhcCCHHHHHHHHHHHHhC--CCC-----------
Q 027083           74 NCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYA--FGKLKKTFEASRVFEHLVSL--GVK-----------  138 (228)
Q Consensus        74 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~--~~~~~~~~~a~~~~~~m~~~--g~~-----------  138 (228)
                      +.+|++|.. .+++.......+..+..   | ...|-.++.+  +-+.+.+++|.+.+..-...  +-.           
T Consensus        50 grilnAffl-~nld~Me~~l~~l~~~~---~-~s~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l  124 (549)
T PF07079_consen   50 GRILNAFFL-NNLDLMEKQLMELRQQF---G-KSAYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQL  124 (549)
T ss_pred             hHHHHHHHH-hhHHHHHHHHHHHHHhc---C-CchHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHH
Confidence            566777764 35666666666666542   3 3344455554  34667788888877765443  222           


Q ss_pred             -CcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCC----CCHHHHHHHHHHHHhcCChhhHHHHHHHH-HHcCCCcchh
Q 027083          139 -PNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFA----PSKETLKKVRRRCVREMDEESNDRVEALA-KKFDIRMNTE  212 (228)
Q Consensus       139 -p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~----p~~~t~~~li~~~~~~~~~~~a~~~~~~m-~~~g~~~~~~  212 (228)
                       +|-.-=++.++++...|++.++..++++|...=++    .+..+|+.++-.+++.        .+-.+ .......-+.
T Consensus       125 ~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrS--------YfLEl~e~~s~dl~pd  196 (549)
T PF07079_consen  125 FSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRS--------YFLELKESMSSDLYPD  196 (549)
T ss_pred             hhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHH--------HHHHHHHhcccccChH
Confidence             22333367778888889988888888888755443    7888888877777653        33333 4455666677


Q ss_pred             hHHHHHHHHHh
Q 027083          213 NRKNILFNLEY  223 (228)
Q Consensus       213 ~~~~li~~l~~  223 (228)
                      .|.++++.+.-
T Consensus       197 yYemilfY~kk  207 (549)
T PF07079_consen  197 YYEMILFYLKK  207 (549)
T ss_pred             HHHHHHHHHHH
Confidence            77777776543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=89.17  E-value=2.3  Score=23.80  Aligned_cols=31  Identities=16%  Similarity=0.258  Sum_probs=14.8

Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 027083          153 TNRDQKAALSVIDEMVNAGFAPSKETLKKVR  183 (228)
Q Consensus       153 ~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li  183 (228)
                      +.|.+.++..++++|.+.|+.-+...|..++
T Consensus        14 ~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   14 RRGLISEVKPLLDRLQQAGFRISPKLIEEIL   44 (48)
T ss_pred             HcCChhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence            3444444444555555555544444444443

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PLN02789 farnesyltranstransferase

Probab=89.08  E-value=11  Score=30.67  Aligned_cols=147  Identities=11%  Similarity=0.034  Sum_probs=98.9

Q ss_pred             HHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHhhcCCCCCCHHhHHHHH
Q 027083           35 LYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIW-DLDRAYQTFEAVGSSFGLTPDIHSYNALI  113 (228)
Q Consensus        35 ~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~p~~~~~~~li  113 (228)
                      +..+-..+.+.+  ....++....+.....|-  +..+|+..=..+...| ++++++..++++...  -.-+...|+..-
T Consensus        40 ~~~~ra~l~~~e--~serAL~lt~~aI~lnP~--~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~--npknyqaW~~R~  113 (320)
T PLN02789         40 MDYFRAVYASDE--RSPRALDLTADVIRLNPG--NYTVWHFRRLCLEALDADLEEELDFAEDVAED--NPKNYQIWHHRR  113 (320)
T ss_pred             HHHHHHHHHcCC--CCHHHHHHHHHHHHHCch--hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHH--CCcchHHhHHHH
Confidence            444444444444  344555555555544443  5567766656666666 689999999999873  233444677665


Q ss_pred             HHHHhcCCH--HHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 027083          114 YAFGKLKKT--FEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVRE  189 (228)
Q Consensus       114 ~~~~~~~~~--~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~  189 (228)
                      -.+.+.|..  +++..+++.+.+... -|-..|+-.--.+.+.|+++++++.++++.+... -+...|+...-.+.+.
T Consensus       114 ~~l~~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~-~N~sAW~~R~~vl~~~  189 (320)
T PLN02789        114 WLAEKLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV-RNNSAWNQRYFVITRS  189 (320)
T ss_pred             HHHHHcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC-CchhHHHHHHHHHHhc
Confidence            555666653  677888888887764 3788899988888999999999999999988653 3455666555444443

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=88.96  E-value=7.2  Score=28.42  Aligned_cols=124  Identities=10%  Similarity=0.051  Sum_probs=79.6

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHH
Q 027083           68 KSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLL  147 (228)
Q Consensus        68 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~l  147 (228)
                      |+...|..+++.+.+.|+......+    .. .++-||.......+-.+...  ...+.++=-+|.+.    =...+..+
T Consensus        27 ~~~~L~~lli~lLi~~~~~~~L~ql----lq-~~Vi~DSk~lA~~LLs~~~~--~~~~~Ql~lDMLkR----L~~~~~~i   95 (167)
T PF07035_consen   27 VQHELYELLIDLLIRNGQFSQLHQL----LQ-YHVIPDSKPLACQLLSLGNQ--YPPAYQLGLDMLKR----LGTAYEEI   95 (167)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHH----Hh-hcccCCcHHHHHHHHHhHcc--ChHHHHHHHHHHHH----hhhhHHHH
Confidence            4677999999999998886654443    33 47777777776666444433  23334433333321    11356778


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          148 VDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       148 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      ++.+...|++-+|.++.+.....    +...-..++++-...++...--.++......+
T Consensus        96 ievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~n  150 (167)
T PF07035_consen   96 IEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEERN  150 (167)
T ss_pred             HHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            88899999999998887664321    22223457777777788777777777777655

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=88.67  E-value=11  Score=30.08  Aligned_cols=111  Identities=14%  Similarity=0.076  Sum_probs=81.4

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhc---CCHHHHHHHHHHHHhCCCCCcHhhHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKL---KKTFEASRVFEHLVSLGVKPNAMSYS  145 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~---~~~~~a~~~~~~m~~~g~~p~~~t~~  145 (228)
                      |...|-.|=..|...|+.+.|..-|.+-.+-.|-  |...+..+-.++...   .+-.++..+|+++.+... -|..+-.
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~--n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~-~~iral~  231 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLAGD--NPEILLGLAEALYYQAGQQMTAKARALLRQALALDP-ANIRALS  231 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCC-ccHHHHH
Confidence            8899999999999999999999999998864343  333444444443222   245779999999987653 3666677


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 027083          146 LLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRR  184 (228)
Q Consensus       146 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~  184 (228)
                      -|-..+...|++.+|...++.|.+..  |....+..+|+
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~l--p~~~~rr~~ie  268 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLL--PADDPRRSLIE  268 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcC--CCCCchHHHHH
Confidence            77778889999999999999998753  33334444544

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=88.51  E-value=0.11  Score=36.62  Aligned_cols=130  Identities=8%  Similarity=0.047  Sum_probs=68.9

Q ss_pred             HHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHH
Q 027083           36 YPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYA  115 (228)
Q Consensus        36 ~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  115 (228)
                      ..+|+.+.+.+.......+....  .. ..+..+....+.++..|++.++.+...++++   .     .+.+-...+++.
T Consensus        11 ~~vi~~~~~~~~~~~l~~yLe~~--~~-~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~---~-----~~~yd~~~~~~~   79 (143)
T PF00637_consen   11 SEVISAFEERNQPEELIEYLEAL--VK-ENKENNPDLHTLLLELYIKYDPYEKLLEFLK---T-----SNNYDLDKALRL   79 (143)
T ss_dssp             CCCHHHCTTTT-GGGCTCCHHHH--HH-TSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT---S-----SSSS-CTHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHH--Hh-cccccCHHHHHHHHHHHHhcCCchHHHHHcc---c-----ccccCHHHHHHH
Confidence            34677777766433332222222  21 1122367888888888888877677766655   1     122444667777


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 027083          116 FGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMD  191 (228)
Q Consensus       116 ~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~  191 (228)
                      |-+.|.++.|.-++.++....--         +..+...++++.|.+.+.+      .++...|..+++.|...+.
T Consensus        80 c~~~~l~~~a~~Ly~~~~~~~~a---------l~i~~~~~~~~~a~e~~~~------~~~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   80 CEKHGLYEEAVYLYSKLGNHDEA---------LEILHKLKDYEEAIEYAKK------VDDPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             HHTTTSHHHHHHHHHCCTTHTTC---------SSTSSSTHCSCCCTTTGGG------CSSSHHHHHHHHHHCTSTC
T ss_pred             HHhcchHHHHHHHHHHcccHHHH---------HHHHHHHccHHHHHHHHHh------cCcHHHHHHHHHHHHhcCc
Confidence            77777777777776654322111         1112333444444432221      2356777777777665544

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=88.37  E-value=1.6  Score=22.92  Aligned_cols=25  Identities=24%  Similarity=0.236  Sum_probs=13.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHH
Q 027083          108 SYNALIYAFGKLKKTFEASRVFEHL  132 (228)
Q Consensus       108 ~~~~li~~~~~~~~~~~a~~~~~~m  132 (228)
                      +++.|-..|...|++++|..++++.
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~a   28 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEA   28 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHH
Confidence            4555555555555555555555554

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=88.32  E-value=15  Score=31.37  Aligned_cols=82  Identities=9%  Similarity=0.078  Sum_probs=67.4

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHH
Q 027083           68 KSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLL  147 (228)
Q Consensus        68 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~l  147 (228)
                      .+...|..|=......|+++.|.+.|.+...          |..|+--|.-.|+.+...++-+.....|-      +|..
T Consensus       345 ~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d----------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~a  408 (443)
T PF04053_consen  345 DDPEKWKQLGDEALRQGNIELAEECYQKAKD----------FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIA  408 (443)
T ss_dssp             STHHHHHHHHHHHHHTTBHHHHHHHHHHCT-----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC----------ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHH
Confidence            3788999999999999999999999998876          78899999999999999998888776652      6777


Q ss_pred             HHHHHccCCHHHHHHHHH
Q 027083          148 VDAHLTNRDQKAALSVID  165 (228)
Q Consensus       148 i~~~~~~g~~~~a~~~~~  165 (228)
                      +.++.-.|++++..+++.
T Consensus       409 f~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  409 FQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             HHHHHHHT-HHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHH
Confidence            777778899998888774

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=88.10  E-value=7.2  Score=27.35  Aligned_cols=51  Identities=22%  Similarity=0.085  Sum_probs=25.9

Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 027083           80 CANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHL  132 (228)
Q Consensus        80 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  132 (228)
                      .+..|++++|++.|.+...  =.+-+...||.--.++--.|+.++|..=+++.
T Consensus        53 laE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALdDLn~A  103 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKA  103 (175)
T ss_pred             HHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHH
Confidence            3455555555555555543  12234445555555555555555555444443

>PRK15331 chaperone protein SicA; Provisional

Probab=88.06  E-value=8.2  Score=28.01  Aligned_cols=87  Identities=10%  Similarity=-0.052  Sum_probs=59.1

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhH
Q 027083          116 FGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESN  195 (228)
Q Consensus       116 ~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a  195 (228)
                      +-..|++++|+.+|+-+...++. |..-|..|-.++-..++.++|...+......+. -|...+-..-.++...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHH
Confidence            34568888888888887766543 555667777777777888888887766554332 2333334455677777888888


Q ss_pred             HHHHHHHHH
Q 027083          196 DRVEALAKK  204 (228)
Q Consensus       196 ~~~~~~m~~  204 (228)
                      +..+....+
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            888877777

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=87.92  E-value=5.7  Score=26.04  Aligned_cols=45  Identities=16%  Similarity=0.228  Sum_probs=22.2

Q ss_pred             HHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027083           88 RAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLV  133 (228)
Q Consensus        88 ~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  133 (228)
                      ++.+-++.+.. ..+.|+.....+.+++|-+.+++.-|.++|+-.+
T Consensus        25 e~rr~mN~l~~-~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFG-YDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhc-cccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            34444444444 2455555555555555555555555555554443

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.

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=87.91  E-value=5.1  Score=27.70  Aligned_cols=44  Identities=11%  Similarity=0.197  Sum_probs=23.8

Q ss_pred             HHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 027083          125 ASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       125 a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      ..+-++.+....+-|++.....-+.+|-+-+++..|.++|+-.+
T Consensus        68 vrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK  111 (149)
T KOG4077|consen   68 VRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIK  111 (149)
T ss_pred             HHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            34444444555555555555555555555555555555554444

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=87.82  E-value=5.9  Score=30.31  Aligned_cols=77  Identities=13%  Similarity=-0.027  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCcHhhHHHHHH
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSL--GVKPNAMSYSLLVD  149 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~p~~~t~~~li~  149 (228)
                      |.+.-++.+.+.+.+.++.....+-.+.  -..|..+-..+++-||-.|++++|..-++-..+-  ...+-..+|..+|.
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVka--kPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir   80 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKA--KPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIR   80 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhc--CCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            4455677888888999998887766552  2345556778889999999999998766655432  33456777888877


Q ss_pred             H
Q 027083          150 A  150 (228)
Q Consensus       150 ~  150 (228)
                      +
T Consensus        81 ~   81 (273)
T COG4455          81 C   81 (273)
T ss_pred             H
Confidence            5

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=87.63  E-value=1.3  Score=22.95  Aligned_cols=23  Identities=13%  Similarity=0.069  Sum_probs=14.0

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHH
Q 027083          144 YSLLVDAHLTNRDQKAALSVIDE  166 (228)
Q Consensus       144 ~~~li~~~~~~g~~~~a~~~~~~  166 (228)
                      |+.|-..|.+.|++++|.+++++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            45556666666666666666665

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.21  E-value=13  Score=29.27  Aligned_cols=99  Identities=16%  Similarity=0.122  Sum_probs=75.1

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHC-CCCCC-HHHHHH
Q 027083          106 IHSYNALIYAFGKLKKTFEASRVFEHLVSLGV--KPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNA-GFAPS-KETLKK  181 (228)
Q Consensus       106 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~-~~t~~~  181 (228)
                      ..-|+.-++.|- .|++..|+..|....+...  .-....+--|-.++...|+.++|..+|..+.+. +-.|- ..+.-.
T Consensus       142 ~~~Y~~A~~~~k-sgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         142 TKLYNAALDLYK-SGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             hHHHHHHHHHHH-cCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            346888887664 5669999999999987631  122334556889999999999999999988854 32332 255666


Q ss_pred             HHHHHHhcCChhhHHHHHHHHHHc
Q 027083          182 VRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       182 li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      |-.+..+.|+-++|..+++.+.+.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHH
Confidence            778889999999999999998764

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=86.97  E-value=19  Score=31.05  Aligned_cols=78  Identities=14%  Similarity=0.083  Sum_probs=46.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCC-CcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhc
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLGVK-PNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGF-APSKETLKKVRRRCVRE  189 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g~~-p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~t~~~li~~~~~~  189 (228)
                      +-.++-+.|+.++|.+.|++|.+..-. -+......||.++...+...++..++.+--+-.. +.-...|++.+-.+...
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaRav  344 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKARAV  344 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHHhh
Confidence            334455667888888888887654311 1334566777888888888887777776543222 22235666655444333

The molecular function of this protein is uncertain.

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=86.31  E-value=3.1  Score=23.28  Aligned_cols=38  Identities=11%  Similarity=-0.057  Sum_probs=31.6

Q ss_pred             HHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHH
Q 027083          183 RRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFN  220 (228)
Q Consensus       183 i~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  220 (228)
                      +....+.|-++++..+++.|.+.|+..+...|..++.-
T Consensus         9 L~~Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~~   46 (48)
T PF11848_consen    9 LLLAKRRGLISEVKPLLDRLQQAGFRISPKLIEEILRR   46 (48)
T ss_pred             HHHHHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence            33445678888999999999999999999999988753

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

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

Probab=85.70  E-value=25  Score=31.26  Aligned_cols=142  Identities=11%  Similarity=-0.015  Sum_probs=81.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCcHhhHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLG-VKPNAMSYSLL  147 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~t~~~l  147 (228)
                      |...|--+--.=++.++.+.......+....  ..-.-..|-.+.-++.-.|+...|..+.++..+.. -.|+...|.-.
T Consensus       108 N~qilrDlslLQ~QmRd~~~~~~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~s  185 (700)
T KOG1156|consen  108 NLQILRDLSLLQIQMRDYEGYLETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHS  185 (700)
T ss_pred             cHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHH
Confidence            4445444333334556666665555555431  22234466777777778888888888888877664 34666666554


Q ss_pred             HHHH------HccCCHHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHH
Q 027083          148 VDAH------LTNRDQKAALSVIDEMVNAGFAPSKETLK-KVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKN  216 (228)
Q Consensus       148 i~~~------~~~g~~~~a~~~~~~m~~~g~~p~~~t~~-~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  216 (228)
                      ..-+      .+.|.+++|.+.+..-. .. ..|...|. +-...+.+.+++++|..++..+...+  ||...|..
T Consensus       186 e~~Ly~n~i~~E~g~~q~ale~L~~~e-~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~  257 (700)
T KOG1156|consen  186 ELLLYQNQILIEAGSLQKALEHLLDNE-KQ-IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN--PDNLDYYE  257 (700)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHhhh-hH-HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC--chhHHHHH
Confidence            4333      34577777777664322 11 12333332 22345667788888888888777654  34444433

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.59  E-value=15  Score=28.66  Aligned_cols=54  Identities=17%  Similarity=0.102  Sum_probs=32.8

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHhcCChhhHHHH
Q 027083          144 YSLLVDAHLTNRDQKAALSVIDEMVNAG---FAPSKETLKKVRRRCVREMDEESNDRV  198 (228)
Q Consensus       144 ~~~li~~~~~~g~~~~a~~~~~~m~~~g---~~p~~~t~~~li~~~~~~~~~~~a~~~  198 (228)
                      |-+.|-.+...++...|+..+++--+.+   -.-|..+...||.+| ..|+.+.+..+
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kv  249 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKV  249 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHH
Confidence            4555556666777888888777643321   123456777777766 44666665544

>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=85.57  E-value=10  Score=26.62  Aligned_cols=83  Identities=12%  Similarity=0.103  Sum_probs=57.4

Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHH
Q 027083           84 WDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSV  163 (228)
Q Consensus        84 ~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~  163 (228)
                      |++......+..+-      .+....+..++...+.|.-++..+++.++.+. -.|++...-.+-++|.+-|+..++.++
T Consensus        70 ~NlKrVi~C~~~~n------~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~el  142 (161)
T PF09205_consen   70 GNLKRVIECYAKRN------KLSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANEL  142 (161)
T ss_dssp             S-THHHHHHHHHTT---------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             cchHHHHHHHHHhc------chHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHH
Confidence            44555555544332      25566788889999999999999999998763 368888999999999999999999999


Q ss_pred             HHHHHHCCCC
Q 027083          164 IDEMVNAGFA  173 (228)
Q Consensus       164 ~~~m~~~g~~  173 (228)
                      +.+.=+.|++
T Consensus       143 l~~ACekG~k  152 (161)
T PF09205_consen  143 LKEACEKGLK  152 (161)
T ss_dssp             HHHHHHTT-H
T ss_pred             HHHHHHhchH
Confidence            9988888863

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.56  E-value=2.6  Score=22.01  Aligned_cols=28  Identities=21%  Similarity=0.268  Sum_probs=19.3

Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 027083          141 AMSYSLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       141 ~~t~~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      ..+++.|-..|...|++++|..++++..
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            3566777777777777777777777654

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.21  E-value=12  Score=33.83  Aligned_cols=109  Identities=17%  Similarity=0.134  Sum_probs=84.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHH
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAH  151 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~  151 (228)
                      +.+--+.-+...|+...|.++-.+.+-     ||-..|--=+.+++..+++++.+++-+.++      .+.-|--.+.+|
T Consensus       686 Sl~dTv~~li~~g~~k~a~ql~~~Fki-----pdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c  754 (829)
T KOG2280|consen  686 SLHDTVTTLILIGQNKRAEQLKSDFKI-----PDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEAC  754 (829)
T ss_pred             cHHHHHHHHHHccchHHHHHHHHhcCC-----cchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHH
Confidence            455556777888999999888776654     899999999999999999998888776543      378899999999


Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHH
Q 027083          152 LTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEA  200 (228)
Q Consensus       152 ~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~  200 (228)
                      .+.|+.++|...+-+...     ..    -...+|.+.|++.+|.++..
T Consensus       755 ~~~~n~~EA~KYiprv~~-----l~----ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  755 LKQGNKDEAKKYIPRVGG-----LQ----EKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             HhcccHHHHhhhhhccCC-----hH----HHHHHHHHhccHHHHHHHHH
Confidence            999999999988854321     11    46677778888777776543

>COG2178 Predicted RNA-binding protein of the translin family [Translation, ribosomal structure and biogenesis]

Probab=85.12  E-value=11  Score=28.13  Aligned_cols=17  Identities=18%  Similarity=0.171  Sum_probs=12.6

Q ss_pred             hcCCHHHHHHHHHHHHh
Q 027083          118 KLKKTFEASRVFEHLVS  134 (228)
Q Consensus       118 ~~~~~~~a~~~~~~m~~  134 (228)
                      +.|+++.|++.++-|..
T Consensus       133 ~~~~~~~Ae~~~~~ME~  149 (204)
T COG2178         133 RKGSFEEAERFLKFMEK  149 (204)
T ss_pred             HhccHHHHHHHHHHHHH
Confidence            44778888888877763

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.06  E-value=20  Score=29.46  Aligned_cols=142  Identities=7%  Similarity=0.016  Sum_probs=92.9

Q ss_pred             HhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHH----HHHHHhcCCHHHHHHHHHHH
Q 027083           57 LENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNAL----IYAFGKLKKTFEASRVFEHL  132 (228)
Q Consensus        57 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l----i~~~~~~~~~~~a~~~~~~m  132 (228)
                      ..++....|.  |...++..=.+|.-.|+...-...++.+.-+  -.||...|.-+    --++..+|-+++|++.-++-
T Consensus       126 wdklL~d~Pt--Dlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~y~dAEk~A~ra  201 (491)
T KOG2610|consen  126 WDKLLDDYPT--DLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGIYDDAEKQADRA  201 (491)
T ss_pred             HHHHHHhCch--hhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhccchhHHHHHHhh
Confidence            3344444443  7888888888999999999988888888753  44555444333    33456889999999998887


Q ss_pred             HhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHH---CCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 027083          133 VSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVN---AGFAPSKETLKKVRRRCVREMDEESNDRVEALAK  203 (228)
Q Consensus       133 ~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~---~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~  203 (228)
                      .+-+ +.|.=.-.++-..+-..|+.+++.+...+-.+   .+.-.-..-|....-.+...+.++.|+.+++.-.
T Consensus       202 lqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~ei  274 (491)
T KOG2610|consen  202 LQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDREI  274 (491)
T ss_pred             ccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHHHH
Confidence            7655 34666666777777788889998886654332   1111112233333344455588888888876543

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=84.65  E-value=13  Score=27.08  Aligned_cols=126  Identities=12%  Similarity=0.048  Sum_probs=77.8

Q ss_pred             hhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHhhcCCCCCC
Q 027083           27 EIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANI-WDLDRAYQTFEAVGSSFGLTPD  105 (228)
Q Consensus        27 ~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~~~~~~p~  105 (228)
                      ++.++...|..+++.+.+.|.......+...      ....++...-..+++.-... .-...|.+.+.++..       
T Consensus        24 ~i~~~~~L~~lli~lLi~~~~~~~L~qllq~------~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~~-------   90 (167)
T PF07035_consen   24 NIPVQHELYELLIDLLIRNGQFSQLHQLLQY------HVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLGT-------   90 (167)
T ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHhh------cccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhhh-------
Confidence            6666667899999999999953322222222      22222333444443332211 113445555555553       


Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 027083          106 IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAG  171 (228)
Q Consensus       106 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  171 (228)
                        .+..+++.+...|++-+|.++.+....    -+...-..++.+-...++...-..+++-..+.+
T Consensus        91 --~~~~iievLL~~g~vl~ALr~ar~~~~----~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~n  150 (167)
T PF07035_consen   91 --AYEEIIEVLLSKGQVLEALRYARQYHK----VDSVPARKFLEAAANSNDDQLFYAVFRFFEERN  150 (167)
T ss_pred             --hHHHHHHHHHhCCCHHHHHHHHHHcCC----cccCCHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence              267888999999999999999977532    233444667888888888777777776666543

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=84.44  E-value=2.5  Score=22.85  Aligned_cols=28  Identities=11%  Similarity=0.055  Sum_probs=19.5

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 027083          143 SYSLLVDAHLTNRDQKAALSVIDEMVNA  170 (228)
Q Consensus       143 t~~~li~~~~~~g~~~~a~~~~~~m~~~  170 (228)
                      +|..+-..|.+.|++++|+++|++..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4556667777777777777777776653

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=84.26  E-value=3.2  Score=33.15  Aligned_cols=37  Identities=22%  Similarity=0.222  Sum_probs=20.9

Q ss_pred             CCCCHHh-HHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 027083          102 LTPDIHS-YNALIYAFGKLKKTFEASRVFEHLVSLGVK  138 (228)
Q Consensus       102 ~~p~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~g~~  138 (228)
                      +.||+.+ ||.-|+...+.||+++|+++++|.++.|+.
T Consensus       252 v~~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~  289 (303)
T PRK10564        252 MLNDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGST  289 (303)
T ss_pred             cCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc
Confidence            3344443 356666666666666666666666666554

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=84.19  E-value=15  Score=27.46  Aligned_cols=178  Identities=14%  Similarity=0.142  Sum_probs=89.8

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++.+|...|+.+...+...+..       ..+.-.+..++.+.|  +...+...+.+.....|-.|. ..+...+.+.
T Consensus        18 ~g~y~~Ai~~f~~l~~~~P~s~~a-------~~A~l~la~a~y~~~--~y~~A~~~~~~fi~~yP~~~~-~~~A~Y~~g~   87 (203)
T PF13525_consen   18 QGDYEEAIKLFEKLIDRYPNSPYA-------PQAQLMLAYAYYKQG--DYEEAIAAYERFIKLYPNSPK-ADYALYMLGL   87 (203)
T ss_dssp             CT-HHHHHHHHHHHHHH-TTSTTH-------HHHHHHHHHHHHHTT---HHHHHHHHHHHHHH-TT-TT-HHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHH-------HHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHCCCCcc-hhhHHHHHHH
Confidence            378888888888888775432221       123445777777777  344555455554444443332 2333334433


Q ss_pred             HHcCCHHHHHHHHHHHhhcC-CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHH
Q 027083           81 ANIWDLDRAYQTFEAVGSSF-GLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKA  159 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~-~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~  159 (228)
                      +.........    ....+. ...--...|..+|+-|=.+.-..+|...+.++...   .-..- -.+-.-|.+.|.+..
T Consensus        88 ~~~~~~~~~~----~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~---la~~e-~~ia~~Y~~~~~y~a  159 (203)
T PF13525_consen   88 SYYKQIPGIL----RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR---LAEHE-LYIARFYYKRGKYKA  159 (203)
T ss_dssp             HHHHHHHHHH-----TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH---HHHHH-HHHHHHHHCTT-HHH
T ss_pred             HHHHhCccch----hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH---HHHHH-HHHHHHHHHcccHHH
Confidence            3222211111    000000 00001224566666666677777776665555431   11111 224556888899999


Q ss_pred             HHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCChhhHH
Q 027083          160 ALSVIDEMVNA--GFAPSKETLKKVRRRCVREMDEESND  196 (228)
Q Consensus       160 a~~~~~~m~~~--g~~p~~~t~~~li~~~~~~~~~~~a~  196 (228)
                      |..-++.+.+.  +........-.++.++-+.|..+.+.
T Consensus       160 A~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  160 AIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            98888888764  22222355567778888888877443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=84.18  E-value=23  Score=29.49  Aligned_cols=76  Identities=16%  Similarity=0.131  Sum_probs=41.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCC---CcHhhHHHHHHHHHc---cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLGVK---PNAMSYSLLVDAHLT---NRDQKAALSVIDEMVNAGFAPSKETLKKVRRR  185 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g~~---p~~~t~~~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  185 (228)
                      ++-+|-...+++...++++.+...-..   -....---..-++.|   .|+-++|.+++..+....-.++..||..+-+.
T Consensus       147 lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRI  226 (374)
T PF13281_consen  147 LLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRI  226 (374)
T ss_pred             HHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHH
Confidence            333566777777777777777653100   011111122333445   67777777777775555556666666665544


Q ss_pred             HH
Q 027083          186 CV  187 (228)
Q Consensus       186 ~~  187 (228)
                      |.
T Consensus       227 yK  228 (374)
T PF13281_consen  227 YK  228 (374)
T ss_pred             HH
Confidence            43

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=83.92  E-value=23  Score=29.23  Aligned_cols=126  Identities=6%  Similarity=0.027  Sum_probs=62.5

Q ss_pred             ccHHHHHHHHHHHHHHhccchh--hhh-hhhCcchhHHH--HHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSII--DME-EIFSPFTSLYP--LVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCV   76 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~--~~~-~~~~~~~~~~~--ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   76 (228)
                      |.+++|..-|+...+.......  .+. ...+....|+.  .+..++-.|  +...+......+....+=  +...|-.-
T Consensus       120 Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~G--D~~~ai~~i~~llEi~~W--da~l~~~R  195 (504)
T KOG0624|consen  120 GELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSG--DCQNAIEMITHLLEIQPW--DASLRQAR  195 (504)
T ss_pred             ccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCC--chhhHHHHHHHHHhcCcc--hhHHHHHH
Confidence            7788999999888776542221  111 22222333332  222233333  333333333334443432  66677667


Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027083           77 ILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLV  133 (228)
Q Consensus        77 l~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  133 (228)
                      -.+|...|++..|..=++...+ .. .-|+.++--+-..+-..|+.+.+....++..
T Consensus       196 akc~i~~~e~k~AI~Dlk~ask-Ls-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECL  250 (504)
T KOG0624|consen  196 AKCYIAEGEPKKAIHDLKQASK-LS-QDNTEGHYKISQLLYTVGDAENSLKEIRECL  250 (504)
T ss_pred             HHHHHhcCcHHHHHHHHHHHHh-cc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            7777777777777665555443 11 1223333333334444555555555444444

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=83.88  E-value=14  Score=26.72  Aligned_cols=77  Identities=17%  Similarity=0.102  Sum_probs=43.0

Q ss_pred             HHHHHHHHH---HHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHH-HHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHH
Q 027083           72 AINCVILGC---ANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALI-YAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLL  147 (228)
Q Consensus        72 ~~~~ll~~~---~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li-~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~l  147 (228)
                      +.+.||...   ...++.+++..+++-+.-   +.|.......+= -.+.+.|++++|.++|+++...  .|.......|
T Consensus         9 iv~gLie~~~~al~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~--~~~~p~~kAL   83 (160)
T PF09613_consen    9 IVGGLIEVLSVALRLGDPDDAEALLDALRV---LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEER--APGFPYAKAL   83 (160)
T ss_pred             HHHHHHHHHHHHHccCChHHHHHHHHHHHH---hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCChHHHHH
Confidence            444444443   345677777777777753   345444333322 2356677777777777777654  2444444555


Q ss_pred             HHHHHc
Q 027083          148 VDAHLT  153 (228)
Q Consensus       148 i~~~~~  153 (228)
                      +..|..
T Consensus        84 lA~CL~   89 (160)
T PF09613_consen   84 LALCLY   89 (160)
T ss_pred             HHHHHH
Confidence            555544

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=83.64  E-value=6.9  Score=29.07  Aligned_cols=32  Identities=16%  Similarity=0.101  Sum_probs=19.8

Q ss_pred             CCcHhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 027083          138 KPNAMSYSLLVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       138 ~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      .|++.+|..++.++...|+.++|.++..++..
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~  172 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARARR  172 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            56666666666666666666666666655553

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=83.56  E-value=16  Score=27.33  Aligned_cols=124  Identities=12%  Similarity=0.056  Sum_probs=87.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCcHhhHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLG---VKPNAMSYS  145 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g---~~p~~~t~~  145 (228)
                      .+.---.|-++..+.|+..+|...|++...- -+.-|....-.+-++....+++..|...++.+.+..   -.||.  --
T Consensus        88 Tvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~--~L  164 (251)
T COG4700          88 TVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDG--HL  164 (251)
T ss_pred             hHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCc--hH
Confidence            5555666778888999999999999999872 556677888888888889999999999999887653   23333  33


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHH
Q 027083          146 LLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDR  197 (228)
Q Consensus       146 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~  197 (228)
                      .+-..+...|...+|+.-|+...+.  .|+...-..--..+.+.|...++..
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHH
Confidence            4556677888899899888877764  4444332222334445555555543

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=82.72  E-value=8.6  Score=28.55  Aligned_cols=53  Identities=13%  Similarity=-0.001  Sum_probs=31.1

Q ss_pred             HccCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          152 LTNRDQKAALSVIDEMVN-AGFAPSKETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       152 ~~~g~~~~a~~~~~~m~~-~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      ....+.+......+..++ ....|+..+|..++.++...|+.++|+++...+..
T Consensus       119 ~~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~  172 (193)
T PF11846_consen  119 RLPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARR  172 (193)
T ss_pred             cCCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344444444444433332 23567777777777777777777777777666654

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=82.64  E-value=38  Score=30.83  Aligned_cols=194  Identities=15%  Similarity=0.095  Sum_probs=107.1

Q ss_pred             HHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCC-CHHHHHHHHHHHH-HcC
Q 027083            7 AFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYK-SVAAINCVILGCA-NIW   84 (228)
Q Consensus         7 A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~-~~~   84 (228)
                      |...+++.+.....+..-....+.....|+.+-..|+.+|..  ..++.......... +.| +...+-..=..|. +.+
T Consensus       332 al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~--s~Av~ll~~~~~~~-~~ps~~s~~Lmasklc~e~l~  408 (799)
T KOG4162|consen  332 ALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSD--SKAVNLLRESLKKS-EQPSDISVLLMASKLCIERLK  408 (799)
T ss_pred             HHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccc--hHHHHHHHhhcccc-cCCCcchHHHHHHHHHHhchh
Confidence            334444444443333333334555567788888888888853  33333333322222 112 3333322223333 345


Q ss_pred             CHHHHHHHHHHHhhc-----CCCCCCHHhHHHHHHHHHhc----C-------CHHHHHHHHHHHHhC-CCCCcHhhHHHH
Q 027083           85 DLDRAYQTFEAVGSS-----FGLTPDIHSYNALIYAFGKL----K-------KTFEASRVFEHLVSL-GVKPNAMSYSLL  147 (228)
Q Consensus        85 ~~~~a~~~~~~m~~~-----~~~~p~~~~~~~li~~~~~~----~-------~~~~a~~~~~~m~~~-g~~p~~~t~~~l  147 (228)
                      .++++.+.-.+....     ..+.|-...+  +=-+|...    .       .-.++.+.+++..+. +..|+...|-++
T Consensus       409 ~~eegldYA~kai~~~~~~~~~l~~~~~l~--lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp~~if~lal  486 (799)
T KOG4162|consen  409 LVEEGLDYAQKAISLLGGQRSHLKPRGYLF--LGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTDPLVIFYLAL  486 (799)
T ss_pred             hhhhHHHHHHHHHHHhhhhhhhhhhhHHHH--HHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHH
Confidence            555555544443331     0223322222  22222211    1       134466677776554 345655555554


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH-HcCC
Q 027083          148 VDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAK-KFDI  207 (228)
Q Consensus       148 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~-~~g~  207 (228)
                      -  |+..++++.|++..++..+.+-.-+...|..+.-.+.-.+++..|+.+.+... +.|.
T Consensus       487 q--~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~  545 (799)
T KOG4162|consen  487 Q--YAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGD  545 (799)
T ss_pred             H--HHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh
Confidence            4  56778899999999998887767788899888888888899999998876655 3443

>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=82.56  E-value=19  Score=27.18  Aligned_cols=76  Identities=17%  Similarity=0.085  Sum_probs=45.0

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHH---CCCCCCHHHHHHHHHHHHhcCChhh
Q 027083          118 KLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVN---AGFAPSKETLKKVRRRCVREMDEES  194 (228)
Q Consensus       118 ~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~---~g~~p~~~t~~~li~~~~~~~~~~~  194 (228)
                      +.|+ +.|.+.|-++...+.--++..--.|-.-|. ..+.+++..++....+   .+-.+|+..+.+|...+-+.++.+.
T Consensus       119 r~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~  196 (203)
T PF11207_consen  119 RFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQ  196 (203)
T ss_pred             ccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhh
Confidence            3344 556666666666654445444444444443 5566777776666553   2336677777777777777777666


Q ss_pred             H
Q 027083          195 N  195 (228)
Q Consensus       195 a  195 (228)
                      |
T Consensus       197 A  197 (203)
T PF11207_consen  197 A  197 (203)
T ss_pred             h
Confidence            5

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

Probab=82.27  E-value=30  Score=29.33  Aligned_cols=97  Identities=14%  Similarity=-0.021  Sum_probs=56.4

Q ss_pred             chhHHHHHHHHHhhC--hhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhH
Q 027083           32 FTSLYPLVVACSRKG--FETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSY  109 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~  109 (228)
                      .++....+.++++.-  ....+...+.+-+.....+  .|+.....+-+++...|+-+.|...|++...   +.|+..+-
T Consensus       194 ~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr--~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~---~dpy~i~~  268 (564)
T KOG1174|consen  194 FDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLR--CNEHLMMALGKCLYYNGDYFQAEDIFSSTLC---ANPDNVEA  268 (564)
T ss_pred             ccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCC--ccHHHHHHHhhhhhhhcCchHHHHHHHHHhh---CChhhhhh
Confidence            344444566665543  2223333333333333233  2888888888999999999999999998865   34544432


Q ss_pred             HHHH-HHHHhcCCHHHHHHHHHHHH
Q 027083          110 NALI-YAFGKLKKTFEASRVFEHLV  133 (228)
Q Consensus       110 ~~li-~~~~~~~~~~~a~~~~~~m~  133 (228)
                      --+- --+.+.|+.++...+...+-
T Consensus       269 MD~Ya~LL~~eg~~e~~~~L~~~Lf  293 (564)
T KOG1174|consen  269 MDLYAVLLGQEGGCEQDSALMDYLF  293 (564)
T ss_pred             HHHHHHHHHhccCHhhHHHHHHHHH
Confidence            1111 12345666666666666554

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=82.05  E-value=19  Score=26.96  Aligned_cols=126  Identities=15%  Similarity=0.135  Sum_probs=59.9

Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHc-----
Q 027083           80 CANIWDLDRAYQTFEAVGSSFGLTPD-IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLT-----  153 (228)
Q Consensus        80 ~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~-----  153 (228)
                      +...|+.++|...|+.+..+....|- ....-.+..++.+.|++++|...++++.+.-..-...-+-..+.+.+.     
T Consensus        15 ~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~~   94 (203)
T PF13525_consen   15 ALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQIP   94 (203)
T ss_dssp             HHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhCc
Confidence            34567777777777777654211111 122334456677777777777777776554211111112222222211     


Q ss_pred             --------cCCHHHHHHHHHHHHHC----CCCCCHHHH------------HHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          154 --------NRDQKAALSVIDEMVNA----GFAPSKETL------------KKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       154 --------~g~~~~a~~~~~~m~~~----g~~p~~~t~------------~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                              .+...+|...|+.+...    ...++....            -.+.+-|.+.|....|..-++.+++.
T Consensus        95 ~~~~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~  170 (203)
T PF13525_consen   95 GILRSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIEN  170 (203)
T ss_dssp             HHH-TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHH
T ss_pred             cchhcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence                    11234455555555532    111111111            01345567788888888887777764

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=82.00  E-value=27  Score=30.30  Aligned_cols=104  Identities=15%  Similarity=0.096  Sum_probs=70.8

Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-HhhHHHHHHHHHccCC
Q 027083           78 LGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN-AMSYSLLVDAHLTNRD  156 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~g~  156 (228)
                      ++.+..||++.|...|-+-.. . -++|-+.|+.-..+|.+.|++++|.+=-.+-.+  ..|+ +-.|+..=.+..--|+
T Consensus        10 naa~s~~d~~~ai~~~t~ai~-l-~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~   85 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIM-L-SPTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGD   85 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHc-c-CCCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhccc
Confidence            455677888888888888765 1 234777888888888888888888765555443  3565 3457777777777788


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 027083          157 QKAALSVIDEMVNAGFAPSKETLKKVRRRC  186 (228)
Q Consensus       157 ~~~a~~~~~~m~~~g~~p~~~t~~~li~~~  186 (228)
                      +++|..-|.+=.+.. ..+...++-+.+++
T Consensus        86 ~~eA~~ay~~GL~~d-~~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   86 YEEAILAYSEGLEKD-PSNKQLKTGLAQAY  114 (539)
T ss_pred             HHHHHHHHHHHhhcC-CchHHHHHhHHHhh
Confidence            888888887644321 22455666666655

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=81.74  E-value=16  Score=25.86  Aligned_cols=52  Identities=17%  Similarity=0.063  Sum_probs=24.2

Q ss_pred             hcCCHHHHHHHHHHHHhCCC--CCcHhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 027083          118 KLKKTFEASRVFEHLVSLGV--KPNAMSYSLLVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       118 ~~~~~~~a~~~~~~m~~~g~--~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      +.|++++|.+.|+.+...-.  .-....---|+.+|-+.|++++|...+++.++
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFir   75 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIR   75 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            34555555555555544310  11223334445555555555555555555444

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=81.12  E-value=3.9  Score=32.66  Aligned_cols=47  Identities=17%  Similarity=0.261  Sum_probs=31.1

Q ss_pred             CCCcHhh-HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 027083          137 VKPNAMS-YSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVR  183 (228)
Q Consensus       137 ~~p~~~t-~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li  183 (228)
                      +.||+.+ ||.-|..-.+.|++++|+.+++|.++.|+.--..+|-..+
T Consensus       252 v~~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFik~V  299 (303)
T PRK10564        252 MLNDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFISSV  299 (303)
T ss_pred             cCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHHHHh
Confidence            4455555 4577777777777777777777777777766666655444

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=80.77  E-value=16  Score=29.27  Aligned_cols=51  Identities=18%  Similarity=0.137  Sum_probs=25.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHH
Q 027083          114 YAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVID  165 (228)
Q Consensus       114 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~  165 (228)
                      +.|.++|.+.+|.++.+...... +.+...|-.++..+...|+--.+..-++
T Consensus       287 ~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khye  337 (361)
T COG3947         287 RAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYE  337 (361)
T ss_pred             HHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHH
Confidence            44555555555555555554443 2344555555555555555444433333

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.29  E-value=7.2  Score=35.09  Aligned_cols=102  Identities=8%  Similarity=0.037  Sum_probs=80.4

Q ss_pred             HHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 027083           91 QTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNA  170 (228)
Q Consensus        91 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  170 (228)
                      ++++....+.|..-..-|.+--|.-+..-|.-.+|.++-.+.+    -||-..|..-+.+++..+++++-+++-++++. 
T Consensus       669 ~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskks-  743 (829)
T KOG2280|consen  669 KLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKKS-  743 (829)
T ss_pred             HHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC-
Confidence            3444444445666677778888888999999999999998887    69999999999999999999998877665552 


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHH
Q 027083          171 GFAPSKETLKKVRRRCVREMDEESNDRVEALA  202 (228)
Q Consensus       171 g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m  202 (228)
                           +.-|.-.+.+|.+.|+.++|...+-+.
T Consensus       744 -----PIGy~PFVe~c~~~~n~~EA~KYiprv  770 (829)
T KOG2280|consen  744 -----PIGYLPFVEACLKQGNKDEAKKYIPRV  770 (829)
T ss_pred             -----CCCchhHHHHHHhcccHHHHhhhhhcc
Confidence                 334555778899999999998887654

---

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	228
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-12

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 64.8 bits (156), Expect = 3e-12
 Identities = 22/191 (11%), Positives = 54/191 (28%), Gaps = 6/191 (3%)

Query: 34  SLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTF 93
            L  L+     K    ++       + ++          +      C     L  A+   
Sbjct: 94  QLARLLQEAPGKLSLDVEQAPSGQHSQAQLSG---QQQRLLAFFKCCLLTDQLPLAHHLL 150

Query: 94  EAVGSSF--GLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAH 151
                         +  YNA++  + +     E   V   +   G+ P+ +SY+  +   
Sbjct: 151 VVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCM 210

Query: 152 L-TNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMN 210
              ++D       +++M   G          +     R    ++  +V+           
Sbjct: 211 GRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPP 270

Query: 211 TENRKNILFNL 221
             N   +L ++
Sbjct: 271 PVNTSKLLRDV 281

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	228
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.93
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.9
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.81
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.8
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.5
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.48
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.42
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.42
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.42
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.39
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.37
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.35
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.33
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.32
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.31
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.31
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.3
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.3
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.29
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.28
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.27
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.25
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.24
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.24
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.23
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.22
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.19
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.19
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.18
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.16
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.15
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.14
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.13
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.13
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.12
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.11
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.11
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.08
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.06
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.04
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.02
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.01
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.99
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.98
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.97
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.95
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.95
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.94
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.9
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.87
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.87
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.82
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.82
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.78
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.74
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	98.74
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.71
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.7
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.7
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.66
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.65
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.62
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.6
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	98.58
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.56
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.55
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.52
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.52
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.5
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.48
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.48
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.46
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.45
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.43
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.42
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.41
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.41
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.41
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.41
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.41
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.4
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.38
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.38
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.38
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.37
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.35
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.34
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.34
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.34
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.34
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.32
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.32
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.3
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.29
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.28
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.25
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.25
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.24
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.23
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.22
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.21
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.21
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.2
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.19
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.19
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.18
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.16
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.16
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.15
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.15
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.15
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.14
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.13
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.12
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.12
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.12
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.11
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.1
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.08
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.07
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.06
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.06
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.06
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.04
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.04
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.04
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.03
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.03
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.03
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.01
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.0
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.99
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.99
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	97.98
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.97
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.97
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.97
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.97
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.96
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.95
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	97.94
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.93
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.92
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.9
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.89
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.89
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.89
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.87
4g1t_A	472	Interferon-induced protein with tetratricopeptide	97.86
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.85
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.84
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.82
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.81
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.76
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.69
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.66
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.66
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.63
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.62
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.57
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.56
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.55
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.53
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.51
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.5
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.45
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.43
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.39
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.36
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.36
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.33
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.31
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.24
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	97.23
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.2
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	97.18
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	97.16
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.16
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.16
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.13
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.1
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.09
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.06
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.05
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.04
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.04
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.02
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.99
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.97
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.84
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	96.6
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	96.49
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.44
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	96.3
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.26
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.2
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.1
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	96.09
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	95.93
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	95.81
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	95.39
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	95.12
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	95.11
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	94.7
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	94.59
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	94.26
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.16
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	94.13
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.11
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.08
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	93.93
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	93.82
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	93.76
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	93.33
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	93.29
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.18
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.1
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	93.09
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	92.81
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	92.8
1klx_A	138	Cysteine rich protein B; structural genomics, heli	92.68
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	92.6
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.74
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	91.65
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	91.28
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	91.16
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	90.49
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	90.48
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	90.42
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	90.06
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	89.34
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	86.93
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	86.46
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	86.15
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	86.13
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	86.09
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	85.63
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	83.98
2ion_A	152	PDCD4, programmed cell death 4, PDCD4; alpha-helic	80.27

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=7e-37  Score=258.57  Aligned_cols=188  Identities=14%  Similarity=0.128  Sum_probs=172.9

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCC---------HHHHHHHHHHHhhcCCC
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWD---------LDRAYQTFEAVGSSFGL  102 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~---------~~~a~~~~~~m~~~~~~  102 (228)
                      ...++.+|++|+|.|+  ..+++..+.+|... ...||..|||+||++|+..+.         ++.|.++|++|..+ |+
T Consensus        26 e~~l~~~id~c~k~G~--~~~A~~lf~~M~~~-Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~-G~  101 (501)
T 4g26_A           26 EALLKQKLDMCSKKGD--VLEALRLYDEARRN-GVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVD-KV  101 (501)
T ss_dssp             HHHHHHHHHHTTTSCC--HHHHHHHHHHHHHH-TCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHHHHHHHHhCCC--HHHHHHHHHHHHHc-CCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHh-CC
Confidence            4568999999999994  55665566555543 345699999999999987654         78999999999995 99


Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 027083          103 TPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKV  182 (228)
Q Consensus       103 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l  182 (228)
                      .||..|||+||++|++.|++++|.++|++|.+.|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||++|
T Consensus       102 ~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~L  181 (501)
T 4g26_A          102 VPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAAL  181 (501)
T ss_dssp             CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHh
Q 027083          183 RRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEY  223 (228)
Q Consensus       183 i~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~  223 (228)
                      |.+|++.|++++|.++++.|.+.|..|+..+|..++..++.
T Consensus       182 i~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          182 LKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             HHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999988764

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=6.3e-34  Score=240.51  Aligned_cols=178  Identities=15%  Similarity=0.172  Sum_probs=162.7

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhCh-------hcHHHHHHHHhchhhcCCCCCCHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGF-------ETLDSVYFQLENLSRAEPPYKSVAAI   73 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~-------~~~~~~~~~~~~~~~~~~~~~~~~~~   73 (228)
                      .|++++|+.+|++|.+.         ++.|+..|||+||.+|++.+.       .....++..+.+|... ...||..||
T Consensus        39 ~G~~~~A~~lf~~M~~~---------Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~-G~~Pd~~ty  108 (501)
T 4g26_A           39 KGDVLEALRLYDEARRN---------GVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVD-KVVPNEATF  108 (501)
T ss_dssp             SCCHHHHHHHHHHHHHH---------TCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHT-TCCCCHHHH
T ss_pred             CCCHHHHHHHHHHHHHc---------CCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHh-CCCCCHHHH
Confidence            48999999999999998         888889999999999998763       1245555555555543 345699999


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHc
Q 027083           74 NCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLT  153 (228)
Q Consensus        74 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~  153 (228)
                      |++|++|++.|++++|.++|++|.+. |+.||..|||++|.+|++.|++++|.++|++|.+.|+.||..||++||.+|++
T Consensus       109 n~lI~~~~~~g~~~~A~~l~~~M~~~-g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~  187 (501)
T 4g26_A          109 TNGARLAVAKDDPEMAFDMVKQMKAF-GIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMD  187 (501)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHT-TCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhh
Confidence            99999999999999999999999995 99999999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 027083          154 NRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVRE  189 (228)
Q Consensus       154 ~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~  189 (228)
                      .|++++|.++|++|++.|+.|+..||+.|+..|+..
T Consensus       188 ~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          188 TKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             CCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999864

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.93  E-value=7.9e-26  Score=198.83  Aligned_cols=137  Identities=12%  Similarity=0.067  Sum_probs=119.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc--CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSS--FGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSL  146 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~  146 (228)
                      -..|||++|++||+.|++++|.++|++|.+.  .|+.||..|||+||++||+.|++++|.++|++|.+.|+.||.+|||+
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            4568999999999999999999999887631  28999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHccCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcc
Q 027083          147 LVDAHLTNRD-QKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMN  210 (228)
Q Consensus       147 li~~~~~~g~-~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~  210 (228)
                      ||+++|+.|+ .++|.++|++|.+.|+.||..||+.++.+..+.+-    .+..+.+ +-+++|+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~v----L~~Vrkv-~P~f~p~  265 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATV----LKAVHKV-KPTFSLP  265 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHH----HHHHGGG-CCCCCCC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHH----HHHHHHh-CcccCCC
Confidence            9999999998 58899999999999999999999999987766543    3333333 4455554

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.90  E-value=7.6e-24  Score=186.40  Aligned_cols=121  Identities=10%  Similarity=0.003  Sum_probs=110.7

Q ss_pred             CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh---CCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHH
Q 027083          102 LTPDIHSYNALIYAFGKLKKTFEASRVFEHLVS---LGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKET  178 (228)
Q Consensus       102 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t  178 (228)
                      ..--..|||+||++||++|++++|.++|++|.+   .|+.||.+|||+||++||+.|++++|.++|++|.+.|+.||..|
T Consensus       123 ~~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvT  202 (1134)
T 3spa_A          123 LSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS  202 (1134)
T ss_dssp             CCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HHhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHH
Confidence            344567999999999999999999999988764   58999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCh-hhHHHHHHHHHHcCCCcchhhHHHHHHHHH
Q 027083          179 LKKVRRRCVREMDE-ESNDRVEALAKKFDIRMNTENRKNILFNLE  222 (228)
Q Consensus       179 ~~~li~~~~~~~~~-~~a~~~~~~m~~~g~~~~~~~~~~li~~l~  222 (228)
                      ||+||.++++.|+. +.|.++++.|.+.|+.||..+|+.++.+.+
T Consensus       203 YntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~e  247 (1134)
T 3spa_A          203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEED  247 (1134)
T ss_dssp             HHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhh
Confidence            99999999999985 789999999999999999999996554443

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.81  E-value=1.5e-17  Score=142.49  Aligned_cols=188  Identities=9%  Similarity=-0.040  Sum_probs=142.1

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHH
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNA  111 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~  111 (228)
                      ..+|+.+...|.+.|+  ..++...+.++....+.  +..+|+.+..+|.+.|++++|.++|+++...  ...+..+|+.
T Consensus       373 ~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~  446 (597)
T 2xpi_A          373 AVTWLAVGIYYLCVNK--ISEARRYFSKSSTMDPQ--FGPAWIGFAHSFAIEGEHDQAISAYTTAARL--FQGTHLPYLF  446 (597)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT--TTTCSHHHHH
T ss_pred             HHHHHHHHHHHHHhcc--HHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHH
Confidence            5567778888888884  44444444444443332  6778888888888888888888888888762  3457778888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHC----CCCCC--HHHHHHHHHH
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNA----GFAPS--KETLKKVRRR  185 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~--~~t~~~li~~  185 (228)
                      +..+|.+.|++++|.++|+++.+.. ..+..+|+.+...|.+.|++++|.++|+++.+.    +..|+  ..+|..+..+
T Consensus       447 l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~  525 (597)
T 2xpi_A          447 LGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHA  525 (597)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHH
Confidence            8888888888888888888887654 346788888888888888888888888888765    66777  7788888888


Q ss_pred             HHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhhc
Q 027083          186 CVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASY  227 (228)
Q Consensus       186 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~~  227 (228)
                      |.+.|++++|..+++.+.+.+ +.+...|..+...+...++|
T Consensus       526 ~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~  566 (597)
T 2xpi_A          526 YRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIP  566 (597)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCH
Confidence            888888888888888888765 33677777777777766655

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.80  E-value=4.4e-17  Score=139.69  Aligned_cols=209  Identities=9%  Similarity=-0.011  Sum_probs=172.8

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++++|..+|+++.+..          +.+..+|+.++.+|.+.|+  ..++...+.++....+.  +..+|+.+...|
T Consensus       318 ~g~~~~A~~~~~~~~~~~----------~~~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~  383 (597)
T 2xpi_A          318 RSRFIDVLAITTKILEID----------PYNLDVYPLHLASLHESGE--KNKLYLISNDLVDRHPE--KAVTWLAVGIYY  383 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHC----------TTCCTTHHHHHHHHHHHTC--HHHHHHHHHHHHHHCTT--SHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHcC----------cccHHHHHHHHHHHHHhCC--HHHHHHHHHHHHhhCcc--cHHHHHHHHHHH
Confidence            367788888888876552          2245678899999999884  45555555555544443  788999999999


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHH
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAA  160 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  160 (228)
                      .+.|++++|.++|+++.+.  ...+..+|+.++.+|.+.|++++|.++|+++.+.+ ..+..+|+.+..+|.+.|++++|
T Consensus       384 ~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A  460 (597)
T 2xpi_A          384 LCVNKISEARRYFSKSSTM--DPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLA  460 (597)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHH
T ss_pred             HHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999999863  23467799999999999999999999999998765 35889999999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHc----CCCcc--hhhHHHHHHHHHhhhhc
Q 027083          161 LSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKF----DIRMN--TENRKNILFNLEYSASY  227 (228)
Q Consensus       161 ~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~~~--~~~~~~li~~l~~~~~~  227 (228)
                      .++|+++.+.. ..+..+|+.+...|.+.|++++|..+++.+.+.    +..|+  ...|..+...+...++|
T Consensus       461 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~  532 (597)
T 2xpi_A          461 NEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMY  532 (597)
T ss_dssp             HHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCH
Confidence            99999998753 347899999999999999999999999999887    77887  78888888888766654

>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=99.50  E-value=2.6e-11  Score=98.53  Aligned_cols=133  Identities=11%  Similarity=-0.017  Sum_probs=96.6

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +..++..+...+...|++++|...|+++.+.  -+.+..+|+.+...|.+.|++++|...|+++.+.. +.+..+|+.+.
T Consensus       236 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  312 (388)
T 1w3b_A          236 HAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLA  312 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHH
Confidence            5667777777777788888888888777762  12245577777778888888888888888776653 44677777888


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      ..+.+.|++++|.+.++++.+.. ..+..++..+...+.+.|++++|...++.+.+.
T Consensus       313 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          313 NIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            88888888888888887776532 234677777777888888888888888777763

>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=99.48  E-value=6.2e-11  Score=96.31  Aligned_cols=207  Identities=13%  Similarity=0.016  Sum_probs=169.1

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++++|...++++.+...          ....+|+.+...+.+.|+  ...+...+.+.....+.  +...|..+-..+
T Consensus       148 ~g~~~~A~~~~~~al~~~p----------~~~~~~~~l~~~~~~~g~--~~~A~~~~~~al~~~p~--~~~~~~~lg~~~  213 (388)
T 1w3b_A          148 LGRLEEAKACYLKAIETQP----------NFAVAWSNLGCVFNAQGE--IWLAIHHFEKAVTLDPN--FLDAYINLGNVL  213 (388)
T ss_dssp             TSCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHTTTC--HHHHHHHHHHHHHHCTT--CHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHHcCC--HHHHHHHHHHHHhcCCC--cHHHHHHHHHHH
Confidence            4899999999999988731          123578889999999994  55555555555554443  678899999999


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHH
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKA  159 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~  159 (228)
                      ...|++++|...|++....   .| +..+++.+...|.+.|++++|...|+++.+.. +.+..+|..+...+.+.|++++
T Consensus       214 ~~~~~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  289 (388)
T 1w3b_A          214 KEARIFDRAVAAYLRALSL---SPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAE  289 (388)
T ss_dssp             HTTTCTTHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHH
T ss_pred             HHcCCHHHHHHHHHHHHhh---CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999998763   34 57889999999999999999999999998864 2357889999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhhc
Q 027083          160 ALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASY  227 (228)
Q Consensus       160 a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~~  227 (228)
                      |.+.++++.+.. .++..++..+...+...|++++|...++.+.+.. +.+...+..+...+...++|
T Consensus       290 A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  355 (388)
T 1w3b_A          290 AEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKL  355 (388)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCC
T ss_pred             HHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCH
Confidence            999999988753 4578999999999999999999999999998753 23566777777777666554

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.42  E-value=9e-11  Score=96.90  Aligned_cols=120  Identities=13%  Similarity=0.025  Sum_probs=63.2

Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHH
Q 027083           80 CANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKA  159 (228)
Q Consensus        80 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~  159 (228)
                      +...|++++|...|+++...  .+.+...+..+..+|.+.|++++|...|+++.+.. ..+..+|..+...|...|++++
T Consensus       153 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~  229 (450)
T 2y4t_A          153 AFGSGDYTAAIAFLDKILEV--CVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHEL  229 (450)
T ss_dssp             HHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            44555555555555555442  22344455555556666666666666666554432 2345556666666666666666


Q ss_pred             HHHHHHHHHHCCCCCC-HHHHHHH------------HHHHHhcCChhhHHHHHHHHHH
Q 027083          160 ALSVIDEMVNAGFAPS-KETLKKV------------RRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       160 a~~~~~~m~~~g~~p~-~~t~~~l------------i~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      |.+.|+++...  .|+ ...+..+            ...+...|++++|...+..+.+
T Consensus       230 A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~  285 (450)
T 2y4t_A          230 SLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMK  285 (450)
T ss_dssp             HHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            66666655532  232 2222222            4555555666666666555555

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.42  E-value=3.6e-10  Score=84.12  Aligned_cols=198  Identities=8%  Similarity=-0.118  Sum_probs=151.6

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++++|...+++..+...          .....|..+...|.+.|+  ...+...+.+.....+.  +..++..+...+
T Consensus        21 ~~~~~~A~~~~~~~~~~~~----------~~~~~~~~l~~~~~~~~~--~~~A~~~~~~a~~~~~~--~~~~~~~l~~~~   86 (225)
T 2vq2_A           21 GQDYRQATASIEDALKSDP----------KNELAWLVRAEIYQYLKV--NDKAQESFRQALSIKPD--SAEINNNYGWFL   86 (225)
T ss_dssp             TTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCTT--CHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHhCc----------cchHHHHHHHHHHHHcCC--hHHHHHHHHHHHHhCCC--ChHHHHHHHHHH
Confidence            3788899999888776521          123467788888998884  45555555554444443  677888899999


Q ss_pred             HHc-CCHHHHHHHHHHHhhcCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHH
Q 027083           81 ANI-WDLDRAYQTFEAVGSSFGLTPD-IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQK  158 (228)
Q Consensus        81 ~~~-~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~  158 (228)
                      ... |++++|...+++... .+..|+ ...+..+...+.+.|++++|...|++..+.. ..+...+..+...+.+.|+++
T Consensus        87 ~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           87 CGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHH
Confidence            999 999999999999987 244454 5678888899999999999999999987764 235788999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHH
Q 027083          159 AALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKN  216 (228)
Q Consensus       159 ~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  216 (228)
                      +|.+.+++.....-..+...+..+...+...|+.+.+..++..+.+..  |+......
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~~  220 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF--PYSEELQT  220 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC--CCCHHHHH
Confidence            999999988765422467778888888889999999999998887643  44444443

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.42  E-value=1.2e-10  Score=96.17  Aligned_cols=187  Identities=15%  Similarity=0.054  Sum_probs=150.4

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++++|...|+++.+..          +....+|..+..+|.+.|+  ...+...+.+.....+.  +..++..+...|
T Consensus        39 ~g~~~~A~~~~~~~l~~~----------p~~~~~~~~l~~~~~~~g~--~~~A~~~~~~al~~~p~--~~~~~~~l~~~~  104 (450)
T 2y4t_A           39 AGQLADALSQFHAAVDGD----------PDNYIAYYRRATVFLAMGK--SKAALPDLTKVIQLKMD--FTAARLQRGHLL  104 (450)
T ss_dssp             TTCHHHHHHHHHHHHHHC----------TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCTT--CHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhC----------CccHHHHHHHHHHHHHCCC--HHHHHHHHHHHHhcCCC--cHHHHHHHHHHH
Confidence            478899999999887652          1224578889999999994  55555555555554443  678999999999


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCCCH----HhHHHHHH------------HHHhcCCHHHHHHHHHHHHhCCCCCcHhhH
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTPDI----HSYNALIY------------AFGKLKKTFEASRVFEHLVSLGVKPNAMSY  144 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~------------~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~  144 (228)
                      ...|++++|...|+++...   .|+.    ..+..+..            .+.+.|++++|...|+++.+.. ..+...+
T Consensus       105 ~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  180 (450)
T 2y4t_A          105 LKQGKLDEAEDDFKKVLKS---NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELR  180 (450)
T ss_dssp             HHTTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhc---CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHH
Confidence            9999999999999999863   3543    55665544            4899999999999999998764 3478889


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          145 SLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       145 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      ..+..+|.+.|++++|.++|+++.... ..+..++..+...+...|+.++|...+..+.+..
T Consensus       181 ~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  241 (450)
T 2y4t_A          181 ELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD  241 (450)
T ss_dssp             HHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999999999999999999999987642 3468899999999999999999999999998653

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.39  E-value=5.5e-10  Score=85.05  Aligned_cols=188  Identities=15%  Similarity=0.057  Sum_probs=149.0

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|...+++..+..          +.....+..+...|.+.|+  ...+...+.+.....+.  +...+..+...+.
T Consensus        51 ~~~~~A~~~~~~al~~~----------~~~~~~~~~la~~~~~~~~--~~~A~~~~~~a~~~~~~--~~~~~~~la~~~~  116 (252)
T 2ho1_A           51 GNTEQAKVPLRKALEID----------PSSADAHAALAVVFQTEME--PKLADEEYRKALASDSR--NARVLNNYGGFLY  116 (252)
T ss_dssp             TCTGGGHHHHHHHHHHC----------TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCTT--CHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHhcC----------CChHHHHHHHHHHHHHcCC--HHHHHHHHHHHHHHCcC--cHHHHHHHHHHHH
Confidence            67778888888876652          1123567788889999884  55555555554444443  6788999999999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAA  160 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  160 (228)
                      ..|+.++|...|++... .+..| +...+..+...|.+.|++++|...|++..+.. ..+...+..+...+.+.|++++|
T Consensus       117 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          117 EQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999987 24556 45678888899999999999999999987764 33688899999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          161 LSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       161 ~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      .+.+++..+.. ..+...+..+...+...|+.++|.+.++.+.+..
T Consensus       195 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          195 RQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            99999887643 3567788888899999999999999999988764

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.37  E-value=1.3e-10  Score=93.56  Aligned_cols=207  Identities=8%  Similarity=-0.013  Sum_probs=141.6

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|...++++.+..          +....+|..+...|.+.|+  ...+...+.+.....+.  +..+|..+...|.
T Consensus        79 g~~~~A~~~~~~al~~~----------p~~~~~~~~lg~~~~~~g~--~~~A~~~~~~al~~~p~--~~~~~~~l~~~~~  144 (365)
T 4eqf_A           79 GDLPVTILFMEAAILQD----------PGDAEAWQFLGITQAENEN--EQAAIVALQRCLELQPN--NLKALMALAVSYT  144 (365)
T ss_dssp             TCHHHHHHHHHHHHHHC----------TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCTT--CHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC----------cCCHHHHHHHHHHHHHCCC--HHHHHHHHHHHHhcCCC--CHHHHHHHHHHHH
Confidence            78899999999987763          1224578889999999994  55555555555544443  6889999999999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCC-----------HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CcHhhHHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPD-----------IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVK-PNAMSYSLLVD  149 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~-----------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~~~t~~~li~  149 (228)
                      ..|+.++|...|+++.+.   .|+           ..+++.+...|.+.|++++|...|+++.+.... ++..+|..+..
T Consensus       145 ~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          145 NTSHQQDACEALKNWIKQ---NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HTTCHHHHHHHHHHHHHH---CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHh---CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            999999999999998763   232           223334567778888888888888887765321 15777888888


Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhhc
Q 027083          150 AHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASY  227 (228)
Q Consensus       150 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~~  227 (228)
                      .+.+.|++++|.+.+++..+.. ..+..+|..+...+...|++++|...++...+..-. +...+..+-..+...++|
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~  297 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPG-FIRSRYNLGISCINLGAY  297 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCC
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHCCCH
Confidence            8888888888888888776542 235677888888888888888888888887775322 355566665555555443

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.35  E-value=1.3e-09  Score=87.37  Aligned_cols=211  Identities=11%  Similarity=0.013  Sum_probs=150.1

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++++|...++++.+..          +....+|..+..++.+.|+  ...+...+.+.....+.  +..++..+...+
T Consensus        77 ~g~~~~A~~~~~~al~~~----------p~~~~~~~~l~~~~~~~g~--~~~A~~~~~~al~~~~~--~~~~~~~l~~~~  142 (368)
T 1fch_A           77 EGDLPNAVLLFEAAVQQD----------PKHMEAWQYLGTTQAENEQ--ELLAISALRRCLELKPD--NQTALMALAVSF  142 (368)
T ss_dssp             TTCHHHHHHHHHHHHHSC----------TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCTT--CHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhC----------CCCHHHHHHHHHHHHHCcC--HHHHHHHHHHHHhcCCC--CHHHHHHHHHHH
Confidence            367788888888876552          1123467777788888774  44444444444443433  667788888888


Q ss_pred             HHcCCHHHHHHHHHHHhhcCC----------------------------------------------CCC---CHHhHHH
Q 027083           81 ANIWDLDRAYQTFEAVGSSFG----------------------------------------------LTP---DIHSYNA  111 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~----------------------------------------------~~p---~~~~~~~  111 (228)
                      ...|+.++|...++++.....                                              ..|   +..++..
T Consensus       143 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~  222 (368)
T 1fch_A          143 TNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCG  222 (368)
T ss_dssp             HHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHH
Confidence            888888888877777654200                                              112   4677888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMD  191 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~  191 (228)
                      +...|.+.|++++|...|++..+.. ..+..+|..+...+.+.|++++|.+.+++..... ..+..++..+...+.+.|+
T Consensus       223 l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~  300 (368)
T 1fch_A          223 LGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGA  300 (368)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCC
Confidence            8888999999999999999887653 3357788889999999999999999998877642 2356788888888999999


Q ss_pred             hhhHHHHHHHHHHcCCCc----------chhhHHHHHHHHHhhhhc
Q 027083          192 EESNDRVEALAKKFDIRM----------NTENRKNILFNLEYSASY  227 (228)
Q Consensus       192 ~~~a~~~~~~m~~~g~~~----------~~~~~~~li~~l~~~~~~  227 (228)
                      +++|...+....+..-..          ....+..+..++..++++
T Consensus       301 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  346 (368)
T 1fch_A          301 HREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQS  346 (368)
T ss_dssp             HHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCG
T ss_pred             HHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCCh
Confidence            999999888887643221          156777777777766654

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.33  E-value=2e-09  Score=84.75  Aligned_cols=208  Identities=7%  Similarity=-0.103  Sum_probs=160.2

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++++|...++++.+..          +.....+..+..++.+.|+  ...+...+.+.....+.  +...|..+-..+
T Consensus        35 ~g~~~~A~~~~~~~l~~~----------p~~~~~~~~~~~~~~~~~~--~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~  100 (330)
T 3hym_B           35 NCDFKMCYKLTSVVMEKD----------PFHASCLPVHIGTLVELNK--ANELFYLSHKLVDLYPS--NPVSWFAVGCYY  100 (330)
T ss_dssp             TTCHHHHHHHHHHHHHHC----------TTCTTTHHHHHHHHHHHTC--HHHHHHHHHHHHHHCTT--STHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcC----------CCChhhHHHHHHHHHHhhh--HHHHHHHHHHHHHhCcC--CHHHHHHHHHHH
Confidence            378999999999987662          1224456677888888884  55555555555554443  667888899999


Q ss_pred             HHcC-CHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHH
Q 027083           81 ANIW-DLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKA  159 (228)
Q Consensus        81 ~~~~-~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~  159 (228)
                      ...| +.++|...|++....  .+.+...|..+...|...|++++|...|++..+... .+...+..+-..+...|++++
T Consensus       101 ~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~  177 (330)
T 3hym_B          101 LMVGHKNEHARRYLSKATTL--EKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLTNNSKL  177 (330)
T ss_dssp             HHSCSCHHHHHHHHHHHHTT--CTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHhhhhHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhHHH
Confidence            9999 999999999999863  233567899999999999999999999999887642 346777889999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCC--------CcchhhHHHHHHHHHhhhh
Q 027083          160 ALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDI--------RMNTENRKNILFNLEYSAS  226 (228)
Q Consensus       160 a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~--------~~~~~~~~~li~~l~~~~~  226 (228)
                      |.+.+++..+.. ..+..++..+...+...|++++|...+....+..-        ......+..+...+...++
T Consensus       178 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~  251 (330)
T 3hym_B          178 AERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKK  251 (330)
T ss_dssp             HHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcC
Confidence            999999888653 34578899999999999999999999998887421        2234566666665555444

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.32  E-value=4e-09  Score=82.94  Aligned_cols=210  Identities=10%  Similarity=0.018  Sum_probs=145.6

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++++|...++++.+...          .....|..+..++.+.|+  ...+...+.+.....+.  +..++..+-..+
T Consensus        34 ~~~~~~A~~~~~~~~~~~~----------~~~~~~~~l~~~~~~~~~--~~~A~~~~~~a~~~~~~--~~~~~~~la~~~   99 (327)
T 3cv0_A           34 LANLAEAALAFEAVCQAAP----------EREEAWRSLGLTQAENEK--DGLAIIALNHARMLDPK--DIAVHAALAVSH   99 (327)
T ss_dssp             TTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCTT--CHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHHcCC--HHHHHHHHHHHHhcCcC--CHHHHHHHHHHH
Confidence            3778888888888776521          123456677777888774  44444444444443333  566777777778


Q ss_pred             HHcCCHHHHHHHHHHHhhcC-----------------------------------------------CCCCCHHhHHHHH
Q 027083           81 ANIWDLDRAYQTFEAVGSSF-----------------------------------------------GLTPDIHSYNALI  113 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~-----------------------------------------------~~~p~~~~~~~li  113 (228)
                      ...|+.++|...+++.....                                               ..+.+...+..+.
T Consensus       100 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la  179 (327)
T 3cv0_A          100 TNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASLG  179 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHHHH
Confidence            88888888877777665410                                               0112456677788


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChh
Q 027083          114 YAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEE  193 (228)
Q Consensus       114 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~  193 (228)
                      ..|.+.|++++|...+++..+.. ..+..+|..+...+...|++++|.+.+++..+.. ..+..++..+...+...|+++
T Consensus       180 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~  257 (327)
T 3cv0_A          180 VLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYD  257 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHH
Confidence            88888899999999888887653 3357788888888888999999998888877643 235678888888888889999


Q ss_pred             hHHHHHHHHHHcCCCc-----------chhhHHHHHHHHHhhhh
Q 027083          194 SNDRVEALAKKFDIRM-----------NTENRKNILFNLEYSAS  226 (228)
Q Consensus       194 ~a~~~~~~m~~~g~~~-----------~~~~~~~li~~l~~~~~  226 (228)
                      +|...+....+..-..           +...+..+..++...++
T Consensus       258 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  301 (327)
T 3cv0_A          258 LAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNR  301 (327)
T ss_dssp             HHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCC
Confidence            9998888887654332           35566666666655554

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.31  E-value=7e-13  Score=108.92  Aligned_cols=158  Identities=13%  Similarity=0.126  Sum_probs=25.4

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|...++++...               .+|..|..++.+.|+  ..++...+.+     .  +|..+|..++.++.
T Consensus        17 ~~ld~A~~fae~~~~~---------------~vWs~La~A~l~~g~--~~eAIdsfik-----a--~D~~~y~~V~~~ae   72 (449)
T 1b89_A           17 GNLDRAYEFAERCNEP---------------AVWSQLAKAQLQKGM--VKEAIDSYIK-----A--DDPSSYMEVVQAAN   72 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cCHHHHHHHHHhCCCh---------------HHHHHHHHHHHHcCC--HHHHHHHHHc-----C--CCHHHHHHHHHHHH
Confidence            5566666666666332               357777777777774  2222222211     1  24556677777777


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ..|++++|...++...+.   .+++.+.+.++.+|.+.|++++++++++       .|+..+|+.+-..|...|++++|.
T Consensus        73 ~~g~~EeAi~yl~~ark~---~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~  142 (449)
T 1b89_A           73 TSGNWEELVKYLQMARKK---ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAK  142 (449)
T ss_dssp             ---------------------------------------CHHHHTTTTT-------CC----------------CTTTHH
T ss_pred             hCCCHHHHHHHHHHHHHh---CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHH
Confidence            777777777755444431   3445666666666666666666665553       245555555555555555555555


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHH
Q 027083          162 SVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALA  202 (228)
Q Consensus       162 ~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m  202 (228)
                      ..|..+         ..|..+..++.+.|+++.|.+.+..+
T Consensus       143 ~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA  174 (449)
T 1b89_A          143 LLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA  174 (449)
T ss_dssp             HHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc
Confidence            555533         24444445555555555544444444

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.31  E-value=1.9e-10  Score=92.63  Aligned_cols=212  Identities=11%  Similarity=0.045  Sum_probs=151.4

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCC--------CHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYK--------SVAA   72 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~--------~~~~   72 (228)
                      .|++++|...+++..+..          +....+|..+...|.+.|+  ...+...+.+.....+..+        ....
T Consensus       112 ~g~~~~A~~~~~~al~~~----------p~~~~~~~~l~~~~~~~g~--~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~  179 (365)
T 4eqf_A          112 NENEQAAIVALQRCLELQ----------PNNLKALMALAVSYTNTSH--QQDACEALKNWIKQNPKYKYLVKNKKGSPGL  179 (365)
T ss_dssp             TTCHHHHHHHHHHHHHHC----------TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCHHHHCC----------
T ss_pred             CCCHHHHHHHHHHHHhcC----------CCCHHHHHHHHHHHHcccc--HHHHHHHHHHHHHhCccchHHHhhhccchHH
Confidence            478899999999887762          1124578899999999995  4444444444333222100        1223


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHH
Q 027083           73 INCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHL  152 (228)
Q Consensus        73 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~  152 (228)
                      +..+-..+...|++++|...|+++.....-.++..++..+...|.+.|++++|...|++..+.. +.+..+|+.+..+|.
T Consensus       180 ~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~  258 (365)
T 4eqf_A          180 TRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLA  258 (365)
T ss_dssp             ---------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            4455778889999999999999998742222268899999999999999999999999988764 346889999999999


Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCC-----------cchhhHHHHHHHH
Q 027083          153 TNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIR-----------MNTENRKNILFNL  221 (228)
Q Consensus       153 ~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-----------~~~~~~~~li~~l  221 (228)
                      +.|++++|.+.|++..+.. ..+..++..+...|.+.|++++|...+....+..-.           .+...+..+-.++
T Consensus       259 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  337 (365)
T 4eqf_A          259 NGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIAL  337 (365)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHH
Confidence            9999999999999988742 224788999999999999999999999998874321           1355666666666


Q ss_pred             Hhhhh
Q 027083          222 EYSAS  226 (228)
Q Consensus       222 ~~~~~  226 (228)
                      ..+++
T Consensus       338 ~~~g~  342 (365)
T 4eqf_A          338 SLMDQ  342 (365)
T ss_dssp             HHHTC
T ss_pred             HHcCc
Confidence            65554

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.30  E-value=3.6e-09  Score=78.64  Aligned_cols=182  Identities=10%  Similarity=-0.062  Sum_probs=142.9

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHH
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNA  111 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~  111 (228)
                      ...|..+...+.+.|+  ...+...+.+.....+.  +...+..+...+...|+.++|...+++....  .+.+..++..
T Consensus         8 ~~~~~~~~~~~~~~~~--~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~   81 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQD--YRQATASIEDALKSDPK--NELAWLVRAEIYQYLKVNDKAQESFRQALSI--KPDSAEINNN   81 (225)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhh--HHHHHHHHHHHHHhCcc--chHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCChHHHHH
Confidence            3467788889999884  55555555554444443  6789999999999999999999999999873  3346778999


Q ss_pred             HHHHHHhc-CCHHHHHHHHHHHHhCCCCC-cHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 027083          112 LIYAFGKL-KKTFEASRVFEHLVSLGVKP-NAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVRE  189 (228)
Q Consensus       112 li~~~~~~-~~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~  189 (228)
                      +...|... |++++|...++++.+.+..| +...+..+..++...|++++|.+.+++..+.. ..+...+..+...+...
T Consensus        82 l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~  160 (225)
T 2vq2_A           82 YGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLA  160 (225)
T ss_dssp             HHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHc
Confidence            99999999 99999999999998743334 36788999999999999999999999988643 23478888999999999


Q ss_pred             CChhhHHHHHHHHHHcCCCcchhhHHHHHHH
Q 027083          190 MDEESNDRVEALAKKFDIRMNTENRKNILFN  220 (228)
Q Consensus       190 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  220 (228)
                      |+.++|...+....+..-..+...+..+...
T Consensus       161 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  191 (225)
T 2vq2_A          161 GQLGDADYYFKKYQSRVEVLQADDLLLGWKI  191 (225)
T ss_dssp             TCHHHHHHHHHHHHHHHCSCCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            9999999999998876442344445444333

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.30  E-value=7.8e-10  Score=83.48  Aligned_cols=187  Identities=11%  Similarity=-0.027  Sum_probs=144.8

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|...+++..+..          +.....+..+...+.+.|+  ...+...+.+.....+.  +..++..+...+.
T Consensus        37 ~~~~~A~~~~~~~l~~~----------~~~~~~~~~la~~~~~~~~--~~~A~~~~~~~~~~~~~--~~~~~~~la~~~~  102 (243)
T 2q7f_A           37 GDYEKAAEAFTKAIEEN----------KEDAIPYINFANLLSSVNE--LERALAFYDKALELDSS--AATAYYGAGNVYV  102 (243)
T ss_dssp             -----CCTTHHHHHTTC----------TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCTT--CHHHHHHHHHHHH
T ss_pred             hCHHHHHHHHHHHHHhC----------cccHHHHHHHHHHHHHcCC--HHHHHHHHHHHHHcCCc--chHHHHHHHHHHH
Confidence            56666666666665431          1124567788888999884  55555555554444443  7788999999999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ..|+.++|...+++..+.  ...+...+..+...|.+.|++++|...+++..+.. ..+...+..+...+.+.|++++|.
T Consensus       103 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  179 (243)
T 2q7f_A          103 VKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEAL  179 (243)
T ss_dssp             HTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHH
Confidence            999999999999999873  34567788999999999999999999999987764 347888999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          162 SVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       162 ~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      +.+++..... ..+..++..+...+...|+.++|...+....+..
T Consensus       180 ~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          180 SQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            9999887653 3457888999999999999999999999988754

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.29  E-value=3.2e-09  Score=83.61  Aligned_cols=206  Identities=12%  Similarity=0.017  Sum_probs=121.1

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhC-hhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKG-FETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      |++++|...++++.+...          .....|..+...+.+.| ..  ..+...+.+.....+.  +...|..+-..+
T Consensus        70 ~~~~~A~~~~~~~~~~~~----------~~~~~~~~l~~~~~~~~~~~--~~A~~~~~~a~~~~~~--~~~~~~~l~~~~  135 (330)
T 3hym_B           70 NKANELFYLSHKLVDLYP----------SNPVSWFAVGCYYLMVGHKN--EHARRYLSKATTLEKT--YGPAWIAYGHSF  135 (330)
T ss_dssp             TCHHHHHHHHHHHHHHCT----------TSTHHHHHHHHHHHHSCSCH--HHHHHHHHHHHTTCTT--CTHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHhCc----------CCHHHHHHHHHHHHHhhhhH--HHHHHHHHHHHHhCCc--cHHHHHHHHHHH
Confidence            567777777777765421          12345666666666666 32  2222223332222222  445666777777


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHH
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAA  160 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  160 (228)
                      ...|+.++|...|++....  .+.+...+..+...|...|++++|...+++..+.. +.+...+..+...+.+.|++++|
T Consensus       136 ~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A  212 (330)
T 3hym_B          136 AVESEHDQAMAAYFTAAQL--MKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTA  212 (330)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--TTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHccCHHHHHHHHHHHHHh--ccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHH
Confidence            7777777777777777652  12234455556667777777777777777766553 23556677777777777777777


Q ss_pred             HHHHHHHHHCC--------CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhh
Q 027083          161 LSVIDEMVNAG--------FAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSA  225 (228)
Q Consensus       161 ~~~~~~m~~~g--------~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~  225 (228)
                      .+.+++..+..        ...+..++..+...+...|++++|...+....+..-. +...+..+-..+...+
T Consensus       213 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g  284 (330)
T 3hym_B          213 EKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQ-NASTYSAIGYIHSLMG  284 (330)
T ss_dssp             HHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHHhc
Confidence            77776665421        1223456666667777777777777777766665422 3444444444444433

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.28  E-value=1.2e-09  Score=82.94  Aligned_cols=190  Identities=11%  Similarity=0.028  Sum_probs=146.7

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCC-CCC----HHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPP-YKS----VAAINC   75 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~-~~~----~~~~~~   75 (228)
                      .|++++|...+++..+.         .  .....|..+..++.+.|+  ...+...+.+.....+. .++    ..+|..
T Consensus        18 ~~~~~~A~~~~~~a~~~---------~--~~~~~~~~~~~~~~~~~~--~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A           18 ARQFDEAIEHYNKAWEL---------H--KDITYLNNRAAAEYEKGE--YETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             TTCHHHHHHHHHHHHHH---------S--CCTHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHh---------h--ccHHHHHHHHHHHHHccc--HHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            47899999999998887         3  345678889999999995  33333333332221111 002    578888


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcCC------------------------CCC-CHHhHHHHHHHHHhcCCHHHHHHHHH
Q 027083           76 VILGCANIWDLDRAYQTFEAVGSSFG------------------------LTP-DIHSYNALIYAFGKLKKTFEASRVFE  130 (228)
Q Consensus        76 ll~~~~~~~~~~~a~~~~~~m~~~~~------------------------~~p-~~~~~~~li~~~~~~~~~~~a~~~~~  130 (228)
                      +-..+...|++++|...|++.... .                        ..| +...+..+-..+.+.|++++|...|+
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  163 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTE-HRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYT  163 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhc-CchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            999999999999999999998862 2                        233 34467788888999999999999999


Q ss_pred             HHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          131 HLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       131 ~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      +..+.. +.+..+|..+-.++.+.|++++|.+.+++..+.. ..+..+|..+-..+...|+.++|...+....+..
T Consensus       164 ~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          164 EMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAARTKD  237 (258)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC
Confidence            988764 3468889999999999999999999999987653 3357888889999999999999999998887754

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.27  E-value=1.4e-09  Score=85.47  Aligned_cols=142  Identities=13%  Similarity=0.033  Sum_probs=67.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhH---HHHH
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSY---SLLV  148 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~---~~li  148 (228)
                      .+..+-..+...|+.++|.+.+++       ..+...+..+...|.+.|++++|.+.|+++.+..  |+....   ...+
T Consensus       103 ~~~~la~~~~~~g~~~~Al~~l~~-------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~  173 (291)
T 3mkr_A          103 FLLMAASIYFYDQNPDAALRTLHQ-------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWV  173 (291)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHTT-------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHhC-------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHH
Confidence            333333445555555555555543       2344455555555555555555555555555432  332211   1122


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhh
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYS  224 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~  224 (228)
                      ..+...|++++|..+|+++.+. ...+...++.+-.++.+.|++++|...++...+..-. ++..+..++..+...
T Consensus       174 ~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~-~~~~l~~l~~~~~~~  247 (291)
T 3mkr_A          174 SLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSG-HPETLINLVVLSQHL  247 (291)
T ss_dssp             HHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence            2223335555555555555543 2334555555555555555555555555555543321 344444444443333

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.25  E-value=3.5e-09  Score=80.54  Aligned_cols=185  Identities=10%  Similarity=-0.013  Sum_probs=142.3

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNAL  112 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  112 (228)
                      ..|..+...+.+.|+.  ..+...+.+.....+.  +..++..+-..+...|++++|...+++....  ...+...+..+
T Consensus        38 ~~~~~~a~~~~~~~~~--~~A~~~~~~al~~~~~--~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l  111 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNT--EQAKVPLRKALEIDPS--SADAHAALAVVFQTEMEPKLADEEYRKALAS--DSRNARVLNNY  111 (252)
T ss_dssp             HHHHHHHHHHHHTTCT--GGGHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCh--HHHHHHHHHHHhcCCC--hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHH
Confidence            4577788888888853  3333333333333333  6788999999999999999999999999873  23467889999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCC-cHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 027083          113 IYAFGKLKKTFEASRVFEHLVSLGVKP-NAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMD  191 (228)
Q Consensus       113 i~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~  191 (228)
                      ...|.+.|++++|.+.|++..+.+..| +...+..+...+...|++++|.+.+++..+.. ..+...+..+...+...|+
T Consensus       112 a~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~  190 (252)
T 2ho1_A          112 GGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKERE  190 (252)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCC
Confidence            999999999999999999998743345 66788899999999999999999999988653 2357888899999999999


Q ss_pred             hhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhh
Q 027083          192 EESNDRVEALAKKFDIRMNTENRKNILFNLEYSA  225 (228)
Q Consensus       192 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~  225 (228)
                      .++|...+....+..- .+...+..+...+...+
T Consensus       191 ~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g  223 (252)
T 2ho1_A          191 YVPARQYYDLFAQGGG-QNARSLLLGIRLAKVFE  223 (252)
T ss_dssp             HHHHHHHHHHHHTTSC-CCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHcc
Confidence            9999999999887543 34555555555544433

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.24  E-value=4.6e-09  Score=78.80  Aligned_cols=186  Identities=11%  Similarity=-0.035  Sum_probs=138.6

Q ss_pred             cchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHH
Q 027083           31 PFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYN  110 (228)
Q Consensus        31 ~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~  110 (228)
                      +...+..+-..+.+.|+  ..++...+.+.....|.  +...+..+-..+...|+.++|...|++..+.  -+.+...+.
T Consensus         4 ~~~~~~~lg~~~~~~g~--~~~A~~~~~~al~~~p~--~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~   77 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGR--YDAALTLFERALKENPQ--DPEALYWLARTQLKLGLVNPALENGKTLVAR--TPRYLGGYM   77 (217)
T ss_dssp             CCHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSS--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             cHHHHHHHHHHHHHcCC--HHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHH
Confidence            34567778888888884  55555555555444443  7778888888888999999999999988763  223456778


Q ss_pred             HHHHHHHhc-----------CCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHH
Q 027083          111 ALIYAFGKL-----------KKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETL  179 (228)
Q Consensus       111 ~li~~~~~~-----------~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  179 (228)
                      .+-..|.+.           |++++|...|++..+... -+...|..+-..+...|++++|.+.|++..+..  .+...+
T Consensus        78 ~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~  154 (217)
T 2pl2_A           78 VLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNP-RYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIR  154 (217)
T ss_dssp             HHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHH
T ss_pred             HHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHH
Confidence            888888888           999999999998877532 256778888888899999999999999988776  778888


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhh
Q 027083          180 KKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSAS  226 (228)
Q Consensus       180 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~  226 (228)
                      ..+-..+...|++++|...++...+..-. +...+..+-..+...++
T Consensus       155 ~~la~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~la~~~~~~g~  200 (217)
T 2pl2_A          155 SALAELYLSMGRLDEALAQYAKALEQAPK-DLDLRVRYASALLLKGK  200 (217)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTC---
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccC
Confidence            88888999999999999999888875432 44555555555544443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.24  E-value=4.1e-09  Score=82.85  Aligned_cols=190  Identities=13%  Similarity=0.052  Sum_probs=141.5

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCc-chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSP-FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      |+.++|+..++++...         +..|. ...+..+-..+.+.|  +..+++..+.+     +  .+...+..+...+
T Consensus        79 ~~~~~A~~~l~~ll~~---------~~~P~~~~~~~~la~~~~~~g--~~~~Al~~l~~-----~--~~~~~~~~l~~~~  140 (291)
T 3mkr_A           79 SRRDAIVAELDREMSR---------SVDVTNTTFLLMAASIYFYDQ--NPDAALRTLHQ-----G--DSLECMAMTVQIL  140 (291)
T ss_dssp             TTHHHHHHHHHHHHHS---------CCCCSCHHHHHHHHHHHHHTT--CHHHHHHHHTT-----C--CSHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHhc---------ccCCCCHHHHHHHHHHHHHCC--CHHHHHHHHhC-----C--CCHHHHHHHHHHH
Confidence            4567777777777554         22232 334556778888988  46666666554     2  2788999999999


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCCCHHhH---HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCH
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTPDIHSY---NALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQ  157 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~---~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~  157 (228)
                      .+.|+.++|...|+++.+.   .|+....   ..++..+...|++++|..+|+++.+.. +.+...|+.+-.++.+.|++
T Consensus       141 ~~~g~~~~A~~~l~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~  216 (291)
T 3mkr_A          141 LKLDRLDLARKELKKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRW  216 (291)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCH
T ss_pred             HHCCCHHHHHHHHHHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCH
Confidence            9999999999999999874   3654322   234455556699999999999998873 56889999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhh-HHHHHHHHHHcC-CCcchhhH
Q 027083          158 KAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEES-NDRVEALAKKFD-IRMNTENR  214 (228)
Q Consensus       158 ~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~-a~~~~~~m~~~g-~~~~~~~~  214 (228)
                      ++|.+.|++..... .-+..++..+...+...|+.++ +.++++.+.+.. -.|....+
T Consensus       217 ~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d~  274 (291)
T 3mkr_A          217 EAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKEY  274 (291)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHHH
Confidence            99999999977643 2367888889999999999865 678888777644 33344433

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.23  E-value=2.2e-09  Score=80.60  Aligned_cols=184  Identities=13%  Similarity=0.084  Sum_probs=135.7

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++++|...+++..+..          +.....+..+-..+.+.|+  ..++...+.+.....|.  +...+..+-..+
T Consensus        18 ~g~~~~A~~~~~~al~~~----------p~~~~a~~~lg~~~~~~g~--~~~A~~~~~~al~~~P~--~~~a~~~lg~~~   83 (217)
T 2pl2_A           18 LGRYDAALTLFERALKEN----------PQDPEALYWLARTQLKLGL--VNPALENGKTLVARTPR--YLGGYMVLSEAY   83 (217)
T ss_dssp             TTCHHHHHHHHHHHHTTS----------SSCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCTT--CHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC----------CCCHHHHHHHHHHHHHcCC--HHHHHHHHHHHHHhCCC--cHHHHHHHHHHH
Confidence            378888988888776552          1224567888899999984  55565556655554554  778898899999


Q ss_pred             HHc-----------CCHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           81 ANI-----------WDLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        81 ~~~-----------~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      ...           |+.++|...|++..+.   .| +...+..+-..|...|++++|...|++..+..  .+...+..+-
T Consensus        84 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la  158 (217)
T 2pl2_A           84 VALYRQAEDRERGKGYLEQALSVLKDAERV---NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALA  158 (217)
T ss_dssp             HHHHHTCSSHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHH
T ss_pred             HHhhhhhhhhcccccCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHH
Confidence            999           9999999999999873   34 46678888889999999999999999998877  6899999999


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      .++...|++++|...|++..+.. .-+...+..+...+.+.|+.++|...++....
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEHH  213 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC----------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHhh
Confidence            99999999999999999987642 23567888888999999999999988876543

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.22  E-value=9.4e-09  Score=73.84  Aligned_cols=166  Identities=11%  Similarity=-0.002  Sum_probs=137.2

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNAL  112 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  112 (228)
                      ..|..+...+.+.|  +...+...+.+.....+.  +..++..+...+...|+.++|...+++..+.  .+.+...+..+
T Consensus         9 ~~~~~~~~~~~~~~--~~~~A~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~   82 (186)
T 3as5_A            9 VYYRDKGISHAKAG--RYSQAVMLLEQVYDADAF--DVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVL   82 (186)
T ss_dssp             HHHHHHHHHHHHHT--CHHHHHHHHTTTCCTTSC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhc--CHHHHHHHHHHHHHhCcc--ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHH
Confidence            35667788888888  466666666665544433  7788999999999999999999999999873  34467788999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh
Q 027083          113 IYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDE  192 (228)
Q Consensus       113 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~  192 (228)
                      ...|...|++++|.+.+++..+.. ..+...+..+...+...|++++|.+.+++..... ..+..++..+...+...|+.
T Consensus        83 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  160 (186)
T 3as5_A           83 GLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRH  160 (186)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCH
Confidence            999999999999999999987764 3578889999999999999999999999988653 34578889999999999999


Q ss_pred             hhHHHHHHHHHHcC
Q 027083          193 ESNDRVEALAKKFD  206 (228)
Q Consensus       193 ~~a~~~~~~m~~~g  206 (228)
                      ++|...+....+..
T Consensus       161 ~~A~~~~~~~~~~~  174 (186)
T 3as5_A          161 EEALPHFKKANELD  174 (186)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC
Confidence            99999999887643

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.19  E-value=5.3e-11  Score=97.82  Aligned_cols=102  Identities=15%  Similarity=0.073  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDA  150 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  150 (228)
                      .+.+.++.+|.+.|+++++.++++        .|+..+|+.+-+.|...|.+++|..+|+.+         ..|..+.++
T Consensus        95 ~i~~~Li~~Y~Klg~l~e~e~f~~--------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~  157 (449)
T 1b89_A           95 YVETELIFALAKTNRLAELEEFIN--------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLAST  157 (449)
T ss_dssp             --------------CHHHHTTTTT--------CC----------------CTTTHHHHHHHT---------TCHHHHHHH
T ss_pred             hhHHHHHHHHHHhCCHHHHHHHHc--------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHH
Confidence            344455555555555555444432        134445555555555555555555555433         245555555


Q ss_pred             HHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhH
Q 027083          151 HLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESN  195 (228)
Q Consensus       151 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a  195 (228)
                      +.+.|++++|.+.+..+      .+..+|..++.+|...|+++.|
T Consensus       158 L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA  196 (449)
T 1b89_A          158 LVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLA  196 (449)
T ss_dssp             HHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHH
Confidence            55555555555554444      1444555555555555554444

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.19  E-value=2.1e-08  Score=79.58  Aligned_cols=188  Identities=14%  Similarity=0.052  Sum_probs=150.5

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++++|...+++..+...          .....+..+..++.+.|+  ...+...+.+.....+.  +...|..+-..+
T Consensus        16 ~g~~~~A~~~~~~~l~~~p----------~~~~~~~~~a~~~~~~~~--~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~   81 (359)
T 3ieg_A           16 AGQLADALSQFHAAVDGDP----------DNYIAYYRRATVFLAMGK--SKAALPDLTKVIALKMD--FTAARLQRGHLL   81 (359)
T ss_dssp             TTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHHTC--HHHHHHHHHHHHHHCTT--CHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhhCc----------ccHHHHHHHHHHHHHccC--HHHHHHHHHHHHHhCCC--cchHHHHHHHHH
Confidence            4889999999999877621          123567888899999884  55555555555544443  678999999999


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCC----CHHhHHHH------------HHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhH
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTP----DIHSYNAL------------IYAFGKLKKTFEASRVFEHLVSLGVKPNAMSY  144 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p----~~~~~~~l------------i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~  144 (228)
                      ...|+.++|...|++..+.   .|    +...+..+            ...+...|++++|...+++..+.. +.+...+
T Consensus        82 ~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  157 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKS---NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELR  157 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHcCChHHHHHHHHHHHhc---CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHH
Confidence            9999999999999999863   45    34444444            478999999999999999988764 3478889


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCC
Q 027083          145 SLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDI  207 (228)
Q Consensus       145 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~  207 (228)
                      ..+...+...|++++|.+.+++..... ..+..++..+...+...|++++|...+....+..-
T Consensus       158 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~  219 (359)
T 3ieg_A          158 ELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ  219 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc
Confidence            999999999999999999999988653 34678899999999999999999999999887543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.18  E-value=5.6e-09  Score=87.28  Aligned_cols=206  Identities=11%  Similarity=-0.094  Sum_probs=146.6

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++++|...|+++.+..           |+...|..+..+|.+.|+  ...+...+.+.....|.  +..+|..+..++
T Consensus        19 ~g~~~~A~~~~~~al~~~-----------p~~~~~~~la~~~~~~g~--~~~A~~~~~~al~~~p~--~~~~~~~l~~~~   83 (514)
T 2gw1_A           19 NKKYDDAIKYYNWALELK-----------EDPVFYSNLSACYVSVGD--LKKVVEMSTKALELKPD--YSKVLLRRASAN   83 (514)
T ss_dssp             TSCHHHHHHHHHHHHHHC-----------CCHHHHHHHHHHHHHHTC--HHHHHHHHHHHHHHCSC--CHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHhcC-----------ccHHHHHhHHHHHHHHhh--HHHHHHHHHHHhccChH--HHHHHHHHHHHH
Confidence            488999999999998873           234578889999999994  55555555555554443  778999999999


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCCC-------------------------------------------------------
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTPD-------------------------------------------------------  105 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p~-------------------------------------------------------  105 (228)
                      ...|+.++|...|+++... +. ++                                                       
T Consensus        84 ~~~g~~~~A~~~~~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (514)
T 2gw1_A           84 EGLGKFADAMFDLSVLSLN-GD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSV  161 (514)
T ss_dssp             HHTTCHHHHHHHHHHHHHS-SS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCH
T ss_pred             HHHhhHHHHHHHHHHHHhc-CC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchh
Confidence            9999999999999998763 21 11                                                       


Q ss_pred             ------------------------HHhHHHHHHHHH---hcCCHHHHHHHHHHHHh-----CCC--------CCcHhhHH
Q 027083          106 ------------------------IHSYNALIYAFG---KLKKTFEASRVFEHLVS-----LGV--------KPNAMSYS  145 (228)
Q Consensus       106 ------------------------~~~~~~li~~~~---~~~~~~~a~~~~~~m~~-----~g~--------~p~~~t~~  145 (228)
                                              ...+......+.   +.|++++|..+|+++.+     ..-        ..+..++.
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  241 (514)
T 2gw1_A          162 TSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLE  241 (514)
T ss_dssp             HHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHH
Confidence                                    112222222233   37889999999988876     311        22456788


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhh
Q 027083          146 LLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSA  225 (228)
Q Consensus       146 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~  225 (228)
                      .+...+...|++++|.+.+++.....  |+..++..+...+...|++++|...+..+.+..-. +...+..+...+...+
T Consensus       242 ~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~  318 (514)
T 2gw1_A          242 HTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLDSN-NSSVYYHRGQMNFILQ  318 (514)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTT-CTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcC-CHHHHHHHHHHHHHhC
Confidence            88888888999999999998887654  34777778888888888888888888887765432 4445555555554444


Q ss_pred             h
Q 027083          226 S  226 (228)
Q Consensus       226 ~  226 (228)
                      +
T Consensus       319 ~  319 (514)
T 2gw1_A          319 N  319 (514)
T ss_dssp             C
T ss_pred             C
Confidence            3

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.16  E-value=1.3e-08  Score=78.17  Aligned_cols=191  Identities=14%  Similarity=-0.013  Sum_probs=139.9

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|...++++.+.....+      +....+|..+...+.+.|+  ...+...+.+.....+.  +..+|..+-..+.
T Consensus        19 ~~~~~A~~~~~~~~~~~~~~~------~~~~~~~~~l~~~~~~~~~--~~~A~~~~~~al~~~~~--~~~~~~~la~~~~   88 (275)
T 1xnf_A           19 LQQEVILARMEQILASRALTD------DERAQLLYERGVLYDSLGL--RALARNDFSQALAIRPD--MPEVFNYLGIYLT   88 (275)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCH------HHHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCCC--CHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhcccccC------chhHHHHHHHHHHHHHccc--HHHHHHHHHHHHHcCCC--cHHHHHHHHHHHH
Confidence            678899999998876521111      1123567888889999884  55555555555544443  6789999999999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ..|++++|...|++....  .+.+...+..+...|.+.|++++|...|++..+.  .|+.......+..+...|++++|.
T Consensus        89 ~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~  164 (275)
T 1xnf_A           89 QAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAK  164 (275)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHH
T ss_pred             HccCHHHHHHHHHHHHhc--CccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHH
Confidence            999999999999999873  2335778899999999999999999999998775  455555555555666778888888


Q ss_pred             HHHHHHHHCC-------------------------------CCC-----CHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          162 SVIDEMVNAG-------------------------------FAP-----SKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       162 ~~~~~m~~~g-------------------------------~~p-----~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      ..+++.....                               ..|     +..++..+...+...|+.++|...+....+.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          165 EVLKQHFEKSDKEQWGWNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHHHHHHHHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhcCCcchHHHHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            8776544321                               111     1467777888888999999999999988876


Q ss_pred             C
Q 027083          206 D  206 (228)
Q Consensus       206 g  206 (228)
                      .
T Consensus       245 ~  245 (275)
T 1xnf_A          245 N  245 (275)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.15  E-value=7.5e-09  Score=78.00  Aligned_cols=186  Identities=12%  Similarity=0.007  Sum_probs=133.7

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNAL  112 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  112 (228)
                      .+|..+...+.+.|+  ...+...+.+.....+.  +...+..+-..+...|+.++|...|++....  ...+...+..+
T Consensus        24 ~~~~~~a~~~~~~~~--~~~A~~~~~~~l~~~~~--~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l   97 (243)
T 2q7f_A           24 MTGGQQMGRGSEFGD--YEKAAEAFTKAIEENKE--DAIPYINFANLLSSVNELERALAFYDKALEL--DSSAATAYYGA   97 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhhC--HHHHHHHHHHHHHhCcc--cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCcchHHHHHH
Confidence            456677777888774  44444444444333333  6788999999999999999999999999873  33467889999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh
Q 027083          113 IYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDE  192 (228)
Q Consensus       113 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~  192 (228)
                      ...|.+.|++++|.+.+++..+.. ..+...+..+...+.+.|++++|.+.+++..+.. ..+...+..+...+...|++
T Consensus        98 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  175 (243)
T 2q7f_A           98 GNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGML  175 (243)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCH
Confidence            999999999999999999988764 3478889999999999999999999999987643 33678888899999999999


Q ss_pred             hhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhhc
Q 027083          193 ESNDRVEALAKKFDIRMNTENRKNILFNLEYSASY  227 (228)
Q Consensus       193 ~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~~  227 (228)
                      ++|...+....+..- .+...+..+...+...+++
T Consensus       176 ~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~  209 (243)
T 2q7f_A          176 DEALSQFAAVTEQDP-GHADAFYNAGVTYAYKENR  209 (243)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHccCH
Confidence            999999999887653 2456666666666555443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.14  E-value=1.2e-07  Score=75.25  Aligned_cols=199  Identities=11%  Similarity=0.023  Sum_probs=147.8

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++++|...+++..+...          .....+..+...+.+.|+  ...+...+.+.....+.  +..++..+-..+
T Consensus       133 ~~~~~~A~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~--~~~A~~~~~~~~~~~~~--~~~~~~~la~~~  198 (359)
T 3ieg_A          133 GADYTAAITFLDKILEVCV----------WDAELRELRAECFIKEGE--PRKAISDLKAASKLKSD--NTEAFYKISTLY  198 (359)
T ss_dssp             TTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTCSC--CHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhCC----------CchHHHHHHHHHHHHCCC--HHHHHHHHHHHHHhCCC--CHHHHHHHHHHH
Confidence            3778888888888766521          123567888999999994  55555555555544443  778999999999


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCCCHHhHH------------HHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-H----hh
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTPDIHSYN------------ALIYAFGKLKKTFEASRVFEHLVSLGVKPN-A----MS  143 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~------------~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~----~t  143 (228)
                      ...|+.++|...|++..+.  .+.+...+.            .+...+.+.|++++|...+++..+..  |+ .    ..
T Consensus       199 ~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~  274 (359)
T 3ieg_A          199 YQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRS  274 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhh--CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHH
Confidence            9999999999999999873  222333332            22566899999999999999988754  33 2    23


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcc-hhhHHHHHHH
Q 027083          144 YSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMN-TENRKNILFN  220 (228)
Q Consensus       144 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~  220 (228)
                      +..+-.++.+.|++++|.+.+++..+.. ..+..++..+-..+...|++++|...+....+..  |+ ......+..+
T Consensus       275 ~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~l~~~  349 (359)
T 3ieg_A          275 KERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN--ENDQQIREGLEKA  349 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCChHHHHHHHHH
Confidence            5557788999999999999999988752 3367899999999999999999999999998764  43 3444444433

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.13  E-value=1.3e-08  Score=68.95  Aligned_cols=131  Identities=15%  Similarity=0.069  Sum_probs=103.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHH
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAH  151 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~  151 (228)
                      .|..+...+...|++++|..+++++.+.  .+.+...+..+...+...|++++|...++++.+.+ ..+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHH
Confidence            5666777888888999999999888763  23456778888888888899999999998887654 34667788888888


Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          152 LTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       152 ~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      ...|++++|.++++++.... ..+..++..+...+...|+.++|...+..+.+..
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            88999999999888877643 2356777888888888899999988888877643

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.13  E-value=7.2e-08  Score=77.19  Aligned_cols=187  Identities=10%  Similarity=-0.003  Sum_probs=140.0

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHH
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNA  111 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~  111 (228)
                      ...+..+...+.+.|  +...+...+.+.....+.  +..+|..+-.++...|+.++|...|++....  .+.+..++..
T Consensus        64 ~~~~~~~~~~~~~~g--~~~~A~~~~~~al~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~  137 (368)
T 1fch_A           64 HPQPFEEGLRRLQEG--DLPNAVLLFEAAVQQDPK--HMEAWQYLGTTQAENEQELLAISALRRCLEL--KPDNQTALMA  137 (368)
T ss_dssp             CSSHHHHHHHHHHTT--CHHHHHHHHHHHHHSCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHCC--CHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHCcCHHHHHHHHHHHHhc--CCCCHHHHHH
Confidence            345778888999988  456666666665554443  7889999999999999999999999999873  2447788999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCC-----------------------------------------------C---cH
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLGVK-----------------------------------------------P---NA  141 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g~~-----------------------------------------------p---~~  141 (228)
                      +...|.+.|++++|...|+++.+....                                               |   +.
T Consensus       138 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~  217 (368)
T 1fch_A          138 LAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDP  217 (368)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccH
Confidence            999999999999999999887664311                                               2   46


Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHH
Q 027083          142 MSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNL  221 (228)
Q Consensus       142 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l  221 (228)
                      .++..+...+.+.|++++|.+.+++..... ..+..++..+...+...|++++|...+....+..- .+...+..+...+
T Consensus       218 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~  295 (368)
T 1fch_A          218 DVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQP-GYIRSRYNLGISC  295 (368)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHH
Confidence            777888888888888888888888877542 23467788888888888888888888888777542 2455555555555


Q ss_pred             Hhhhh
Q 027083          222 EYSAS  226 (228)
Q Consensus       222 ~~~~~  226 (228)
                      ...++
T Consensus       296 ~~~g~  300 (368)
T 1fch_A          296 INLGA  300 (368)
T ss_dssp             HHHTC
T ss_pred             HHCCC
Confidence            54444

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.12  E-value=5.1e-08  Score=70.58  Aligned_cols=166  Identities=12%  Similarity=0.017  Sum_probs=137.2

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHH
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNA  111 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~  111 (228)
                      ...|..|-..|.+.|  +...+...+.+.....|-  +..++..+-..+...|+.++|...+......  ..-+...+..
T Consensus         5 ~~iy~~lG~~~~~~g--~~~~A~~~~~~al~~~p~--~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~   78 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKG--DFDGAIRAYKKVLKADPN--NVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYI   78 (184)
T ss_dssp             HHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHH
Confidence            356888999999999  466666666665554544  7889999999999999999999999998873  3345667777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMD  191 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~  191 (228)
                      +-..+...++++.|...+++..+.. +-+...+..+-..+.+.|++++|.+.|++..+.. ..+..+|..+-.++.+.|+
T Consensus        79 ~~~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~  156 (184)
T 3vtx_A           79 LGSANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGL  156 (184)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCC
Confidence            7888999999999999999987764 3467889999999999999999999999988643 2357888899999999999


Q ss_pred             hhhHHHHHHHHHHc
Q 027083          192 EESNDRVEALAKKF  205 (228)
Q Consensus       192 ~~~a~~~~~~m~~~  205 (228)
                      .++|...++...+.
T Consensus       157 ~~~A~~~~~~al~~  170 (184)
T 3vtx_A          157 RDEAVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999998874

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.11  E-value=7.7e-09  Score=81.28  Aligned_cols=154  Identities=8%  Similarity=-0.050  Sum_probs=123.5

Q ss_pred             HHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCC
Q 027083           42 CSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKK  121 (228)
Q Consensus        42 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~  121 (228)
                      +.+.|  +...+...+.+.....+.  +..++..+-..+...|+.++|...+++....  .+.+..++..+...|.+.|+
T Consensus       148 ~~~~~--~~~~A~~~~~~~~~~~~~--~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~  221 (327)
T 3cv0_A          148 FAAPN--EYRECRTLLHAALEMNPN--DAQLHASLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNR  221 (327)
T ss_dssp             TTSHH--HHHHHHHHHHHHHHHSTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHcc--cHHHHHHHHHHHHhhCCC--CHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCC
Confidence            45555  345555555555444443  7789999999999999999999999999873  33457789999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-----------CHHHHHHHHHHHHhcC
Q 027083          122 TFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAP-----------SKETLKKVRRRCVREM  190 (228)
Q Consensus       122 ~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-----------~~~t~~~li~~~~~~~  190 (228)
                      +++|...|++..+.. +.+..+|..+...+.+.|++++|.+.+++.....-.+           +..+|..+..++...|
T Consensus       222 ~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  300 (327)
T 3cv0_A          222 PQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMN  300 (327)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcC
Confidence            999999999987764 3468889999999999999999999999887643221           4788889999999999


Q ss_pred             ChhhHHHHHHHH
Q 027083          191 DEESNDRVEALA  202 (228)
Q Consensus       191 ~~~~a~~~~~~m  202 (228)
                      +.+.|..++...
T Consensus       301 ~~~~A~~~~~~~  312 (327)
T 3cv0_A          301 RPDLVELTYAQN  312 (327)
T ss_dssp             CHHHHHHHTTCC
T ss_pred             CHHHHHHHHHHH
Confidence            999999887643

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.11  E-value=4.7e-09  Score=87.78  Aligned_cols=132  Identities=7%  Similarity=-0.041  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-Cc----HhhHH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVK-PN----AMSYS  145 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~----~~t~~  145 (228)
                      .++..+...+...|+.++|...+++..+.  .+.+...+..+...|.+.|++++|...++++.+.... |+    ...|.
T Consensus       339 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  416 (514)
T 2gw1_A          339 FPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLV  416 (514)
T ss_dssp             HHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHH
Confidence            34444444555555555555555554432  1123344445555555555555555555554332100 11    22455


Q ss_pred             HHHHHHHc---cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          146 LLVDAHLT---NRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       146 ~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      .+...+.+   .|++++|.+.++...... ..+..++..+...+.+.|+.++|...+....+.
T Consensus       417 ~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  478 (514)
T 2gw1_A          417 GKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESADL  478 (514)
T ss_dssp             HHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            55555555   555555555555544321 123444445555555555555555555555543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.08  E-value=5.5e-08  Score=76.73  Aligned_cols=185  Identities=11%  Similarity=-0.032  Sum_probs=137.8

Q ss_pred             HHHHHHHHHHHHHhccchhhhhhhhC-cchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHH-HHHHHHHHHHH
Q 027083            5 QRAFITLNEFETAYGDSIIDMEEIFS-PFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVA-AINCVILGCAN   82 (228)
Q Consensus         5 ~~A~~~~~~m~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ll~~~~~   82 (228)
                      ++|...+++..+.          +.| ....|..+...+.+.|.  ...+...+.+.....+.  +.. +|..+...+.+
T Consensus        81 ~~A~~~~~rAl~~----------~~p~~~~~~~~~~~~~~~~~~--~~~A~~~~~~al~~~p~--~~~~~~~~~~~~~~~  146 (308)
T 2ond_A           81 DEAANIYERAIST----------LLKKNMLLYFAYADYEESRMK--YEKVHSIYNRLLAIEDI--DPTLVYIQYMKFARR  146 (308)
T ss_dssp             HHHHHHHHHHHTT----------TTTTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTSSSS--CTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH----------hCcccHHHHHHHHHHHHhcCC--HHHHHHHHHHHHhcccc--CccHHHHHHHHHHHH
Confidence            6676666665542          112 23468888899988884  55555555555543332  333 89999999999


Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHH-hcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           83 IWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFG-KLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        83 ~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~-~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      .|++++|..+|++..+. . .++...|........ ..|+.++|..+|++..+.. .-+...|..++..+.+.|++++|.
T Consensus       147 ~~~~~~A~~~~~~a~~~-~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~  223 (308)
T 2ond_A          147 AEGIKSGRMIFKKARED-A-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTR  223 (308)
T ss_dssp             HHCHHHHHHHHHHHHTS-T-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHH
T ss_pred             hcCHHHHHHHHHHHHhc-C-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999999873 2 234444544433322 3699999999999987653 236788999999999999999999


Q ss_pred             HHHHHHHHCC-CCC--CHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          162 SVIDEMVNAG-FAP--SKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       162 ~~~~~m~~~g-~~p--~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      .+|++..... +.|  ....|..++....+.|+.+.+..++..+.+..
T Consensus       224 ~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~~  271 (308)
T 2ond_A          224 VLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  271 (308)
T ss_dssp             HHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc
Confidence            9999999873 566  46788889999999999999999999988754

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.06  E-value=9.3e-09  Score=80.22  Aligned_cols=200  Identities=15%  Similarity=0.047  Sum_probs=141.4

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhc------CCCCCCHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRA------EPPYKSVAAIN   74 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~------~~~~~~~~~~~   74 (228)
                      .|++++|...+++..+........  .......++..+...|...|+  ...+...+.+....      ........++.
T Consensus        40 ~g~~~~A~~~~~~a~~~~~~~~~~--~~~~~~~~~~~la~~~~~~g~--~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  115 (311)
T 3nf1_A           40 QGRYEVAVPLCKQALEDLEKTSGH--DHPDVATMLNILALVYRDQNK--YKDAANLLNDALAIREKTLGKDHPAVAATLN  115 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHCS--SSHHHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHHcCC--CCHHHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHHHHHHHhCCCChHHHHHHH
Confidence            478999999999987753211100  001113467788889999885  33333333322221      11122567888


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHhhcC-----CCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCC-cH
Q 027083           75 CVILGCANIWDLDRAYQTFEAVGSSF-----GLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSL------GVKP-NA  141 (228)
Q Consensus        75 ~ll~~~~~~~~~~~a~~~~~~m~~~~-----~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~~p-~~  141 (228)
                      .+-..+...|+.++|...|++.....     +-.| ....+..+-..|.+.|++++|...|++..+.      +-.| ..
T Consensus       116 ~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  195 (311)
T 3nf1_A          116 NLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVA  195 (311)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHH
T ss_pred             HHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHH
Confidence            88899999999999999999987621     2223 4557888889999999999999999998664      2123 45


Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHCC-----------------------------------------------CCC
Q 027083          142 MSYSLLVDAHLTNRDQKAALSVIDEMVNAG-----------------------------------------------FAP  174 (228)
Q Consensus       142 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g-----------------------------------------------~~p  174 (228)
                      .++..+...|...|++++|.+.+++.....                                               ..|
T Consensus       196 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  275 (311)
T 3nf1_A          196 KTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSP  275 (311)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------CH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCc
Confidence            678899999999999999999999887520                                               122


Q ss_pred             -CHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          175 -SKETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       175 -~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                       +..++..+...|.+.|+.++|...++...+
T Consensus       276 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          276 TVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             346778888899999999999999988765

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.04  E-value=6e-09  Score=80.00  Aligned_cols=199  Identities=13%  Similarity=0.031  Sum_probs=139.0

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhc------CCCCCCHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRA------EPPYKSVAAINC   75 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~   75 (228)
                      |++++|+..+++..+........  ..+....++..+...|...|+  ...+...+.+....      ........++..
T Consensus        15 ~~~~~A~~~~~~al~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~--~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~   90 (283)
T 3edt_B           15 VPRGSAVPLCKQALEDLEKTSGH--DHPDVATMLNILALVYRDQNK--YKEAAHLLNDALAIREKTLGKDHPAVAATLNN   90 (283)
T ss_dssp             SCSSSHHHHHHHHHHHHHHHHCS--SSHHHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCC--CCHHHHHHHHHHHHHHHHccc--HHHHHHHHHHHHHHHHHHcCCcchHHHHHHHH
Confidence            67778888888776653211100  001124568889999999985  33333222222211      111125678888


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcC-----C-CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCC-cHh
Q 027083           76 VILGCANIWDLDRAYQTFEAVGSSF-----G-LTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSL------GVKP-NAM  142 (228)
Q Consensus        76 ll~~~~~~~~~~~a~~~~~~m~~~~-----~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~~p-~~~  142 (228)
                      +-..|...|++++|...|++.....     . -.....++..+-..|...|++++|...|++..+.      +-.| ...
T Consensus        91 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  170 (283)
T 3edt_B           91 LAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAK  170 (283)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            9999999999999999999887520     1 1234567888899999999999999999998664      1123 467


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHC------C-----------------------------------------CCC-
Q 027083          143 SYSLLVDAHLTNRDQKAALSVIDEMVNA------G-----------------------------------------FAP-  174 (228)
Q Consensus       143 t~~~li~~~~~~g~~~~a~~~~~~m~~~------g-----------------------------------------~~p-  174 (228)
                      ++..+-..|.+.|++++|.+.+++..+.      +                                         ..| 
T Consensus       171 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  250 (283)
T 3edt_B          171 TKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPT  250 (283)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHH
Confidence            7889999999999999999999887752      0                                         112 


Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          175 SKETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       175 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      ...++..+...|...|++++|...++...+
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            245677788889999999999999888765

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.02  E-value=8.5e-08  Score=72.61  Aligned_cols=187  Identities=11%  Similarity=-0.029  Sum_probs=143.2

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC-CCCCC----HH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSF-GLTPD----IH  107 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~p~----~~  107 (228)
                      ..|..+-..+.+.|+  ...+...+.+..... .  +..+|..+-.++...|+.++|...+++..... ...|+    ..
T Consensus         6 ~~~~~~g~~~~~~~~--~~~A~~~~~~a~~~~-~--~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~   80 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQ--FDEAIEHYNKAWELH-K--DITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISK   80 (258)
T ss_dssp             HHHHHHHHHHHHTTC--HHHHHHHHHHHHHHS-C--CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHHHHHHHHHHHhcc--HHHHHHHHHHHHHhh-c--cHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHH
Confidence            457788888999884  455544444444333 2  67799999999999999999999999987620 11122    57


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCC------------------------C-CCcHhhHHHHHHHHHccCCHHHHHH
Q 027083          108 SYNALIYAFGKLKKTFEASRVFEHLVSLG------------------------V-KPNAMSYSLLVDAHLTNRDQKAALS  162 (228)
Q Consensus       108 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g------------------------~-~p~~~t~~~li~~~~~~g~~~~a~~  162 (228)
                      +|..+-..|.+.|++++|...|++..+..                        . ..+...|..+-..+...|++++|.+
T Consensus        81 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  160 (258)
T 3uq3_A           81 SFARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVK  160 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHH
Confidence            88999999999999999999999988732                        1 2245678888899999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhh
Q 027083          163 VIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSAS  226 (228)
Q Consensus       163 ~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~  226 (228)
                      .+++..... ..+..++..+...+...|++++|...+....+..-. +...+..+-..+...++
T Consensus       161 ~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~  222 (258)
T 3uq3_A          161 AYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATAQIAVKE  222 (258)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHH-HHHHHHHHHHHHHHHhh
Confidence            999988653 336788999999999999999999999999886532 45666666665555444

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.01  E-value=1.1e-07  Score=80.05  Aligned_cols=149  Identities=14%  Similarity=0.026  Sum_probs=73.0

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|...+++..+...           ...+|..+...+.+.|+  ...+...+.+.....+.  +..+|..+-..+.
T Consensus       257 ~~~~~A~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~--~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~  321 (537)
T 3fp2_A          257 NNLLDAQVLLQESINLHP-----------TPNSYIFLALTLADKEN--SQEFFKFFQKAVDLNPE--YPPTYYHRGQMYF  321 (537)
T ss_dssp             TCHHHHHHHHHHHHHHCC-----------CHHHHHHHHHHTCCSSC--CHHHHHHHHHHHHHCTT--CHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhcCC-----------CchHHHHHHHHHHHhcC--HHHHHHHHHHHhccCCC--CHHHHHHHHHHHH
Confidence            455666666666554421           12334445555555553  22222222222222222  4445555555555


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ..|+.++|...|++..+. . +.+...+..+...|.+.|++++|...+++..+.. ..+...+..+-..+...|++++|.
T Consensus       322 ~~~~~~~A~~~~~~a~~~-~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~  398 (537)
T 3fp2_A          322 ILQDYKNAKEDFQKAQSL-N-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAI  398 (537)
T ss_dssp             HTTCHHHHHHHHHHHHHH-C-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHH
Confidence            556666666655555542 1 1223455555555555555655555555554432 223445555555555555555555


Q ss_pred             HHHHHHH
Q 027083          162 SVIDEMV  168 (228)
Q Consensus       162 ~~~~~m~  168 (228)
                      +.+++..
T Consensus       399 ~~~~~a~  405 (537)
T 3fp2_A          399 KQYDIAK  405 (537)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.99  E-value=7.6e-07  Score=70.13  Aligned_cols=201  Identities=7%  Similarity=-0.069  Sum_probs=141.4

Q ss_pred             HHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHh-------hChh-----cHHHHHHHHhchhhcCCCCCCHHH
Q 027083            5 QRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSR-------KGFE-----TLDSVYFQLENLSRAEPPYKSVAA   72 (228)
Q Consensus         5 ~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~-------~g~~-----~~~~~~~~~~~~~~~~~~~~~~~~   72 (228)
                      ++|...|++..+..          +.....|..+...+.+       .|+.     ....+...+.+......|. +...
T Consensus        33 ~~a~~~~~~al~~~----------p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~-~~~~  101 (308)
T 2ond_A           33 KRVMFAYEQCLLVL----------GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKK-NMLL  101 (308)
T ss_dssp             HHHHHHHHHHHHHH----------TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTT-CHHH
T ss_pred             HHHHHHHHHHHHHc----------CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcc-cHHH
Confidence            45666666665552          1223456666666653       3532     0245555555554422232 7779


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCH-H-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHH
Q 027083           73 INCVILGCANIWDLDRAYQTFEAVGSSFGLTPDI-H-SYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDA  150 (228)
Q Consensus        73 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~-~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  150 (228)
                      |..+...+...|++++|..+|++..+   +.|+. . .|..+...+.+.|++++|..+|++..+... ++...|......
T Consensus       102 ~~~~~~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~  177 (308)
T 2ond_A          102 YFAYADYEESRMKYEKVHSIYNRLLA---IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALM  177 (308)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHT---SSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh---ccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHH
Confidence            99999999999999999999999986   34543 3 799999999999999999999999987642 344445443333


Q ss_pred             H-HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC-CCcc--hhhHHHHHHHH
Q 027083          151 H-LTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD-IRMN--TENRKNILFNL  221 (228)
Q Consensus       151 ~-~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~~~--~~~~~~li~~l  221 (228)
                      . ...|+.++|.++|+...+.. .-+...|..++..+.+.|+.++|..+++...+.. +.|+  ...+...+..+
T Consensus       178 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~  251 (308)
T 2ond_A          178 EYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFE  251 (308)
T ss_dssp             HHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHH
Confidence            2 23699999999999887642 2357888999999999999999999999999974 4553  34555544443

>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=98.98  E-value=1e-07  Score=64.42  Aligned_cols=130  Identities=17%  Similarity=0.106  Sum_probs=105.1

Q ss_pred             hHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHH
Q 027083           34 SLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALI  113 (228)
Q Consensus        34 ~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li  113 (228)
                      .|..+...+.+.|+  ...+...+.+.....+.  +...+..+...+...|+.++|...++++...  ...+...+..+.
T Consensus         3 ~~~~l~~~~~~~~~--~~~A~~~~~~~~~~~~~--~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~   76 (136)
T 2fo7_A            3 AWYNLGNAYYKQGD--YDEAIEYYQKALELDPR--SAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLG   76 (136)
T ss_dssp             HHHHHHHHHHHHTC--HHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCc--HHHHHHHHHHHHHcCCc--chhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHH
Confidence            46778888888884  45555555544443333  6778888999999999999999999999873  244677888999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 027083          114 YAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNA  170 (228)
Q Consensus       114 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  170 (228)
                      ..+.+.|++++|.+.++++.+.. ..+...+..+...+.+.|++++|.+.++++...
T Consensus        77 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           77 NAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            99999999999999999988764 346788999999999999999999999988753

>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=98.97  E-value=1.6e-07  Score=67.30  Aligned_cols=152  Identities=11%  Similarity=-0.030  Sum_probs=124.3

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHH
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVD  149 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~  149 (228)
                      ...|..+-..+...|+.++|...+++....  .+.+...+..+...+.+.|++++|...+++..+.. ..+...+..+..
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   84 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDA--DAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGL   84 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCT--TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            456777778888999999999999998763  34567889999999999999999999999987764 347788999999


Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhh
Q 027083          150 AHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSAS  226 (228)
Q Consensus       150 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~  226 (228)
                      .+...|++++|.+.+++..... ..+...+..+...+...|++++|...+....+..- .+...+..+...+...++
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~  159 (186)
T 3as5_A           85 TYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRP-NEGKVHRAIAFSYEQMGR  159 (186)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCC
Confidence            9999999999999999987653 34678888889999999999999999999888753 245666666665554444

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.95  E-value=1.8e-07  Score=78.43  Aligned_cols=184  Identities=16%  Similarity=0.029  Sum_probs=146.7

Q ss_pred             chhHHHHHHHHHhhChhcH-HHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHH
Q 027083           32 FTSLYPLVVACSRKGFETL-DSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYN  110 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~  110 (228)
                      ...+..+-..+...|+  . .++...+.+.....+.  +...|..+-..|...|++++|...|++..+   ..|+...+.
T Consensus       102 a~~~~~lg~~~~~~g~--~~~~A~~~~~~al~~~p~--~~~a~~~lg~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~  174 (474)
T 4abn_A          102 AQALMLKGKALNVTPD--YSPEAEVLLSKAVKLEPE--LVEAWNQLGEVYWKKGDVTSAHTCFSGALT---HCKNKVSLQ  174 (474)
T ss_dssp             HHHHHHHHHHHTSSSS--CCHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHTCHHHHHHHHHHHHT---TCCCHHHHH
T ss_pred             HHHHHHHHHHHHhccc--cHHHHHHHHHHHHhhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCHHHHH
Confidence            3467777788888884  4 4444445544444443  678999999999999999999999999986   358888899


Q ss_pred             HHHHHHHhc---------CCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHcc--------CCHHHHHHHHHHHHHCCCC
Q 027083          111 ALIYAFGKL---------KKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTN--------RDQKAALSVIDEMVNAGFA  173 (228)
Q Consensus       111 ~li~~~~~~---------~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~--------g~~~~a~~~~~~m~~~g~~  173 (228)
                      .+-..|...         |++++|...|++..+.. .-+...|..+-.+|...        |++++|.+.|++..+.  .
T Consensus       175 ~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~  251 (474)
T 4abn_A          175 NLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKV--D  251 (474)
T ss_dssp             HHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH--C
T ss_pred             HHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh--C
Confidence            999999999         99999999999988764 23688899999999988        9999999999998874  3


Q ss_pred             C----CHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhh
Q 027083          174 P----SKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSAS  226 (228)
Q Consensus       174 p----~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~  226 (228)
                      |    +...|..+-.++...|++++|...++...+..-. +...+..+-..+..+++
T Consensus       252 p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~a~~~l~~~~~~lg~  307 (474)
T 4abn_A          252 RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPA-WPEPQQREQQLLEFLSR  307 (474)
T ss_dssp             GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHH
T ss_pred             CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHH
Confidence            5    7889999999999999999999999998886533 44455555555555544

>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=98.95  E-value=7.8e-08  Score=80.91  Aligned_cols=193  Identities=12%  Similarity=-0.019  Sum_probs=143.8

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|...++++.+.........   .....++..+-..+...|  +...+...+.+.....+   +..+|..+-..+.
T Consensus       216 ~~~~~A~~~~~~~l~~~p~~~~~~---~~~~~~~~~~g~~~~~~~--~~~~A~~~~~~~~~~~~---~~~~~~~l~~~~~  287 (537)
T 3fp2_A          216 DLLTKSTDMYHSLLSANTVDDPLR---ENAALALCYTGIFHFLKN--NLLDAQVLLQESINLHP---TPNSYIFLALTLA  287 (537)
T ss_dssp             HHHHHHHHHHHHHHC--CCCHHHH---HHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCC---CHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHCCCcchhh---HHHHHHHHHHHHHHHhcc--cHHHHHHHHHHHHhcCC---CchHHHHHHHHHH
Confidence            356677777776655432211100   000124556666777777  45555555555544443   4678888888899


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ..|++++|...|++....  .+.+..+|..+...|.+.|++++|...|++..+.. ..+...|..+...+...|++++|.
T Consensus       288 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~  364 (537)
T 3fp2_A          288 DKENSQEFFKFFQKAVDL--NPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESE  364 (537)
T ss_dssp             CSSCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhcCHHHHHHHHHHHhcc--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            999999999999999873  23467789999999999999999999999998764 235788999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          162 SVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       162 ~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      +.+++..+.. ..+...+..+...+...|++++|...+..+.+..
T Consensus       365 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  408 (537)
T 3fp2_A          365 AFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLE  408 (537)
T ss_dssp             HHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC
Confidence            9999988753 3346788889999999999999999999987654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.94  E-value=4.5e-07  Score=65.52  Aligned_cols=156  Identities=14%  Similarity=0.075  Sum_probs=123.8

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|...|++..+..          +....+|..+..+|.+.|+  ...+...........+.  +...+..+-..+.
T Consensus        19 g~~~~A~~~~~~al~~~----------p~~~~~~~~la~~~~~~~~--~~~a~~~~~~~~~~~~~--~~~~~~~~~~~~~   84 (184)
T 3vtx_A           19 GDFDGAIRAYKKVLKAD----------PNNVETLLKLGKTYMDIGL--PNDAIESLKKFVVLDTT--SAEAYYILGSANF   84 (184)
T ss_dssp             TCHHHHHHHHHHHHHHC----------TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCCC--CHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC----------CCCHHHHHHHHHHHHHCCC--HHHHHHHHHHHHhcCch--hHHHHHHHHHHHH
Confidence            88999999999987662          1124568889999999994  55555555555544443  6778888888889


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ..++.+.+...+.+....  .+-+...+..+-..|.+.|++++|...|++..+.. +.+..+|..+-.+|.+.|++++|.
T Consensus        85 ~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~  161 (184)
T 3vtx_A           85 MIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAV  161 (184)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHH
Confidence            999999999999998873  33456788888899999999999999999988764 346788999999999999999999


Q ss_pred             HHHHHHHHCCCCCCH
Q 027083          162 SVIDEMVNAGFAPSK  176 (228)
Q Consensus       162 ~~~~~m~~~g~~p~~  176 (228)
                      +.|++..+.  .|+.
T Consensus       162 ~~~~~al~~--~p~~  174 (184)
T 3vtx_A          162 KYFKKALEK--EEKK  174 (184)
T ss_dssp             HHHHHHHHT--THHH
T ss_pred             HHHHHHHhC--CccC
Confidence            999988763  4543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.90  E-value=1.1e-06  Score=67.18  Aligned_cols=188  Identities=12%  Similarity=-0.024  Sum_probs=138.9

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhc-CCCCCCHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRA-EPPYKSVAAINCVILG   79 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ll~~   79 (228)
                      .|++++|...+++..+..          +.....+..+..+|.+.|+  ...+...+.+.... ..+.....+|..+-..
T Consensus        16 ~~~~~~A~~~~~~~l~~~----------p~~~~~~~~l~~~~~~~~~--~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A           16 NNNYAEAIEVFNKLEAKK----------YNSPYIYNRRAVCYYELAK--YDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             TTCHHHHHHHHHHHHHTT----------CCCSTTHHHHHHHHHHTTC--HHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC----------CCcHHHHHHHHHHHHHHhh--HHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            478999999999987652          1224468888889999995  44444444443331 1222234568888899


Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHH
Q 027083           80 CANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKA  159 (228)
Q Consensus        80 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~  159 (228)
                      +...|+.++|...|++..+.  .+.+...+..+-..|.+.|++++|...|++..+.. ..+...|..+-..+...+++++
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~  160 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDR--DTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVK  160 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcccHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999873  23356789999999999999999999999987763 3356666666624445569999


Q ss_pred             HHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCC---hhhHHHHHHHHHHc
Q 027083          160 ALSVIDEMVNAGFAPS-KETLKKVRRRCVREMD---EESNDRVEALAKKF  205 (228)
Q Consensus       160 a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~---~~~a~~~~~~m~~~  205 (228)
                      |.+.|++..+.  .|+ ...+..+...+...|+   .+.|...+....+.
T Consensus       161 A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  208 (272)
T 3u4t_A          161 ADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEV  208 (272)
T ss_dssp             HHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHH
Confidence            99999998864  344 6777777788888887   88888888877764

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.87  E-value=1.9e-07  Score=72.65  Aligned_cols=172  Identities=10%  Similarity=0.012  Sum_probs=128.0

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhc------CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC-----
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRA------EPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSF-----  100 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-----  100 (228)
                      ..++..+...+...|+  ...+...+.+....      ........++..+-..+...|++++|...+++.....     
T Consensus        27 ~~~~~~l~~~~~~~g~--~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  104 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGR--YEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLG  104 (311)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHcCC--HHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhC
Confidence            3568888999999885  33333333332221      0111256778888899999999999999999887520     


Q ss_pred             C-CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC------CC-CCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHC--
Q 027083          101 G-LTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSL------GV-KPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNA--  170 (228)
Q Consensus       101 ~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~-~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~--  170 (228)
                      + ......++..+...|...|++++|...|++..+.      +- ......+..+-..+...|++++|.+++++....  
T Consensus       105 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~  184 (311)
T 3nf1_A          105 KDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQ  184 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            1 2234567888999999999999999999988654      22 234567888999999999999999999998754  


Q ss_pred             ----CCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          171 ----GFAPS-KETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       171 ----g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                          +..|+ ..++..+...+...|++++|...+..+.+.
T Consensus       185 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  224 (311)
T 3nf1_A          185 TKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTR  224 (311)
T ss_dssp             HTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                22343 467888888999999999999999888863

>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=98.87  E-value=1.1e-05  Score=61.96  Aligned_cols=178  Identities=10%  Similarity=-0.018  Sum_probs=125.6

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHh----hChhcHHHHHHHHhchhhcCCCCCCHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSR----KGFETLDSVYFQLENLSRAEPPYKSVAAINCVI   77 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll   77 (228)
                      |++++|...|++..+.            .+..++..+-..|.+    .++  ...+...+.+.....    +...+..+-
T Consensus        20 ~~~~~A~~~~~~a~~~------------~~~~a~~~lg~~~~~g~~~~~~--~~~A~~~~~~a~~~~----~~~a~~~lg   81 (273)
T 1ouv_A           20 KDFTQAKKYFEKACDL------------KENSGCFNLGVLYYQGQGVEKN--LKKAASFYAKACDLN----YSNGCHLLG   81 (273)
T ss_dssp             TCHHHHHHHHHHHHHT------------TCHHHHHHHHHHHHHTSSSCCC--HHHHHHHHHHHHHTT----CHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHC------------CCHHHHHHHHHHHHcCCCcCCC--HHHHHHHHHHHHHCC----CHHHHHHHH
Confidence            6777888888776552            122356667777776    663  444444444433322    556777777


Q ss_pred             HHHHH----cCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCcHhhHHHHHH
Q 027083           78 LGCAN----IWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGK----LKKTFEASRVFEHLVSLGVKPNAMSYSLLVD  149 (228)
Q Consensus        78 ~~~~~----~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~  149 (228)
                      ..|..    .++.++|...|++.... +   +...+..+-..|.+    .+++++|...|++..+.+   +...+..+-.
T Consensus        82 ~~~~~g~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~  154 (273)
T 1ouv_A           82 NLYYSGQGVSQNTNKALQYYSKACDL-K---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGS  154 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHhCCCCcccCHHHHHHHHHHHHHc-C---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHH
Confidence            77777    88888888888888773 3   66777777778888    888888888888887765   4566666767


Q ss_pred             HHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHHcCC
Q 027083          150 AHLT----NRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVR----EMDEESNDRVEALAKKFDI  207 (228)
Q Consensus       150 ~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a~~~~~~m~~~g~  207 (228)
                      .|..    .+++++|.+.|++..+.+   +...+..+-..+..    .++.++|...+....+.+.
T Consensus       155 ~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~  217 (273)
T 1ouv_A          155 LYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN  217 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC
Confidence            7776    788888888888877664   45666777777777    8888888888888777654

>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=98.82  E-value=8.9e-07  Score=77.93  Aligned_cols=163  Identities=12%  Similarity=0.070  Sum_probs=136.4

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC-HHhHH
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD-IHSYN  110 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~  110 (228)
                      ..+|+.|-..|.+.|+  ..++...+.+.....+-  +..+|+.+=..|.+.|+.++|...|++..+-   .|+ ...|+
T Consensus         9 a~al~nLG~~~~~~G~--~~eAi~~~~kAl~l~P~--~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l---~P~~~~a~~   81 (723)
T 4gyw_A            9 ADSLNNLANIKREQGN--IEEAVRLYRKALEVFPE--FAAAHSNLASVLQQQGKLQEALMHYKEAIRI---SPTFADAYS   81 (723)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCSC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHH
T ss_pred             HHHHHHHHHHHHHcCC--HHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHH
Confidence            4678999999999994  55555555555554443  7889999999999999999999999998863   454 66899


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhc
Q 027083          111 ALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPS-KETLKKVRRRCVRE  189 (228)
Q Consensus       111 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~  189 (228)
                      .+-.+|.+.|++++|.+.|++..+..- -+...|+.+-..|.+.|++++|++.|++..+.  .|+ ...+..+...+...
T Consensus        82 nLg~~l~~~g~~~~A~~~~~kAl~l~P-~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~  158 (723)
T 4gyw_A           82 NMGNTLKEMQDVQGALQCYTRAIQINP-AFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIV  158 (723)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhc
Confidence            999999999999999999999887642 36788999999999999999999999988763  464 68899999999999


Q ss_pred             CChhhHHHHHHHHHH
Q 027083          190 MDEESNDRVEALAKK  204 (228)
Q Consensus       190 ~~~~~a~~~~~~m~~  204 (228)
                      |++++|.+.++...+
T Consensus       159 g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          159 CDWTDYDERMKKLVS  173 (723)
T ss_dssp             TCCTTHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHH
Confidence            999999988877654

>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=98.82  E-value=7.9e-06  Score=62.76  Aligned_cols=179  Identities=9%  Similarity=-0.047  Sum_probs=141.7

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHh----hChhcHHHHHHHHhchhhcCCCCCCHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSR----KGFETLDSVYFQLENLSRAEPPYKSVAAINCVI   77 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll   77 (228)
                      |+.++|...+++..+.         +   ...++..+-..|.+    .+  +...+...+.+.....    +...+..+=
T Consensus        56 ~~~~~A~~~~~~a~~~---------~---~~~a~~~lg~~~~~g~~~~~--~~~~A~~~~~~a~~~~----~~~a~~~lg  117 (273)
T 1ouv_A           56 KNLKKAASFYAKACDL---------N---YSNGCHLLGNLYYSGQGVSQ--NTNKALQYYSKACDLK----YAEGCASLG  117 (273)
T ss_dssp             CCHHHHHHHHHHHHHT---------T---CHHHHHHHHHHHHHTSSSCC--CHHHHHHHHHHHHHTT----CHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHC---------C---CHHHHHHHHHHHhCCCCccc--CHHHHHHHHHHHHHcC----CccHHHHHH
Confidence            6788888888887655         1   33457777788887    67  4455554444443332    567888888


Q ss_pred             HHHHH----cCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCcHhhHHHHHH
Q 027083           78 LGCAN----IWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGK----LKKTFEASRVFEHLVSLGVKPNAMSYSLLVD  149 (228)
Q Consensus        78 ~~~~~----~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~  149 (228)
                      ..|..    .++.++|...|++..+. +   +...+..+-..|.+    .+++++|...|++..+.+   +...+..+-.
T Consensus       118 ~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~  190 (273)
T 1ouv_A          118 GIYHDGKVVTRDFKKAVEYFTKACDL-N---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGN  190 (273)
T ss_dssp             HHHHHCSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHcCCCcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHH
Confidence            88888    99999999999999884 4   56677778788887    899999999999988764   5677888888


Q ss_pred             HHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHHcCCC
Q 027083          150 AHLT----NRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVR----EMDEESNDRVEALAKKFDIR  208 (228)
Q Consensus       150 ~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~  208 (228)
                      .|..    .+++++|.+.|++..+.+   +...+..+-..|..    .++.++|...+....+.|..
T Consensus       191 ~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~  254 (273)
T 1ouv_A          191 MYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  254 (273)
T ss_dssp             HHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             HHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCH
Confidence            8888    999999999999988765   36677778888888    89999999999999988753

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.78  E-value=8.3e-07  Score=67.92  Aligned_cols=192  Identities=13%  Similarity=0.004  Sum_probs=139.7

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++++|...+++..+. .  ..    ......+|..+...+.+.|.  ...+...+.+.....+.  +..+|..+-..+
T Consensus        50 ~~~~~~A~~~~~~a~~~-~--~~----~~~~~~~~~~lg~~~~~~~~--~~~A~~~~~~a~~~~~~--~~~~~~~l~~~~  118 (272)
T 3u4t_A           50 LAKYDLAQKDIETYFSK-V--NA----TKAKSADFEYYGKILMKKGQ--DSLAIQQYQAAVDRDTT--RLDMYGQIGSYF  118 (272)
T ss_dssp             TTCHHHHHHHHHHHHTT-S--CT----TTCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHSTT--CTHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHhc-c--Cc----hhHHHHHHHHHHHHHHHccc--HHHHHHHHHHHHhcCcc--cHHHHHHHHHHH
Confidence            47889999999888763 1  10    00012347888899999884  55555555555554444  567899999999


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCC---H
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRD---Q  157 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~---~  157 (228)
                      ...|++++|...|++....  .+.+...|..+-..+...+++++|...|++..+.. +.+...+..+-..+...|+   .
T Consensus       119 ~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~  195 (272)
T 3u4t_A          119 YNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQ  195 (272)
T ss_dssp             HHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSS
T ss_pred             HHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhh
Confidence            9999999999999999863  23345566666624444569999999999988764 2346777778888888887   7


Q ss_pred             HHHHHHHHHHHHC-CCCCC------HHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          158 KAALSVIDEMVNA-GFAPS------KETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       158 ~~a~~~~~~m~~~-g~~p~------~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      ++|...+++..+. .-.|+      ..+|..+-..+...|+.++|...++...+..
T Consensus       196 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  251 (272)
T 3u4t_A          196 GLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALD  251 (272)
T ss_dssp             CTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            7788888876643 12233      2577778888999999999999999998865

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.74  E-value=2e-06  Score=72.84  Aligned_cols=167  Identities=11%  Similarity=-0.018  Sum_probs=124.2

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHH
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKS-VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYN  110 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~  110 (228)
                      ...|..+...+.+.|.  ...+...+.+.....+.  + ...|......+.+.|+.+.|..+|++..+..  ..+...|-
T Consensus       321 ~~l~~~~~~~~~~~g~--~~~A~~~~~~al~~~p~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~--~~~~~~~~  394 (530)
T 2ooe_A          321 MLLYFAYADYEESRMK--YEKVHSIYNRLLAIEDI--DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA--RTRHHVYV  394 (530)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHSSSS--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT--TCCTHHHH
T ss_pred             HHHHHHHHHHHHhcCC--HHHHHHHHHHHhCcccc--CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc--CCchHHHH
Confidence            4568888888888884  55555555555543332  3 3589999999999999999999999998741  11222222


Q ss_pred             HHHH-HHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCC-CCCC--HHHHHHHHHHH
Q 027083          111 ALIY-AFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAG-FAPS--KETLKKVRRRC  186 (228)
Q Consensus       111 ~li~-~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~--~~t~~~li~~~  186 (228)
                      .... .+...|+.++|..+|+...+.. .-+...|..++..+.+.|+.++|..+|++....+ ..|+  ...|...+...
T Consensus       395 ~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e  473 (530)
T 2ooe_A          395 TAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFE  473 (530)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHH
Confidence            2221 2346899999999999887653 2367889999999999999999999999988764 3443  56888888888


Q ss_pred             HhcCChhhHHHHHHHHHHc
Q 027083          187 VREMDEESNDRVEALAKKF  205 (228)
Q Consensus       187 ~~~~~~~~a~~~~~~m~~~  205 (228)
                      ...|+.+.+..+...+.+.
T Consensus       474 ~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          474 SNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             HHSSCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            8899999999998887764

>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=98.74  E-value=2.9e-06  Score=69.20  Aligned_cols=201  Identities=9%  Similarity=-0.025  Sum_probs=148.9

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |+.++|+..+++..+..          +.....|+.+-.++.+.|+ +..+++..+.+.....+-  +...|+.+-..+.
T Consensus       111 g~~~~Al~~~~~al~l~----------P~~~~a~~~~g~~l~~~g~-d~~eAl~~~~~al~l~P~--~~~a~~~~g~~~~  177 (382)
T 2h6f_A          111 ERSERAFKLTRDAIELN----------AANYTVWHFRRVLLKSLQK-DLHEEMNYITAIIEEQPK--NYQVWHHRRVLVE  177 (382)
T ss_dssp             CCCHHHHHHHHHHHHHC----------TTCHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHhC----------ccCHHHHHHHHHHHHHccc-CHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHH
Confidence            67788888888876652          1224568888888888883 155666666665555554  7889999999999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHc-cCCHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLT-NRDQKAA  160 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~-~g~~~~a  160 (228)
                      ..|++++|+..|++....  -.-+...|..+-.++.+.|++++|...|+++.+... -+...|+.+-.++.+ .|..++|
T Consensus       178 ~~g~~~eAl~~~~kal~l--dP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~~eA  254 (382)
T 2h6f_A          178 WLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDRA  254 (382)
T ss_dssp             HHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HccCHHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcchHH
Confidence            999999999999999873  233667899999999999999999999999988753 378889999999988 6665776


Q ss_pred             -----HHHHHHHHHCCCCC-CHHHHHHHHHHHHhcC--ChhhHHHHHHHHHHcCCCcchhhHHHHHHHHH
Q 027083          161 -----LSVIDEMVNAGFAP-SKETLKKVRRRCVREM--DEESNDRVEALAKKFDIRMNTENRKNILFNLE  222 (228)
Q Consensus       161 -----~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~  222 (228)
                           ++.+++...  +.| +...|+.+-..+...|  +.+++...+..+ + ....+...+..+...+.
T Consensus       255 ~~~~el~~~~~Al~--l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~-~~p~~~~al~~La~~~~  320 (382)
T 2h6f_A          255 VLEREVQYTLEMIK--LVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q-PSHSSPYLIAFLVDIYE  320 (382)
T ss_dssp             HHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T-TTCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-c-cCCCCHHHHHHHHHHHH
Confidence                 477777665  345 4678888888888877  578888877776 2 22224455555554443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.71  E-value=2.4e-06  Score=65.31  Aligned_cols=132  Identities=11%  Similarity=-0.076  Sum_probs=110.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +..+|..+-..+...|++++|...|++....  .+.+...|..+-..|.+.|++++|...|++..+.. +.+...|..+-
T Consensus        42 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la  118 (275)
T 1xnf_A           42 RAQLLYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRG  118 (275)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHH
Confidence            5678888899999999999999999999873  23467899999999999999999999999998764 23678899999


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      ..+.+.|++++|.+.++++.+.  .|+.......+..+...|+.++|...+......
T Consensus       119 ~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A          119 IALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            9999999999999999998874  465555555566667779999999998766654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.70  E-value=7.9e-07  Score=74.53  Aligned_cols=182  Identities=12%  Similarity=-0.039  Sum_probs=140.5

Q ss_pred             CccH-HHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHH
Q 027083            1 MGDL-QRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILG   79 (228)
Q Consensus         1 ~g~~-~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~   79 (228)
                      .|++ ++|+..+++..+...          .....|..+-.+|.+.|+  ..++...+.+..... |  +...+..+-..
T Consensus       115 ~g~~~~~A~~~~~~al~~~p----------~~~~a~~~lg~~~~~~g~--~~~A~~~~~~al~~~-p--~~~~~~~lg~~  179 (474)
T 4abn_A          115 TPDYSPEAEVLLSKAVKLEP----------ELVEAWNQLGEVYWKKGD--VTSAHTCFSGALTHC-K--NKVSLQNLSMV  179 (474)
T ss_dssp             SSSCCHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHHTC--HHHHHHHHHHHHTTC-C--CHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHhhCC----------CCHHHHHHHHHHHHHcCC--HHHHHHHHHHHHhhC-C--CHHHHHHHHHH
Confidence            3677 889988888776621          124578899999999994  555555555544433 2  56788888888


Q ss_pred             HHHc---------CCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhc--------CCHHHHHHHHHHHHhCCCC--Cc
Q 027083           80 CANI---------WDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKL--------KKTFEASRVFEHLVSLGVK--PN  140 (228)
Q Consensus        80 ~~~~---------~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~--------~~~~~a~~~~~~m~~~g~~--p~  140 (228)
                      +...         |++++|...|++..+.  -.-+...|..+-.+|...        |++++|...|++..+....  -+
T Consensus       180 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~  257 (474)
T 4abn_A          180 LRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSN  257 (474)
T ss_dssp             HTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGC
T ss_pred             HHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccC
Confidence            8888         9999999999999873  233577889999999998        9999999999998875310  37


Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHH
Q 027083          141 AMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEA  200 (228)
Q Consensus       141 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~  200 (228)
                      ...|..+-.+|...|++++|.+.|++..+.. .-+...+..+-..+...|++++|...+.
T Consensus       258 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          258 PDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            8899999999999999999999999987643 2245677888888888888888776443

>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=98.70  E-value=2e-06  Score=75.67  Aligned_cols=152  Identities=12%  Similarity=0.069  Sum_probs=130.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD-IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLL  147 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~l  147 (228)
                      +..+|+.+=..+.+.|++++|...|++..+-   .|+ ...|+.+-.+|.+.|++++|...|++..+..- -+...|+.+
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l---~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P-~~~~a~~nL   83 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEV---FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP-TFADAYSNM   83 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHH
Confidence            5778999999999999999999999998873   454 67899999999999999999999999887642 257889999


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhh
Q 027083          148 VDAHLTNRDQKAALSVIDEMVNAGFAP-SKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSAS  226 (228)
Q Consensus       148 i~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~  226 (228)
                      -.+|.+.|++++|++.|++..+.  .| +...|+.+-..+.+.|++++|...++...+..-. +...+..+...+...++
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g~  160 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIVCD  160 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhccc
Confidence            99999999999999999988764  45 4788999999999999999999999999886533 56778888888887777


Q ss_pred             c
Q 027083          227 Y  227 (228)
Q Consensus       227 ~  227 (228)
                      |
T Consensus       161 ~  161 (723)
T 4gyw_A          161 W  161 (723)
T ss_dssp             C
T ss_pred             H
Confidence            6

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.66  E-value=2.6e-06  Score=56.64  Aligned_cols=98  Identities=16%  Similarity=0.085  Sum_probs=73.4

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHH
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVD  149 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~  149 (228)
                      ...|..+-..+...|++++|...|++..+.  ...+...+..+...+.+.|++++|...|+++.+.. ..+..++..+..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   85 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHH
Confidence            566777777788888888888888887763  23456677777888888888888888888876653 336677777888


Q ss_pred             HHHccCCHHHHHHHHHHHHHC
Q 027083          150 AHLTNRDQKAALSVIDEMVNA  170 (228)
Q Consensus       150 ~~~~~g~~~~a~~~~~~m~~~  170 (228)
                      .+...|++++|.+.++++.+.
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHh
Confidence            888888888888888777654

>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=98.65  E-value=8.5e-07  Score=67.80  Aligned_cols=137  Identities=10%  Similarity=-0.005  Sum_probs=110.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC-----CC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC------C
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSF-----GL-TPDIHSYNALIYAFGKLKKTFEASRVFEHLVSL------G  136 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-----~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g  136 (228)
                      ...++..+-..+...|++++|...+++.....     +- .....+++.+-..|...|++++|...|++..+.      .
T Consensus        42 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~  121 (283)
T 3edt_B           42 VATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGK  121 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCC
Confidence            56788888899999999999999999987521     12 234568899999999999999999999987654      1


Q ss_pred             -CCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHC------CCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          137 -VKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNA------GFAP-SKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       137 -~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                       ......++..+-..|...|++++|.+.+++..+.      +-.| ...++..+-..+...|++++|...+....+.
T Consensus       122 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~  198 (283)
T 3edt_B          122 FHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTR  198 (283)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             1234677899999999999999999999988764      2233 3467888889999999999999999888764

>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=98.62  E-value=2e-05  Score=58.77  Aligned_cols=165  Identities=9%  Similarity=-0.017  Sum_probs=123.4

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCC-CHHhHHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTP-DIHSYNA  111 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~  111 (228)
                      ..+...-..+.+.|  +...+...+.+.....++ ++...+..+-.++...|+.++|...|++..+.   .| +...|..
T Consensus         8 ~~~~~~g~~~~~~~--~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~   81 (228)
T 4i17_A            8 NQLKNEGNDALNAK--NYAVAFEKYSEYLKLTNN-QDSVTAYNCGVCADNIKKYKEAADYFDIAIKK---NYNLANAYIG   81 (228)
T ss_dssp             HHHHHHHHHHHHTT--CHHHHHHHHHHHHHHTTT-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCSHHHHHHH
T ss_pred             HHHHHHHHHHHHcc--CHHHHHHHHHHHHhccCC-CCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh---CcchHHHHHH
Confidence            45667777888888  455555555555544431 26667777888888999999999999999863   34 4567888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCcH-------hhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC---HHHHHH
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLGVKPNA-------MSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPS---KETLKK  181 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-------~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~t~~~  181 (228)
                      +-..|.+.|++++|...|++..+... .+.       ..|..+=..+...|++++|.+.|++..+.  .|+   ...+..
T Consensus        82 l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~  158 (228)
T 4i17_A           82 KSAAYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYS  158 (228)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHH
Confidence            88999999999999999999877532 234       45777777888899999999999988764  565   466677


Q ss_pred             HHHHHHhcCCh---------------------------hhHHHHHHHHHHcC
Q 027083          182 VRRRCVREMDE---------------------------ESNDRVEALAKKFD  206 (228)
Q Consensus       182 li~~~~~~~~~---------------------------~~a~~~~~~m~~~g  206 (228)
                      +-..+...|+.                           ++|...++...+..
T Consensus       159 l~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          159 LGVLFYNNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHHHHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence            77777777766                           77777777777653

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.60  E-value=5.1e-05  Score=64.17  Aligned_cols=169  Identities=7%  Similarity=-0.077  Sum_probs=123.3

Q ss_pred             chhHHHHHHHHHh-------hChhc-----HHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Q 027083           32 FTSLYPLVVACSR-------KGFET-----LDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSS   99 (228)
Q Consensus        32 ~~~~~~ll~~~~~-------~g~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   99 (228)
                      ...|......+.+       .|+.+     ...+...+.+......|. +...|..+...+.+.|++++|..+|++..+.
T Consensus       272 ~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~-~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~  350 (530)
T 2ooe_A          272 PDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKK-NMLLYFAYADYEESRMKYEKVHSIYNRLLAI  350 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc
Confidence            4567666676665       46432     114444555444322232 7889999999999999999999999999873


Q ss_pred             CCCCCC--HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH-HHHHccCCHHHHHHHHHHHHHCCCCCCH
Q 027083          100 FGLTPD--IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV-DAHLTNRDQKAALSVIDEMVNAGFAPSK  176 (228)
Q Consensus       100 ~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li-~~~~~~g~~~~a~~~~~~m~~~g~~p~~  176 (228)
                         .|+  ...|......+.+.|++++|..+|++..+... .+...|.... -.+...|++++|..+|+...+.. .-+.
T Consensus       351 ---~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~  425 (530)
T 2ooe_A          351 ---EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIP  425 (530)
T ss_dssp             ---SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCH
T ss_pred             ---cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCH
Confidence               454  25899999999999999999999999887531 1222222211 12346899999999999877642 2257


Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          177 ETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       177 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      ..|..++..+.+.|+.+.|..+++.....+
T Consensus       426 ~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~  455 (530)
T 2ooe_A          426 EYVLAYIDYLSHLNEDNNTRVLFERVLTSG  455 (530)
T ss_dssp             HHHHHHHHHHTTTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHhCCCHhhHHHHHHHHHhcc
Confidence            889999999999999999999999999874

>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=98.58  E-value=9.4e-06  Score=66.13  Aligned_cols=200  Identities=8%  Similarity=-0.056  Sum_probs=143.7

Q ss_pred             Ccc-HHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHH
Q 027083            1 MGD-LQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILG   79 (228)
Q Consensus         1 ~g~-~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~   79 (228)
                      .|+ +++|+..+++..+..          +.....|+.+-.++.+.|+  ...++..+.+.....+-  +...|..+-.+
T Consensus       144 ~g~d~~eAl~~~~~al~l~----------P~~~~a~~~~g~~~~~~g~--~~eAl~~~~kal~ldP~--~~~a~~~lg~~  209 (382)
T 2h6f_A          144 LQKDLHEEMNYITAIIEEQ----------PKNYQVWHHRRVLVEWLRD--PSQELEFIADILNQDAK--NYHAWQHRQWV  209 (382)
T ss_dssp             TTCCHHHHHHHHHHHHHHC----------TTCHHHHHHHHHHHHHHTC--CTTHHHHHHHHHHHCTT--CHHHHHHHHHH
T ss_pred             cccCHHHHHHHHHHHHHHC----------CCCHHHHHHHHHHHHHccC--HHHHHHHHHHHHHhCcc--CHHHHHHHHHH
Confidence            365 889999998887762          1224578888888999885  33344444444444443  88899999999


Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHh-cCCHHHH-----HHHHHHHHhCCCCCcHhhHHHHHHHHHc
Q 027083           80 CANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGK-LKKTFEA-----SRVFEHLVSLGVKPNAMSYSLLVDAHLT  153 (228)
Q Consensus        80 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~-~~~~~~a-----~~~~~~m~~~g~~p~~~t~~~li~~~~~  153 (228)
                      +...|++++|+..|++..+.  -.-+...|+.+-.++.+ .|..++|     ...|++..+... -+...|+.+-..+..
T Consensus       210 ~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~P-~~~~a~~~l~~ll~~  286 (382)
T 2h6f_A          210 IQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVP-HNESAWNYLKGILQD  286 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTT
T ss_pred             HHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHc
Confidence            99999999999999999873  22367789999999999 6665777     477888776532 367789988888988


Q ss_pred             cC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC---------ChhhHHHHHHHH-HHcCCCcch-hhHHHHHHH
Q 027083          154 NR--DQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREM---------DEESNDRVEALA-KKFDIRMNT-ENRKNILFN  220 (228)
Q Consensus       154 ~g--~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~---------~~~~a~~~~~~m-~~~g~~~~~-~~~~~li~~  220 (228)
                      .|  +.++|.+.+.++  ..-..+...+..+...|.+.|         ..++|..+++.+ .+  +.|.. ..|..+...
T Consensus       287 ~g~~~~~~a~~~~~~~--~~~p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~--~DP~r~~~w~~~~~~  362 (382)
T 2h6f_A          287 RGLSKYPNLLNQLLDL--QPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKE--KDTIRKEYWRYIGRS  362 (382)
T ss_dssp             TCGGGCHHHHHHHHHH--TTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHT--TCGGGHHHHHHHHHH
T ss_pred             cCccchHHHHHHHHHh--ccCCCCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHH--hCchhHHHHHHHHHH
Confidence            88  689999999887  223345688888888888864         258888888887 44  33433 344444444


Q ss_pred             H
Q 027083          221 L  221 (228)
Q Consensus       221 l  221 (228)
                      |
T Consensus       363 l  363 (382)
T 2h6f_A          363 L  363 (382)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=98.56  E-value=2.7e-05  Score=57.19  Aligned_cols=84  Identities=20%  Similarity=0.165  Sum_probs=37.3

Q ss_pred             HHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHH
Q 027083           79 GCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQK  158 (228)
Q Consensus        79 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~  158 (228)
                      .+...|++++|...|++..     .|+...|..+-..|.+.|++++|...|++..+.. ..+...|..+-.++...|+++
T Consensus        15 ~~~~~~~~~~A~~~~~~a~-----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~   88 (213)
T 1hh8_A           15 LAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYD   88 (213)
T ss_dssp             HHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhCCHHHHHHHHHHHc-----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHH
Confidence            3334444444444444331     2344444444444444444444444444443332 123344444444444444444


Q ss_pred             HHHHHHHHHH
Q 027083          159 AALSVIDEMV  168 (228)
Q Consensus       159 ~a~~~~~~m~  168 (228)
                      +|.+.|++..
T Consensus        89 ~A~~~~~~al   98 (213)
T 1hh8_A           89 LAIKDLKEAL   98 (213)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4444444444

>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=98.55  E-value=3.3e-05  Score=57.53  Aligned_cols=133  Identities=13%  Similarity=0.033  Sum_probs=111.4

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +...+...=..+...|+.++|...|++.... ...++...+..+-.++.+.|++++|...|++..+... -+...|..+-
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~   83 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKL-TNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNY-NLANAYIGKS   83 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-SHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhc-cCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCc-chHHHHHHHH
Confidence            5567777888888999999999999999874 4437777777788999999999999999999987642 3677899999


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCC-H-------HHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPS-K-------ETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~-~-------~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      ..+...|++++|.+.+++..+.  .|+ .       ..|..+-..+...|++++|...+....+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  146 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV  146 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS
T ss_pred             HHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc
Confidence            9999999999999999998764  343 3       45666677788899999999999998875

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.52  E-value=6.2e-06  Score=64.42  Aligned_cols=193  Identities=12%  Similarity=-0.052  Sum_probs=118.3

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhc---hhhcCC-CCCCHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLEN---LSRAEP-PYKSVAAINCVI   77 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~ll   77 (228)
                      |++++|...+.+..+......+.    .....+|+.+-.+|.+.|+  ...+...+.+   +..... +..-..+++.+-
T Consensus        51 g~~~~A~~~~~~al~~~~~~~~~----~~~a~~~~~lg~~~~~~g~--~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  124 (292)
T 1qqe_A           51 KELNLAGDSFLKAADYQKKAGNE----DEAGNTYVEAYKCFKSGGN--SVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (292)
T ss_dssp             TCTHHHHHHHHHHHHHHHHTTCH----HHHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHhCCH----HHHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            56677777776665543211110    0113468888899999885  3333222222   221111 100145777888


Q ss_pred             HHHHHc-CCHHHHHHHHHHHhhcC---CCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHh------hHHH
Q 027083           78 LGCANI-WDLDRAYQTFEAVGSSF---GLTPD-IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAM------SYSL  146 (228)
Q Consensus        78 ~~~~~~-~~~~~a~~~~~~m~~~~---~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~------t~~~  146 (228)
                      ..|... |+.++|...|++...-.   +-.+. ..+++.+-..|.+.|++++|...|++..+........      .|..
T Consensus       125 ~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  204 (292)
T 1qqe_A          125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLK  204 (292)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHH
Confidence            888886 99999999999876520   10011 3568888899999999999999999988764332221      5677


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHH--hcCChhhHHHHHHHH
Q 027083          147 LVDAHLTNRDQKAALSVIDEMVNAGFAPSK------ETLKKVRRRCV--REMDEESNDRVEALA  202 (228)
Q Consensus       147 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~------~t~~~li~~~~--~~~~~~~a~~~~~~m  202 (228)
                      +..++...|++++|...+++..+  +.|+.      ..+..+..++.  ..+++++|...++.+
T Consensus       205 lg~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~  266 (292)
T 1qqe_A          205 KGLCQLAATDAVAAARTLQEGQS--EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (292)
T ss_dssp             HHHHHHHTTCHHHHHHHHHGGGC--C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh--hCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccC
Confidence            77888899999999999987664  23331      23444556554  335566666655443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.52  E-value=3.4e-06  Score=68.02  Aligned_cols=200  Identities=13%  Similarity=-0.022  Sum_probs=131.4

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChh------------------cHHHHHHHHhch---
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFE------------------TLDSVYFQLENL---   60 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~------------------~~~~~~~~~~~~---   60 (228)
                      |++++|...+++..+........    .....++..+-..|...|+.                  ....+...+.+.   
T Consensus       101 g~~~~A~~~~~~al~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~  176 (406)
T 3sf4_A          101 GNFDEAIVCCQRHLDISRELNDK----VGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSL  176 (406)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCH----HHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcccc----cchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            67777777777765553211110    00123567777778777740                  023332222221   


Q ss_pred             hhcC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC----HHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027083           61 SRAE-PPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD----IHSYNALIYAFGKLKKTFEASRVFEHLVSL  135 (228)
Q Consensus        61 ~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  135 (228)
                      .... .+.....++..+-..+...|+.++|...+++......-.++    ..++..+-..|...|++++|...+++..+.
T Consensus       177 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  256 (406)
T 3sf4_A          177 VTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLL  256 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            1111 11113457778888889999999999999987642111122    337888889999999999999999987543


Q ss_pred             ----CCCC-cHhhHHHHHHHHHccCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          136 ----GVKP-NAMSYSLLVDAHLTNRDQKAALSVIDEMVNA----GFAPS-KETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       136 ----g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                          +-.+ ...++..+-..|...|++++|.+.+++....    +-.+. ..++..+-..+...|++++|...+....+.
T Consensus       257 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  336 (406)
T 3sf4_A          257 ARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  336 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                1111 1567889999999999999999999887642    21221 567777888899999999999998876653

>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=98.50  E-value=1.4e-05  Score=57.42  Aligned_cols=164  Identities=9%  Similarity=-0.059  Sum_probs=118.2

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNAL  112 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  112 (228)
                      ..+..+...+.+.|  +...+...+.+.....|.  +...+..+-..+...|++++|...+++....   .|+...+..+
T Consensus         7 ~~~~~~a~~~~~~g--~~~~A~~~~~~al~~~P~--~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~   79 (176)
T 2r5s_A            7 EQLLKQVSELLQQG--EHAQALNVIQTLSDELQS--RGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLI   79 (176)
T ss_dssp             TTHHHHHHHHHHTT--CHHHHHHHHHTSCHHHHT--SHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHH
T ss_pred             HHHHHHHHHHHHcC--CHHHHHHHHHHHHHHCCC--cHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHH
Confidence            34556677788888  456666666655544443  7788999999999999999999999998763   2344333322


Q ss_pred             HHH-HHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcC
Q 027083          113 IYA-FGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAP-SKETLKKVRRRCVREM  190 (228)
Q Consensus       113 i~~-~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~  190 (228)
                      ... +.+.+....|...+++..+.. +-+...+..+-..+...|++++|.+.|++..+..-.+ +...+..+...+...|
T Consensus        80 ~~~~~~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g  158 (176)
T 2r5s_A           80 AKLELHQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALG  158 (176)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhC
Confidence            111 222223345788888877653 2257889999999999999999999999988765333 3568888999999999


Q ss_pred             ChhhHHHHHHHHHH
Q 027083          191 DEESNDRVEALAKK  204 (228)
Q Consensus       191 ~~~~a~~~~~~m~~  204 (228)
                      +.++|...++....
T Consensus       159 ~~~~A~~~y~~al~  172 (176)
T 2r5s_A          159 QGNAIASKYRRQLY  172 (176)
T ss_dssp             SSCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            99999988876543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.48  E-value=1.9e-05  Score=63.82  Aligned_cols=203  Identities=7%  Similarity=-0.050  Sum_probs=127.1

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhh---cCC--CCCCHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSR---AEP--PYKSVAAINC   75 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~---~~~--~~~~~~~~~~   75 (228)
                      .|++++|...+++..+.....++.    .....+|..+-..|...|.  ...+...+.+...   ...  ......+++.
T Consensus       116 ~g~~~~A~~~~~~al~~~~~~~~~----~~~a~~~~~lg~~~~~~~~--~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  189 (383)
T 3ulq_A          116 QREYLSAIKFFKKAESKLIFVKDR----IEKAEFFFKMSESYYYMKQ--TYFSMDYARQAYEIYKEHEAYNIRLLQCHSL  189 (383)
T ss_dssp             TTCHHHHHHHHHHHHTTGGGCCCH----HHHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHTCSTTHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHHHhhCCCH----HHHHHHHHHHHHHHHHcCC--HHHHHHHHHHHHHHHHhCccchHHHHHHHHH
Confidence            378888998888876653221111    0012467788888888885  3333322222221   111  1112456777


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhc---CCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCcHhhHHH
Q 027083           76 VILGCANIWDLDRAYQTFEAVGSS---FGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSL----GV-KPNAMSYSL  146 (228)
Q Consensus        76 ll~~~~~~~~~~~a~~~~~~m~~~---~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~-~p~~~t~~~  146 (228)
                      +=..|...|+.++|...|++...-   .+-.+ ...+++.+-..|...|++++|...|++..+.    +. .....++..
T Consensus       190 lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  269 (383)
T 3ulq_A          190 FATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFL  269 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHH
Confidence            778888999999999999887642   11111 1247888888999999999999999987662    22 335677888


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCc
Q 027083          147 LVDAHLTNRDQKAALSVIDEMVNA----GFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRM  209 (228)
Q Consensus       147 li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~  209 (228)
                      +-..+.+.|++++|.+.+++....    +-......+..+-..+...|+.+...+......+.+..|
T Consensus       270 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~  336 (383)
T 3ulq_A          270 ITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYA  336 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHH
Confidence            999999999999999998886642    212222335556666777777433333444444444443

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.48  E-value=4.1e-06  Score=65.38  Aligned_cols=136  Identities=12%  Similarity=-0.049  Sum_probs=97.0

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC---CCC-CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-c
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSF---GLT-PDIHSYNALIYAFGKLKKTFEASRVFEHLVSL----GVKP-N  140 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~---~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~  140 (228)
                      ..++..+-..+...|+.++|...+++.....   +.. ....++..+...|.+.|++++|...+++..+.    +-.+ .
T Consensus       183 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  262 (338)
T 3ro2_A          183 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVE  262 (338)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHH
Confidence            4467777788888899999999888875420   111 11337788888889999999999988876542    1111 1


Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          141 AMSYSLLVDAHLTNRDQKAALSVIDEMVNA----GFAP-SKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       141 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      ..++..+-..+...|++++|.+.+++....    +-.+ ...++..+-..+...|++++|...+....+.
T Consensus       263 ~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          263 AQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            567788888888999999999888876542    2111 1456777788888899999999988887764

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.46  E-value=1.6e-05  Score=53.13  Aligned_cols=120  Identities=8%  Similarity=0.024  Sum_probs=85.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +...+..+-..+...|+++.|...|++....  ...+...+..+-..+...|++++|...+++..+.. ..+...+..+-
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~   87 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMG   87 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHH
Confidence            4556666777777888888888888887763  23356677777888888888888888888876653 23566777777


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDE  192 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~  192 (228)
                      ..+.+.|++++|.+.+++..... ..+...+..+...+.+.|+.
T Consensus        88 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           88 LALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            88888888888888888776542 22456666666666665553

>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=98.45  E-value=1.9e-05  Score=67.37  Aligned_cols=134  Identities=8%  Similarity=-0.144  Sum_probs=73.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +...|..+-..+...|+.++|...|++..+.  -.-+...+..+-..|.+.|++++|.+.|++..+.. ..+...+..+-
T Consensus        22 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la   98 (568)
T 2vsy_A           22 DFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAAVLLQQASDAA-PEHPGIALWLG   98 (568)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHH
Confidence            4455555555566666666666666665542  12234455555566666666666666666655442 12345555666


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc---CChhhHHHHHHHHHHcC
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVRE---MDEESNDRVEALAKKFD  206 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~---~~~~~a~~~~~~m~~~g  206 (228)
                      .++.+.|++++|.+.+++..+.. ..+...+..+...+...   |+.++|...++...+.+
T Consensus        99 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           99 HALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            66666666666666666555432 12345555555555555   66666666655555543

>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=98.43  E-value=1.5e-05  Score=68.14  Aligned_cols=154  Identities=12%  Similarity=-0.036  Sum_probs=108.1

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++++|...+++..+...          .....|..+-..+.+.|+  ..++...+.+.....+.  +...+..+-..+
T Consensus         2 ~g~~~~A~~~~~~al~~~p----------~~~~~~~~lg~~~~~~g~--~~~A~~~~~~al~~~p~--~~~~~~~lg~~~   67 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRP----------QDFVAWLMLADAELGMGD--TTAGEMAVQRGLALHPG--HPEAVARLGRVR   67 (568)
T ss_dssp             -----------------------------CCHHHHHHHHHHHHHHTC--HHHHHHHHHHHHTTSTT--CHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHHcCC--HHHHHHHHHHHHHhCCC--CHHHHHHHHHHH
Confidence            3788899999888765521          123567888889999884  55555555555444443  678899999999


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHcc---CCH
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTN---RDQ  157 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~---g~~  157 (228)
                      ...|+.++|...+++..+.  -..+...+..+-..|.+.|++++|.+.|++..+.. ..+...+..+...+...   |+.
T Consensus        68 ~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~  144 (568)
T 2vsy_A           68 WTQQRHAEAAVLLQQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRAL  144 (568)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHCCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccH
Confidence            9999999999999999873  23356788999999999999999999999987764 23678889999999999   999


Q ss_pred             HHHHHHHHHHHHCC
Q 027083          158 KAALSVIDEMVNAG  171 (228)
Q Consensus       158 ~~a~~~~~~m~~~g  171 (228)
                      ++|.+.+++..+.+
T Consensus       145 ~~A~~~~~~al~~~  158 (568)
T 2vsy_A          145 DVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcC
Confidence            99999999987654

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.42  E-value=3e-05  Score=54.32  Aligned_cols=130  Identities=12%  Similarity=0.017  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHH
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVD  149 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~  149 (228)
                      ...+..+-..+...|++++|...|++....  .+.+...+..+-..+.+.|++++|...+++..+.. ..+...|..+-.
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~   89 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            345666667777889999999999888763  23357778888888889999999999998877654 336778888888


Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCCCCHHHHH--HHHHHHHhcCChhhHHHHHHHHH
Q 027083          150 AHLTNRDQKAALSVIDEMVNAGFAPSKETLK--KVRRRCVREMDEESNDRVEALAK  203 (228)
Q Consensus       150 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~--~li~~~~~~~~~~~a~~~~~~m~  203 (228)
                      ++...|++++|.+.+++.....- .+...+.  .....+...|++++|...+....
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            88899999999999988776431 2334443  33334667788888888776654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.41  E-value=4.6e-05  Score=59.96  Aligned_cols=94  Identities=14%  Similarity=0.062  Sum_probs=42.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCC-----CHHhHHHHHHH--HHhcC--CHHHHHHHHHHHHhCCCCC
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTP-----DIHSYNALIYA--FGKLK--KTFEASRVFEHLVSLGVKP  139 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-----~~~~~~~li~~--~~~~~--~~~~a~~~~~~m~~~g~~p  139 (228)
                      +...+-.++..+.+.|+.+.|.+.+++|.+.   .|     +..+...+..+  ....|  ..++|..+|+++...  .|
T Consensus       135 ~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p  209 (310)
T 3mv2_B          135 TTELLLLAIEVALLNNNVSTASTIFDNYTNA---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FP  209 (310)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SC
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CC
Confidence            4444445555555555555555555555432   23     23333333333  11112  455555555555433  23


Q ss_pred             cHhhHHHHHHHHHccCCHHHHHHHHHHH
Q 027083          140 NAMSYSLLVDAHLTNRDQKAALSVIDEM  167 (228)
Q Consensus       140 ~~~t~~~li~~~~~~g~~~~a~~~~~~m  167 (228)
                      +..+-..++.++.+.|++++|+++++.+
T Consensus       210 ~~~~~~lLln~~~~~g~~~eAe~~L~~l  237 (310)
T 3mv2_B          210 TWKTQLGLLNLHLQQRNIAEAQGIVELL  237 (310)
T ss_dssp             SHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             CcccHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3223333333455555555555555443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.41  E-value=3.5e-06  Score=68.41  Aligned_cols=196  Identities=11%  Similarity=-0.050  Sum_probs=123.7

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhh---c-CCCCCCHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSR---A-EPPYKSVAAINCV   76 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~---~-~~~~~~~~~~~~l   76 (228)
                      .|++++|...+++..+........      ....|..+...|...|+  ...+...+.+...   . ........++..+
T Consensus        61 ~g~~~~A~~~~~~al~~~~~~~~~------~~~~~~~lg~~~~~~g~--~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  132 (411)
T 4a1s_A           61 AGDCRAGVAFFQAAIQAGTEDLRT------LSAIYSQLGNAYFYLGD--YNKAMQYHKHDLTLAKSMNDRLGEAKSSGNL  132 (411)
T ss_dssp             TTCHHHHHHHHHHHHHHCCSCHHH------HHHHHHHHHHHHHHHTC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hCcHHHHHHHHHHHHHhcccChhH------HHHHHHHHHHHHHHCCC--HHHHHHHHHHHHHHHHHccCchHHHHHHHHH
Confidence            378889999999887763211110      01357778888888885  3333222222111   1 1111245677777


Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhc---CCCCC-CHHhHHHHHHHHHhcCC-----------------HHHHHHHHHHHHhC
Q 027083           77 ILGCANIWDLDRAYQTFEAVGSS---FGLTP-DIHSYNALIYAFGKLKK-----------------TFEASRVFEHLVSL  135 (228)
Q Consensus        77 l~~~~~~~~~~~a~~~~~~m~~~---~~~~p-~~~~~~~li~~~~~~~~-----------------~~~a~~~~~~m~~~  135 (228)
                      -..|...|++++|...+++....   .+-.| ...++..+-..|...|+                 +++|...+++..+.
T Consensus       133 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~  212 (411)
T 4a1s_A          133 GNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKL  212 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHH
Confidence            78888899999999888876542   01112 24467777788888888                 88888887775432


Q ss_pred             ----CC-CCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          136 ----GV-KPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGF-APS----KETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       136 ----g~-~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                          +- .....++..+-..+...|++++|.+.+++..+..- .++    ..++..+...+...|++++|...++...+
T Consensus       213 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  291 (411)
T 4a1s_A          213 MRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLA  291 (411)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence                11 11234677777888888888888888877654210 112    23667777788888888888888777665

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.41  E-value=1.9e-05  Score=63.80  Aligned_cols=199  Identities=9%  Similarity=-0.020  Sum_probs=132.4

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHH-HHHHhchhhcCC-CCCCHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSV-YFQLENLSRAEP-PYKSVAAINCVIL   78 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~-~~~~~~~~~~~~-~~~~~~~~~~ll~   78 (228)
                      .|+.++|...+++..+.....++.   ......+++.+-..|...|+.+.+.. +........... +.....+++.+=.
T Consensus       156 ~~~~~~A~~~~~~al~~~~~~~~~---~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~  232 (383)
T 3ulq_A          156 MKQTYFSMDYARQAYEIYKEHEAY---NIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGL  232 (383)
T ss_dssp             TTCHHHHHHHHHHHHHHHHTCSTT---HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHhCccc---hHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            377888888888877664332220   11113467888899999885332222 222222222111 1112347788888


Q ss_pred             HHHHcCCHHHHHHHHHHHhh---cCCC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCcHhhHHHHHHH
Q 027083           79 GCANIWDLDRAYQTFEAVGS---SFGL-TPDIHSYNALIYAFGKLKKTFEASRVFEHLVSL----GVKPNAMSYSLLVDA  150 (228)
Q Consensus        79 ~~~~~~~~~~a~~~~~~m~~---~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~~~t~~~li~~  150 (228)
                      .|...|+.++|...|++...   +.+. .....++..+-..|.+.|++++|...+++..+.    +-......++.+-..
T Consensus       233 ~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~  312 (383)
T 3ulq_A          233 CKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSL  312 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            89999999999999998765   1123 233567888889999999999999999986543    112223346778888


Q ss_pred             HHccCC---HHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          151 HLTNRD---QKAALSVIDEMVNAGFAPS-KETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       151 ~~~~g~---~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      +...|+   .++|..++++.   +..|+ ...+..+-..|...|+.++|...+....+.
T Consensus       313 ~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          313 YLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            888898   66666666544   44444 356667788899999999999999887763

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.41  E-value=7.5e-06  Score=63.88  Aligned_cols=198  Identities=13%  Similarity=-0.044  Sum_probs=119.9

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhc---hhhcCC-CCCCHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLEN---LSRAEP-PYKSVAAINCVI   77 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~ll   77 (228)
                      |++++|...+++..+.......    ......++..+...+...|+  ...+...+.+   ...... +.....++..+-
T Consensus        57 g~~~~A~~~~~~al~~~~~~~~----~~~~~~~~~~l~~~~~~~g~--~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  130 (338)
T 3ro2_A           57 HDYAKALEYHHHDLTLARTIGD----QLGEAKASGNLGNTLKVLGN--FDEAIVCCQRHLDISRELNDKVGEARALYNLG  130 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTC----HHHHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhcccc----cHHHHHHHHHHHHHHHHccC--HHHHHHHHHHHHHHHHHhcCchHHHHHHHHHH
Confidence            5566666666665444211110    00113456667777777774  2233222222   211111 111244677777


Q ss_pred             HHHHHcCC--------------------HHHHHHHHHHHhhc---CCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027083           78 LGCANIWD--------------------LDRAYQTFEAVGSS---FGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLV  133 (228)
Q Consensus        78 ~~~~~~~~--------------------~~~a~~~~~~m~~~---~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~  133 (228)
                      ..+...|+                    ++.|...+++....   .+-.| ...++..+-..|...|++++|...+++..
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  210 (338)
T 3ro2_A          131 NVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRL  210 (338)
T ss_dssp             HHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            77888888                    88888888775431   11112 23467777788888999999998888765


Q ss_pred             hC----CC-CCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 027083          134 SL----GV-KPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNA----GFAPS-KETLKKVRRRCVREMDEESNDRVEALAK  203 (228)
Q Consensus       134 ~~----g~-~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~  203 (228)
                      +.    +. .....++..+...+...|++++|.+.+++....    +-.+. ..++..+-..+...|++++|...+....
T Consensus       211 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  290 (338)
T 3ro2_A          211 LIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHL  290 (338)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            42    10 111337788888888899999999888876532    21111 4567777788888899999998887776


Q ss_pred             Hc
Q 027083          204 KF  205 (228)
Q Consensus       204 ~~  205 (228)
                      +.
T Consensus       291 ~~  292 (338)
T 3ro2_A          291 AI  292 (338)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.41  E-value=7.6e-06  Score=66.41  Aligned_cols=202  Identities=13%  Similarity=-0.045  Sum_probs=129.4

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhCh----------hc-----HHHHHHHHhchh----h
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGF----------ET-----LDSVYFQLENLS----R   62 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~----------~~-----~~~~~~~~~~~~----~   62 (228)
                      |++++|...+++..+......+    ......++..+-..|...|+          ..     ...+...+.+..    .
T Consensus       140 g~~~~A~~~~~~al~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~  215 (411)
T 4a1s_A          140 GRFDEAAICCERHLTLARQLGD----RLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRD  215 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTC----HHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHhhc----hHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            6677777777776555321111    01113456777777777774          00     223322222211    1


Q ss_pred             cCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC----HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 027083           63 AEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD----IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVK  138 (228)
Q Consensus        63 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~  138 (228)
                      ...+.....++..+-..+...|+.++|...+++......-.++    ..++..+-..|...|++++|...+++..+....
T Consensus       216 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  295 (411)
T 4a1s_A          216 LGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVE  295 (411)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence            1111113457777778888999999999999887652100112    237788888999999999999999886543110


Q ss_pred             -----CcHhhHHHHHHHHHccCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCC
Q 027083          139 -----PNAMSYSLLVDAHLTNRDQKAALSVIDEMVNA----GFAP-SKETLKKVRRRCVREMDEESNDRVEALAKKFDI  207 (228)
Q Consensus       139 -----p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~  207 (228)
                           ....++..+-..+...|++++|.+.+++....    +..+ ...++..+-..+...|+.++|...+....+..-
T Consensus       296 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  374 (411)
T 4a1s_A          296 LGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAX  374 (411)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             cCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHh
Confidence                 12567888888999999999999998887642    2111 235777788888999999999999888877543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.40  E-value=3e-05  Score=51.30  Aligned_cols=99  Identities=16%  Similarity=0.124  Sum_probs=86.2

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 027083          106 IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRR  185 (228)
Q Consensus       106 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  185 (228)
                      ...+..+...+.+.|++++|.+.|+++.+.. ..+..++..+...+.+.|++++|..+++++.... ..+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            5678888899999999999999999988764 3467889999999999999999999999988653 3467888899999


Q ss_pred             HHhcCChhhHHHHHHHHHHcC
Q 027083          186 CVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       186 ~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      +...|++++|...+..+.+..
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~  107 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD  107 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhC
Confidence            999999999999999988764

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.38  E-value=0.00013  Score=55.50  Aligned_cols=170  Identities=11%  Similarity=0.005  Sum_probs=121.3

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC-HHhHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKS-VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD-IHSYN  110 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~  110 (228)
                      ..+-.+-..+.+.|  +...+...+.+.....|..|. ...+..+-.++...|++++|...|++..+...-.|. ...+.
T Consensus        16 ~~~~~~a~~~~~~g--~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           16 QEAFERAMEFYNQG--KYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             HHHHHHHHHHHHTT--CHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHHhC--CHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            34556677777878  455555555555554443111 567777888899999999999999999874111222 34566


Q ss_pred             HHHHHHHh--------cCCHHHHHHHHHHHHhCCCCCcH-hhH-----------------HHHHHHHHccCCHHHHHHHH
Q 027083          111 ALIYAFGK--------LKKTFEASRVFEHLVSLGVKPNA-MSY-----------------SLLVDAHLTNRDQKAALSVI  164 (228)
Q Consensus       111 ~li~~~~~--------~~~~~~a~~~~~~m~~~g~~p~~-~t~-----------------~~li~~~~~~g~~~~a~~~~  164 (228)
                      .+-.++.+        .|++++|...|++..+..  |+. ...                 ..+-..|.+.|++++|...|
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  171 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTY  171 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            67778888        999999999999988753  432 333                 44567788999999999999


Q ss_pred             HHHHHCCCC-C-CHHHHHHHHHHHHhc----------CChhhHHHHHHHHHHcC
Q 027083          165 DEMVNAGFA-P-SKETLKKVRRRCVRE----------MDEESNDRVEALAKKFD  206 (228)
Q Consensus       165 ~~m~~~g~~-p-~~~t~~~li~~~~~~----------~~~~~a~~~~~~m~~~g  206 (228)
                      ++..+..-. | ....+..+..++...          |++++|...+..+.+..
T Consensus       172 ~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~  225 (261)
T 3qky_A          172 EAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF  225 (261)
T ss_dssp             HHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC
Confidence            998864321 1 245677777778766          88899999999888754

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.38  E-value=8e-06  Score=65.83  Aligned_cols=198  Identities=12%  Similarity=-0.079  Sum_probs=121.5

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhh---c-CCCCCCHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSR---A-EPPYKSVAAINCVI   77 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~---~-~~~~~~~~~~~~ll   77 (228)
                      |++++|...+++.........+    ......++..+...|...|+  ...+...+.+...   . ..+.....++..+-
T Consensus        61 g~~~~A~~~~~~al~~~~~~~~----~~~~~~~~~~la~~~~~~g~--~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  134 (406)
T 3sf4_A           61 HDYAKALEYHHHDLTLARTIGD----QLGEAKASGNLGNTLKVLGN--FDEAIVCCQRHLDISRELNDKVGEARALYNLG  134 (406)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTC----HHHHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhccc----cHHHHHHHHHHHHHHHHcCC--HHHHHHHHHHHHHHHHhcccccchHHHHHHHH
Confidence            5666666666665444211110    00112356667777777774  2333222222111   1 11111244677777


Q ss_pred             HHHHHcCC--------------------HHHHHHHHHHHhhc---CCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027083           78 LGCANIWD--------------------LDRAYQTFEAVGSS---FGLTPD-IHSYNALIYAFGKLKKTFEASRVFEHLV  133 (228)
Q Consensus        78 ~~~~~~~~--------------------~~~a~~~~~~m~~~---~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~  133 (228)
                      ..+...|+                    ++.|...+++...-   .+-.|. ..++..+-..|...|++++|...+++..
T Consensus       135 ~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  214 (406)
T 3sf4_A          135 NVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRL  214 (406)
T ss_dssp             HHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHH
T ss_pred             HHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            78888888                    88888888775431   111122 3467777888889999999998888865


Q ss_pred             hCCC-CCc----HhhHHHHHHHHHccCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 027083          134 SLGV-KPN----AMSYSLLVDAHLTNRDQKAALSVIDEMVNA----GFAPS-KETLKKVRRRCVREMDEESNDRVEALAK  203 (228)
Q Consensus       134 ~~g~-~p~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~  203 (228)
                      +... .++    ..++..+-..+...|++++|.+.+++....    +-.+. ..++..+-..+...|++++|...+....
T Consensus       215 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  294 (406)
T 3sf4_A          215 LIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHL  294 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Confidence            4310 112    337888888888999999999888876632    21111 4577777888888999999998887776


Q ss_pred             Hc
Q 027083          204 KF  205 (228)
Q Consensus       204 ~~  205 (228)
                      +.
T Consensus       295 ~~  296 (406)
T 3sf4_A          295 AI  296 (406)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.38  E-value=8.3e-05  Score=59.97  Aligned_cols=202  Identities=11%  Similarity=0.021  Sum_probs=128.0

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchh---hcCCC-C-CCHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLS---RAEPP-Y-KSVAAINC   75 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~---~~~~~-~-~~~~~~~~   75 (228)
                      .|++++|...+++..+.....++.    .....+++.+-..|...|.  ...+.....+..   ..... . ....+++.
T Consensus       114 ~g~~~~A~~~~~~al~~~~~~~~~----~~~a~~~~~lg~~y~~~~~--~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  187 (378)
T 3q15_A          114 QKEYVEAIGYYREAEKELPFVSDD----IEKAEFHFKVAEAYYHMKQ--THVSMYHILQALDIYQNHPLYSIRTIQSLFV  187 (378)
T ss_dssp             TTCHHHHHHHHHHHHTTGGGCCCH----HHHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHTSTTCHHHHHHHHHH
T ss_pred             HCCHHHHHHHHHHHHHHHhhCCCh----HHHHHHHHHHHHHHHHcCC--cHHHHHHHHHHHHHHHhCCCchhhHHHHHHH
Confidence            378888999888876653222111    1112467788888888885  333332222221   11111 1 13557777


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhc---CCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCcHhhHHH
Q 027083           76 VILGCANIWDLDRAYQTFEAVGSS---FGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVS-----LGVKPNAMSYSL  146 (228)
Q Consensus        76 ll~~~~~~~~~~~a~~~~~~m~~~---~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~~p~~~t~~~  146 (228)
                      +=..|...|+.++|...|++...-   .+-.+ ...+++.+-..|...|++++|...|++..+     .. .....++..
T Consensus       188 lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~  266 (378)
T 3q15_A          188 IAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHH
Confidence            888888999999999999887641   11111 234678888899999999999999998766     33 234778888


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCc
Q 027083          147 LVDAHLTNRDQKAALSVIDEMVNA----GFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRM  209 (228)
Q Consensus       147 li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~  209 (228)
                      +-..+.+.|++++|.+.+++....    +-......+..+-..+...++.+...+......+.+..|
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~  333 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHA  333 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChh
Confidence            999999999999999999987753    222223455555556666677333333344444444433

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.37  E-value=2.6e-05  Score=52.41  Aligned_cols=98  Identities=15%  Similarity=0.103  Sum_probs=69.8

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +...|..+-..+...|++++|...|++..+.  ...+...+..+-..|...|++++|...+++..+.. ..+...+..+-
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la   91 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKA   91 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHH
Confidence            5666777777777788888888888877652  22356677777777777888888888877776643 23566777777


Q ss_pred             HHHHccCCHHHHHHHHHHHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      .++.+.|++++|.+.|++..+
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            777777888888777777664

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.35  E-value=6.5e-05  Score=58.51  Aligned_cols=163  Identities=6%  Similarity=-0.085  Sum_probs=104.3

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNAL  112 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  112 (228)
                      ..+..+-..+.+.|  +...+...+.+.....|-  +...+..+-..+...|+.++|...+++....   .|+.......
T Consensus       118 ~~~~~~a~~~~~~g--~~~~A~~~~~~al~~~P~--~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~~~  190 (287)
T 3qou_A          118 ELXAQQAMQLMQES--NYTDALPLLXDAWQLSNQ--NGEIGLLLAETLIALNRSEDAEAVLXTIPLQ---DQDTRYQGLV  190 (287)
T ss_dssp             HHHHHHHHHHHHTT--CHHHHHHHHHHHHHHTTS--CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG---GCSHHHHHHH
T ss_pred             hhHHHHHHHHHhCC--CHHHHHHHHHHHHHhCCc--chhHHHHHHHHHHHCCCHHHHHHHHHhCchh---hcchHHHHHH
Confidence            34455666666666  344444444544444443  5667777777778888888888888877653   3454433333


Q ss_pred             HH-HHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcC
Q 027083          113 IY-AFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFA-PSKETLKKVRRRCVREM  190 (228)
Q Consensus       113 i~-~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~t~~~li~~~~~~~  190 (228)
                      .. .+.+.+..+.|...+++..+.. ..+...+..+-..+...|++++|.+.|.+..+..-. .+...+..+...+...|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            22 3556666777777777766553 235677777777888888888888888877764321 12566777777787778


Q ss_pred             ChhhHHHHHHHHH
Q 027083          191 DEESNDRVEALAK  203 (228)
Q Consensus       191 ~~~~a~~~~~~m~  203 (228)
                      +.+.+...++...
T Consensus       270 ~~~~a~~~~r~al  282 (287)
T 3qou_A          270 TGDALASXYRRQL  282 (287)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHH
Confidence            7777776665543

>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=98.34  E-value=6.6e-05  Score=69.64  Aligned_cols=143  Identities=12%  Similarity=0.074  Sum_probs=93.5

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHH
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNA  111 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~  111 (228)
                      ..+|..+-.++-+.|+  ..++...+.+.    .   |...|.-+..+|.+.|++++|.+.+...++.   .++....+.
T Consensus      1105 p~vWsqLAKAql~~G~--~kEAIdsYiKA----d---D~say~eVa~~~~~lGkyEEAIeyL~mArk~---~~e~~Idt~ 1172 (1630)
T 1xi4_A         1105 PAVWSQLAKAQLQKGM--VKEAIDSYIKA----D---DPSSYMEVVQAANTSGNWEELVKYLQMARKK---ARESYVETE 1172 (1630)
T ss_pred             HHHHHHHHHHHHhCCC--HHHHHHHHHhc----C---ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---cccccccHH
Confidence            4578888888888884  44554444331    1   6678888999999999999999988876652   244444455


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMD  191 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~  191 (228)
                      +..+|++.+++++.+.+.    +   .|+...|..+=..|-..|++++|..+|...         ..|..+..++.+.|+
T Consensus      1173 LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge 1236 (1630)
T 1xi4_A         1173 LIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGE 1236 (1630)
T ss_pred             HHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCC
Confidence            777888887777544432    1   345555556666666667777777666652         366666666666666


Q ss_pred             hhhHHHHHHHH
Q 027083          192 EESNDRVEALA  202 (228)
Q Consensus       192 ~~~a~~~~~~m  202 (228)
                      ++.|.+.++..
T Consensus      1237 ~q~AIEaarKA 1247 (1630)
T 1xi4_A         1237 YQAAVDGARKA 1247 (1630)
T ss_pred             HHHHHHHHHHh
Confidence            66666655443

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.34  E-value=9.7e-05  Score=59.22  Aligned_cols=199  Identities=12%  Similarity=0.003  Sum_probs=123.9

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhh---cCCCCCCHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSR---AEPPYKSVAAINCVI   77 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~ll   77 (228)
                      .|++++|...+++..+........  ..+.....+..+-..+...|+  ...+...+.+...   ...+.....++..+-
T Consensus       106 ~G~~~~A~~~~~~al~~~~~~~~~--~~~~~~~~~~~la~~~~~~g~--~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  181 (373)
T 1hz4_A          106 QGFLQTAWETQEKAFQLINEQHLE--QLPMHEFLVRIRAQLLWAWAR--LDEAEASARSGIEVLSSYQPQQQLQCLAMLI  181 (373)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCT--TSTHHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccc--cCcHHHHHHHHHHHHHHHhcC--HHHHHHHHHHHHHHhhccCcHHHHHHHHHHH
Confidence            367778888877766553211100  000012345667778888885  3333333322221   111111345677788


Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCCCC--HHhHH----HHHHHHHhcCCHHHHHHHHHHHHhCCCCC---cHhhHHHHH
Q 027083           78 LGCANIWDLDRAYQTFEAVGSSFGLTPD--IHSYN----ALIYAFGKLKKTFEASRVFEHLVSLGVKP---NAMSYSLLV  148 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~--~~~~~----~li~~~~~~~~~~~a~~~~~~m~~~g~~p---~~~t~~~li  148 (228)
                      ..+...|+.++|...+++.... .-.++  .....    .....+...|++++|...+++.......+   ....+..+.
T Consensus       182 ~~~~~~g~~~~A~~~l~~a~~~-~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la  260 (373)
T 1hz4_A          182 QCSLARGDLDNARSQLNRLENL-LGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIA  260 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH-HTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH-HhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHH
Confidence            8888999999999999987642 11111  11111    23345789999999999999876543221   123567778


Q ss_pred             HHHHccCCHHHHHHHHHHHHH----CCCCCCH-HHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVN----AGFAPSK-ETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~----~g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      ..+...|++++|.+.+++...    .|..++. ..+..+-.++...|+.++|...+.....
T Consensus       261 ~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          261 RAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            889999999999999988753    2332333 3566667778889999999988877654

>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=98.34  E-value=4.4e-05  Score=59.96  Aligned_cols=200  Identities=9%  Similarity=-0.016  Sum_probs=131.6

Q ss_pred             ccHHHHHHHHHHHHHHhcc--chhhhhhhhCcchhHHHHHHHHHhhCh-hcHHHHHHHHhchhhcCC-CCCCHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGD--SIIDMEEIFSPFTSLYPLVVACSRKGF-ETLDSVYFQLENLSRAEP-PYKSVAAINCVI   77 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~--~~~~~~~~~~~~~~~~~ll~~~~~~g~-~~~~~~~~~~~~~~~~~~-~~~~~~~~~~ll   77 (228)
                      |++++|..++++.++....  +. ...........|+.....|...|+ ......+........... +..-..+|+.+-
T Consensus         5 ~~~~eA~~~~~~a~k~~~~~~~~-~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg   83 (307)
T 2ifu_A            5 QKISEAHEHIAKAEKYLKTSFMK-WKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAG   83 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHCCCSSS-CSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHccccccC-CCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            6889999999988876441  11 000111113457777777877775 222222222222222111 111245788888


Q ss_pred             HHHHHcCCHHHHHHHHHHHhhc---CCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-cHhhHHHHH
Q 027083           78 LGCANIWDLDRAYQTFEAVGSS---FGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSL----GVKP-NAMSYSLLV  148 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~---~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~t~~~li  148 (228)
                      ..|...|++++|...|++...-   .|-.+ -..+++.+-..|.+ |++++|...|++....    |-.+ -..+++.+-
T Consensus        84 ~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg  162 (307)
T 2ifu_A           84 MMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKAS  162 (307)
T ss_dssp             HHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            8999999999999999876531   12111 14577888888988 9999999999986543    1111 146788899


Q ss_pred             HHHHccCCHHHHHHHHHHHHH----CCCCCCH-HHHHHHHHHHHhcCChhhHHHHHHHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVN----AGFAPSK-ETLKKVRRRCVREMDEESNDRVEALAK  203 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~----~g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~m~  203 (228)
                      ..|.+.|++++|.+.|++...    .+..+.. ..+..+..++...|+.+.|...++...
T Consensus       163 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          163 RLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            999999999999999998774    2322222 356666677778899999999999887

>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=98.34  E-value=0.00037  Score=54.14  Aligned_cols=165  Identities=10%  Similarity=-0.026  Sum_probs=103.4

Q ss_pred             HHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHH----HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC----HHhH
Q 027083           38 LVVACSRKGFETLDSVYFQLENLSRAEPPYKSVA----AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD----IHSY  109 (228)
Q Consensus        38 ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~----~~~~  109 (228)
                      .+..+.+.|.  ...+...+.+.....+..|+..    .+..+-..+...++.++|...|++......-.++    ..+|
T Consensus        81 ~i~~~~~~~~--y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 3u3w_A           81 QVIMLCKQKR--YKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHTTC--HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHH
T ss_pred             HHHHHHHHhh--HHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHH
Confidence            3555666663  4444444444333333222321    2333445555667888888888888762111223    2368


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHh----C-CCCCc-HhhHHHHHHHHHccCCHHHHHHHHHHHHH----CCCCCC-HHH
Q 027083          110 NALIYAFGKLKKTFEASRVFEHLVS----L-GVKPN-AMSYSLLVDAHLTNRDQKAALSVIDEMVN----AGFAPS-KET  178 (228)
Q Consensus       110 ~~li~~~~~~~~~~~a~~~~~~m~~----~-g~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~-~~t  178 (228)
                      +.+-..|...|++++|...|++..+    . +..|. ..+|+.+-..|.+.|++++|.+.+++..+    .+..+. ..+
T Consensus       159 ~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~  238 (293)
T 3u3w_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHH
Confidence            8888888888999998888888763    1 12222 33778888888888999998888877653    333344 567


Q ss_pred             HHHHHHHHHhcCC-hhhHHHHHHHHHH
Q 027083          179 LKKVRRRCVREMD-EESNDRVEALAKK  204 (228)
Q Consensus       179 ~~~li~~~~~~~~-~~~a~~~~~~m~~  204 (228)
                      |..+-.++.+.|+ .++|...+.....
T Consensus       239 ~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          239 YYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            7777777888884 5888877766554

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.32  E-value=4.6e-05  Score=59.98  Aligned_cols=132  Identities=11%  Similarity=0.028  Sum_probs=102.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-----cHh
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGL-TPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKP-----NAM  142 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-----~~~  142 (228)
                      +..++..+-..+...|+.++|++++.+.... +- .-+...+-.++..+.+.|+.+.|.+.++.|.+.  .|     +-.
T Consensus        99 ~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~-~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~  175 (310)
T 3mv2_B           99 SPYELYLLATAQAILGDLDKSLETCVEGIDN-DEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNE  175 (310)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTS-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCHHHHHHHHHHHhcc-CCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchH
Confidence            5556667778888999999999999988552 32 235667888899999999999999999999875  56     356


Q ss_pred             hHHHHHHH--HHccC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          143 SYSLLVDA--HLTNR--DQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       143 t~~~li~~--~~~~g--~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      +..-|..+  ....|  +..+|..+|+++.+.  .|+..+-..++.++.+.|++++|+..++.+.+.
T Consensus       176 ~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~  240 (310)
T 3mv2_B          176 MILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSD  240 (310)
T ss_dssp             HHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            66666666  33334  899999999998754  366445555666888999999999999876653

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.32  E-value=3.8e-05  Score=59.90  Aligned_cols=172  Identities=6%  Similarity=-0.075  Sum_probs=119.7

Q ss_pred             hhHHHHHHHHHhhCh-hcHHHHHHHHhchhhcC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc---CCCCC-CH
Q 027083           33 TSLYPLVVACSRKGF-ETLDSVYFQLENLSRAE-PPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSS---FGLTP-DI  106 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~-~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~p-~~  106 (228)
                      ..|+.....|...|+ ......+.......... .+.....+|+.+-..|...|+.++|...|++...-   .|-.+ -.
T Consensus        38 ~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a  117 (292)
T 1qqe_A           38 DLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGA  117 (292)
T ss_dssp             HHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            356667777777775 22222332222222111 11112568899999999999999999999987642   11111 14


Q ss_pred             HhHHHHHHHHHhc-CCHHHHHHHHHHHHhCC----CCCc-HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH----
Q 027083          107 HSYNALIYAFGKL-KKTFEASRVFEHLVSLG----VKPN-AMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSK----  176 (228)
Q Consensus       107 ~~~~~li~~~~~~-~~~~~a~~~~~~m~~~g----~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----  176 (228)
                      .+++.+-..|... |++++|...|++..+..    -.+. ..+++.+-..+.+.|++++|.+.|++..+.......    
T Consensus       118 ~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  197 (292)
T 1qqe_A          118 NFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS  197 (292)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG
T ss_pred             HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHH
Confidence            5788888999996 99999999999876531    1111 457889999999999999999999998875432221    


Q ss_pred             --HHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          177 --ETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       177 --~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                        ..|..+..++...|+.+.|...++...+
T Consensus       198 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  227 (292)
T 1qqe_A          198 LKDYFLKKGLCQLAATDAVAAARTLQEGQS  227 (292)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence              2567777788899999999999988765

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.30  E-value=0.00025  Score=52.86  Aligned_cols=169  Identities=15%  Similarity=0.067  Sum_probs=116.1

Q ss_pred             HHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCH-HhHHHH
Q 027083           35 LYPLVVACSRKGFETLDSVYFQLENLSRAEPPYK-SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDI-HSYNAL  112 (228)
Q Consensus        35 ~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~-~~~~~l  112 (228)
                      +..+...+.+.|  +...+...+.+.....|..| ....+..+-.++.+.|++++|...|++..+...-.|.. ..+-.+
T Consensus         7 ~~~~a~~~~~~g--~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~   84 (225)
T 2yhc_A            7 IYATAQQKLQDG--NWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMR   84 (225)
T ss_dssp             HHHHHHHHHHHT--CHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHcC--CHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHH
Confidence            445566777777  45555555555554433222 23567778889999999999999999998742112221 123223


Q ss_pred             HHHHH------------------hcCCHHHHHHHHHHHHhCCCCCcHh-hH-----------------HHHHHHHHccCC
Q 027083          113 IYAFG------------------KLKKTFEASRVFEHLVSLGVKPNAM-SY-----------------SLLVDAHLTNRD  156 (228)
Q Consensus       113 i~~~~------------------~~~~~~~a~~~~~~m~~~g~~p~~~-t~-----------------~~li~~~~~~g~  156 (228)
                      -.++.                  ..|+.++|...|++..+.  .|+.. .+                 -.+-..|.+.|+
T Consensus        85 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~  162 (225)
T 2yhc_A           85 GLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGA  162 (225)
T ss_dssp             HHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCc
Confidence            33333                  357899999999999876  35433 22                 234456788999


Q ss_pred             HHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCc
Q 027083          157 QKAALSVIDEMVNAGFAPS----KETLKKVRRRCVREMDEESNDRVEALAKKFDIRM  209 (228)
Q Consensus       157 ~~~a~~~~~~m~~~g~~p~----~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~  209 (228)
                      +++|...|+++.+.-  |+    ...+..+..++.+.|+.++|...+..+...+...
T Consensus       163 ~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~  217 (225)
T 2yhc_A          163 WVAVVNRVEGMLRDY--PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNT  217 (225)
T ss_dssp             HHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCC
T ss_pred             HHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCc
Confidence            999999999988642  33    2567788899999999999999999888876543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.29  E-value=6.7e-05  Score=60.54  Aligned_cols=198  Identities=10%  Similarity=-0.053  Sum_probs=130.7

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHH-HHHHhchhhcC-CCCCCHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSV-YFQLENLSRAE-PPYKSVAAINCVIL   78 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~-~~~~~~~~~~~-~~~~~~~~~~~ll~   78 (228)
                      .|+.++|...+++..+........   ......+++.+-..|...|+.+.+.. +.......... .+.....+++.+=.
T Consensus       154 ~~~~~~A~~~~~~al~~~~~~~~~---~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~  230 (378)
T 3q15_A          154 MKQTHVSMYHILQALDIYQNHPLY---SIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIAN  230 (378)
T ss_dssp             TTCHHHHHHHHHHHHHHHHTSTTC---HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCcHHHHHHHHHHHHHHHhCCCc---hhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            377888888888876664322210   00113467888899999885333322 22222222211 11113456777888


Q ss_pred             HHHHcCCHHHHHHHHHHHhhc---CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CCCcHhhHHHHHHHH
Q 027083           79 GCANIWDLDRAYQTFEAVGSS---FGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLG----VKPNAMSYSLLVDAH  151 (228)
Q Consensus        79 ~~~~~~~~~~a~~~~~~m~~~---~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g----~~p~~~t~~~li~~~  151 (228)
                      .|...|+.++|...|++...-   .+......++..+-..|.+.|++++|...+++..+..    -......++.+-..+
T Consensus       231 ~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly  310 (378)
T 3q15_A          231 SYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVY  310 (378)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            888999999999999987750   0122236678888899999999999999999976542    222344566777777


Q ss_pred             HccCC---HHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          152 LTNRD---QKAALSVIDEMVNAGFAPSK-ETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       152 ~~~g~---~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      ...|+   .++|...+++   .+..|+. ..+..+-..|...|+.++|...+....+
T Consensus       311 ~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          311 KETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             SSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            78888   6666666654   4444443 5566677889999999999999888765

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.28  E-value=7.5e-05  Score=56.88  Aligned_cols=158  Identities=10%  Similarity=-0.026  Sum_probs=110.2

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCC-CHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYK-SVAAINCVILG   79 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ll~~   79 (228)
                      .|++++|...|++..+.....+.       ....+..+-.+|.+.|+  ...+...+.+.....|..| ....+..+-.+
T Consensus        28 ~g~~~~A~~~~~~~l~~~p~~~~-------~~~a~~~lg~~~~~~~~--~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~   98 (261)
T 3qky_A           28 QGKYDRAIEYFKAVFTYGRTHEW-------AADAQFYLARAYYQNKE--YLLAASEYERFIQIYQIDPRVPQAEYERAMC   98 (261)
T ss_dssp             TTCHHHHHHHHHHHGGGCSCSTT-------HHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCTTCTTHHHHHHHHHHH
T ss_pred             hCCHHHHHHHHHHHHHhCCCCcc-------hHHHHHHHHHHHHHhCc--HHHHHHHHHHHHHHCCCCchhHHHHHHHHHH
Confidence            47899999999998776321110       02456778888999884  5555555555554433222 24556666677


Q ss_pred             HHH--------cCCHHHHHHHHHHHhhcCCCCCC-HHhH-----------------HHHHHHHHhcCCHHHHHHHHHHHH
Q 027083           80 CAN--------IWDLDRAYQTFEAVGSSFGLTPD-IHSY-----------------NALIYAFGKLKKTFEASRVFEHLV  133 (228)
Q Consensus        80 ~~~--------~~~~~~a~~~~~~m~~~~~~~p~-~~~~-----------------~~li~~~~~~~~~~~a~~~~~~m~  133 (228)
                      +..        .|+.++|...|++..+.   .|+ ....                 -.+-..|.+.|++++|...|++..
T Consensus        99 ~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l  175 (261)
T 3qky_A           99 YYKLSPPYELDQTDTRKAIEAFQLFIDR---YPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVF  175 (261)
T ss_dssp             HHHHCCCTTSCCHHHHHHHHHHHHHHHH---CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhcccccccchhHHHHHHHHHHHHHH---CcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            777        89999999999999874   233 2233                 344678899999999999999988


Q ss_pred             hCCCCC--cHhhHHHHHHHHHcc----------CCHHHHHHHHHHHHHC
Q 027083          134 SLGVKP--NAMSYSLLVDAHLTN----------RDQKAALSVIDEMVNA  170 (228)
Q Consensus       134 ~~g~~p--~~~t~~~li~~~~~~----------g~~~~a~~~~~~m~~~  170 (228)
                      +.....  ....+..+-.+|...          |++++|...+++..+.
T Consensus       176 ~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          176 DAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            753211  245677777778765          8899999999998864

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.25  E-value=0.00011  Score=48.86  Aligned_cols=120  Identities=9%  Similarity=-0.022  Sum_probs=96.2

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 027083          105 DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRR  184 (228)
Q Consensus       105 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~  184 (228)
                      +...+..+-..+...|++++|...|++..+.. ..+...|..+-..+...|++++|.+.+++..... ..+...+..+-.
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            45677888889999999999999999987753 3478889999999999999999999999887643 235778888889


Q ss_pred             HHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhhc
Q 027083          185 RCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASY  227 (228)
Q Consensus       185 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~~  227 (228)
                      .+...|+++.|...+....+..-. +...+..+...+...+++
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELDPD-NETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTTC
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHhcC
Confidence            999999999999999998886532 455566666666555543

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.25  E-value=2.5e-05  Score=52.17  Aligned_cols=110  Identities=11%  Similarity=0.140  Sum_probs=72.9

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCc----HhhH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGV--KPN----AMSY  144 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~p~----~~t~  144 (228)
                      ..|..+-..+...|+++.|...|++....  .+.+...+..+-..|.+.|++++|...+++..+...  .++    ..+|
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            45666667777778888888888877663  234566677777777788888888887777655421  111    5667


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 027083          145 SLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRR  184 (228)
Q Consensus       145 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~  184 (228)
                      ..+-.++.+.|++++|.+.|++..+.  .|+......+-.
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~  120 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQ  120 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHH
Confidence            77777777777788877777776653  345544444433

>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=98.24  E-value=0.00031  Score=51.43  Aligned_cols=128  Identities=8%  Similarity=-0.117  Sum_probs=100.7

Q ss_pred             HHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHH
Q 027083           35 LYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIY  114 (228)
Q Consensus        35 ~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  114 (228)
                      +..+-..+.+.|  +...+...+.+..     .|+...|..+-..+...|+.++|...|++....  .+.+...|..+-.
T Consensus         9 ~~~~g~~~~~~~--~~~~A~~~~~~a~-----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~   79 (213)
T 1hh8_A            9 LWNEGVLAADKK--DWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGM   79 (213)
T ss_dssp             HHHHHHHHHHTT--CHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhC--CHHHHHHHHHHHc-----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHH
Confidence            445666777777  4555555555442     237789999999999999999999999998873  2446778899999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCC--------------C-cHhhHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 027083          115 AFGKLKKTFEASRVFEHLVSLGVK--------------P-NAMSYSLLVDAHLTNRDQKAALSVIDEMVNAG  171 (228)
Q Consensus       115 ~~~~~~~~~~a~~~~~~m~~~g~~--------------p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  171 (228)
                      .|.+.|++++|...|++..+....              | +...+..+-.++.+.|++++|.+.|+...+..
T Consensus        80 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           80 LYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            999999999999999998875321              1 23678888899999999999999999888654

>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=98.23  E-value=3e-05  Score=54.30  Aligned_cols=118  Identities=10%  Similarity=0.041  Sum_probs=73.8

Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPD-IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAA  160 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  160 (228)
                      ..|+++.|...+.....   ..|+ ...+-.+-..|.+.|++++|.+.|++..+.. +-+...|..+-.+|.+.|++++|
T Consensus         9 ~~~~~e~ai~~~~~a~~---~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A   84 (150)
T 4ga2_A            9 SKADVERYIASVQGSTP---SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKA   84 (150)
T ss_dssp             CHHHHHHHHHHHHHHSC---SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HcChHHHHHHHHHHhcc---cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHH
Confidence            34566677766666543   2333 2344455567777777777777777766553 22566777777777777777777


Q ss_pred             HHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhhHHHH-HHHHHHc
Q 027083          161 LSVIDEMVNAGFAP-SKETLKKVRRRCVREMDEESNDRV-EALAKKF  205 (228)
Q Consensus       161 ~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~-~~~m~~~  205 (228)
                      ...|++..+.  .| +...|..+-..+.+.|+.+++... ++...+.
T Consensus        85 ~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l  129 (150)
T 4ga2_A           85 VECYRRSVEL--NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL  129 (150)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh
Confidence            7777776653  34 356666677777777776655443 4555543

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.22  E-value=0.00016  Score=47.18  Aligned_cols=98  Identities=15%  Similarity=-0.014  Sum_probs=67.0

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHH
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVD  149 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~  149 (228)
                      ...+..+-..+...|++++|...|++....  .+.+...+..+-..+.+.|++++|...+++..+.. ..+...+..+-.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            445666666777777888888777777652  22355666777777777777777777777766553 224666777777


Q ss_pred             HHHccCCHHHHHHHHHHHHHC
Q 027083          150 AHLTNRDQKAALSVIDEMVNA  170 (228)
Q Consensus       150 ~~~~~g~~~~a~~~~~~m~~~  170 (228)
                      ++...|++++|.+.+++..+.
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHhhHHHHHHHHHHHHHc
Confidence            777777777777777766643

>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=98.21  E-value=0.00011  Score=64.26  Aligned_cols=178  Identities=13%  Similarity=-0.001  Sum_probs=127.5

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|+.++|+..+++..+..-  .......+.....+..+..++.+.|+  ..++...+.+.....+.  +...|..+=.++
T Consensus       404 ~~~~~~A~~~~~~al~~~~--~~~~~~~p~~~~~~~~~a~~~~~~g~--~~~A~~~~~~al~~~p~--~~~a~~~lg~~~  477 (681)
T 2pzi_A          404 LSQPVQTLDSLRAARHGAL--DADGVDFSESVELPLMEVRALLDLGD--VAKATRKLDDLAERVGW--RWRLVWYRAVAE  477 (681)
T ss_dssp             TCCHHHHHHHHHHHHTC---------CCTTCSHHHHHHHHHHHHHTC--HHHHHHHHHHHHHHHCC--CHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHhhhhcc--cccccccccchhHHHHHHHHHHhcCC--HHHHHHHHHHHhccCcc--hHHHHHHHHHHH
Confidence            3678888888888761100  00000112235568888889999994  55555555555444443  778888888999


Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHH
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKA  159 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~  159 (228)
                      ...|++++|...|++..+.   .| +...|..+-.+|.+.|++++ ...|++..+... -+...|..+-.++.+.|+.++
T Consensus       478 ~~~g~~~~A~~~~~~al~l---~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~  552 (681)
T 2pzi_A          478 LLTGDYDSATKHFTEVLDT---FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTND-GVISAAFGLARARSAEGDRVG  552 (681)
T ss_dssp             HHHTCHHHHHHHHHHHHHH---STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCC-chHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999998873   34 56678888899999999999 999999887642 367789999999999999999


Q ss_pred             HHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCC
Q 027083          160 ALSVIDEMVNAGFAPS-KETLKKVRRRCVREMD  191 (228)
Q Consensus       160 a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~  191 (228)
                      |.+.|++..+  +.|+ ...+..+..++...+.
T Consensus       553 A~~~~~~al~--l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          553 AVRTLDEVPP--TSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHHHTSCT--TSTTHHHHHHHHHHHTC----
T ss_pred             HHHHHHhhcc--cCcccHHHHHHHHHHHHccCC
Confidence            9999986654  4566 4566666666655554

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.21  E-value=0.00012  Score=51.10  Aligned_cols=129  Identities=10%  Similarity=-0.058  Sum_probs=97.1

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNAL  112 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  112 (228)
                      ..+..+-..+.+.|  +...+...+.+.....+.  +..++..+-..+...|++++|...+++..+.  .+.+...|..+
T Consensus        14 ~~~~~~a~~~~~~~--~~~~A~~~~~~al~~~~~--~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~   87 (166)
T 1a17_A           14 EELKTQANDYFKAK--DYENAIKFYSQAIELNPS--NAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRR   87 (166)
T ss_dssp             HHHHHHHHHHHHTT--CHHHHHHHHHHHHHHSTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHcc--CHHHHHHHHHHHHHhCCC--ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHH
Confidence            45677788888888  455555555554444443  6788888999999999999999999998873  23467788889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhH--HHHHHHHHccCCHHHHHHHHHHHH
Q 027083          113 IYAFGKLKKTFEASRVFEHLVSLGVKPNAMSY--SLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       113 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~--~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      -..+.+.|++++|...|++..+... .+...+  -.+...+.+.|++++|.+.+....
T Consensus        88 a~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           88 AASNMALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            9999999999999999999877542 244444  334444778899999999887654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.20  E-value=0.00033  Score=52.19  Aligned_cols=156  Identities=12%  Similarity=0.106  Sum_probs=106.6

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCH-HHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSV-AAINCVILGC   80 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ll~~~   80 (228)
                      |++++|...|+++.+.......       ....+..+..+|.+.|+  ...+...+.+.....|..+.. ..+-.+-.++
T Consensus        18 g~~~~A~~~~~~~~~~~p~~~~-------~~~a~~~lg~~~~~~~~--~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~   88 (225)
T 2yhc_A           18 GNWRQAITQLEALDNRYPFGPY-------SQQVQLDLIYAYYKNAD--LPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTN   88 (225)
T ss_dssp             TCHHHHHHHHHHHHHHCTTSTT-------HHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCChH-------HHHHHHHHHHHHHhcCC--HHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHH
Confidence            7899999999998876321110       11356778889999884  555555555555444432232 1232222333


Q ss_pred             HH------------------cCCHHHHHHHHHHHhhcCCCCCCHH-hH-----------------HHHHHHHHhcCCHHH
Q 027083           81 AN------------------IWDLDRAYQTFEAVGSSFGLTPDIH-SY-----------------NALIYAFGKLKKTFE  124 (228)
Q Consensus        81 ~~------------------~~~~~~a~~~~~~m~~~~~~~p~~~-~~-----------------~~li~~~~~~~~~~~  124 (228)
                      ..                  .|+.++|...|++..+.   .|+.. .+                 -.+-..|.+.|++++
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~  165 (225)
T 2yhc_A           89 MALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG---YPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVA  165 (225)
T ss_dssp             HHHHC--------------CCHHHHHHHHHHHHHHTT---CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH---CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHH
Confidence            32                  57899999999999874   34432 22                 234456889999999


Q ss_pred             HHHHHHHHHhCCCCCcH----hhHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 027083          125 ASRVFEHLVSLGVKPNA----MSYSLLVDAHLTNRDQKAALSVIDEMVNAG  171 (228)
Q Consensus       125 a~~~~~~m~~~g~~p~~----~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  171 (228)
                      |...|+++.+.  .|+.    ..+..+..++.+.|+.++|.+.++.+...+
T Consensus       166 A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          166 VVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            99999998875  3442    568889999999999999999999887654

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.19  E-value=0.00019  Score=52.93  Aligned_cols=134  Identities=14%  Similarity=0.064  Sum_probs=81.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHH
Q 027083           73 INCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHL  152 (228)
Q Consensus        73 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~  152 (228)
                      .+.+-..+...|+.++|...|++..+.  -+-+...+..+-..|...|++++|...|++..+.. +-+...|..+-..|.
T Consensus        57 ~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~  133 (208)
T 3urz_A           57 ATELALAYKKNRNYDKAYLFYKELLQK--APNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYY  133 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            344556677788888888888887763  12345677777778888888888888888877653 225666777766665


Q ss_pred             ccCCH--HHHHHHHHHHHHCCCCCCHHH--HHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHH
Q 027083          153 TNRDQ--KAALSVIDEMVNAGFAPSKET--LKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRK  215 (228)
Q Consensus       153 ~~g~~--~~a~~~~~~m~~~g~~p~~~t--~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~  215 (228)
                      ..|..  +.+...++..    ..|+...  +...-.++...|+.++|...++...+.  .|+.+...
T Consensus       134 ~~~~~~~~~~~~~~~~~----~~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~  194 (208)
T 3urz_A          134 LTAEQEKKKLETDYKKL----SSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQK  194 (208)
T ss_dssp             HHHHHHHHHHHHHHC-------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHH
T ss_pred             HHhHHHHHHHHHHHHHH----hCCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHH
Confidence            55432  3334444333    2344332  222333445567788888888777654  45544443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.19  E-value=0.00016  Score=48.38  Aligned_cols=102  Identities=11%  Similarity=-0.072  Sum_probs=87.0

Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 027083          103 TPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKV  182 (228)
Q Consensus       103 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l  182 (228)
                      ..+...+..+-..+.+.|++++|...|++..+.. ..+...+..+-.++...|++++|.+.+++..+.. ..+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            4456678888899999999999999999988764 2378889999999999999999999999988643 2357888888


Q ss_pred             HHHHHhcCChhhHHHHHHHHHHcC
Q 027083          183 RRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       183 i~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      -..+.+.|++++|...+....+..
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~  114 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLD  114 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC
Confidence            899999999999999999988754

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.18  E-value=3.7e-05  Score=54.92  Aligned_cols=98  Identities=8%  Similarity=0.075  Sum_probs=49.2

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHH-HHhcCCH--HHHHHHHHHHHhCCCCCcHhhHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYA-FGKLKKT--FEASRVFEHLVSLGVKPNAMSYS  145 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~-~~~~~~~--~~a~~~~~~m~~~g~~p~~~t~~  145 (228)
                      +...|..+-..|...|+.++|...|++..+.  ...+...+..+-.. |.+.|++  ++|...|++..+.. ..+...+.
T Consensus        43 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~  119 (177)
T 2e2e_A           43 NSEQWALLGEYYLWQNDYSNSLLAYRQALQL--RGENAELYAALATVLYYQASQHMTAQTRAMIDKALALD-SNEITALM  119 (177)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCSCHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhC-CCcHHHHH
Confidence            4445555555555555555555555555442  11233344444444 4455555  55555555554432 12344455


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHH
Q 027083          146 LLVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       146 ~li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      .+-..+...|++++|...+++..+
T Consensus       120 ~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          120 LLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHh
Confidence            555555555555555555555444

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.16  E-value=0.00033  Score=54.38  Aligned_cols=184  Identities=10%  Similarity=0.018  Sum_probs=115.9

Q ss_pred             hHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHhhcC--CCCCC--
Q 027083           34 SLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSV----AAINCVILGCANIWDLDRAYQTFEAVGSSF--GLTPD--  105 (228)
Q Consensus        34 ~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--~~~p~--  105 (228)
                      .+...+..+...|+  ...+...+.+.....+..++.    ..+..+-..+...|+.++|...+++.....  ...+.  
T Consensus        77 ~l~~~~~~~~~~~~--y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           77 QFKDQVIMLCKQKR--YKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHTTC--HHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHhhh--HHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            34455666666663  444444333333222221111    223334455667789999999999876421  11122  


Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHh---C-CCCC--cHhhHHHHHHHHHccCCHHHHHHHHHHHHHC----CCCCC
Q 027083          106 IHSYNALIYAFGKLKKTFEASRVFEHLVS---L-GVKP--NAMSYSLLVDAHLTNRDQKAALSVIDEMVNA----GFAPS  175 (228)
Q Consensus       106 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~-g~~p--~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~  175 (228)
                      ..+|+.+-..|...|++++|...|++..+   . +-.+  ...+|+.+-..|.+.|++++|.+.+++..+.    +..+.
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            44888888999999999999999998752   2 1111  2258888999999999999999999886532    22222


Q ss_pred             -HHHHHHHHHHHHhcCChhhH-HHHHHHHH----HcCCCcchhhHHHHHH
Q 027083          176 -KETLKKVRRRCVREMDEESN-DRVEALAK----KFDIRMNTENRKNILF  219 (228)
Q Consensus       176 -~~t~~~li~~~~~~~~~~~a-~~~~~~m~----~~g~~~~~~~~~~li~  219 (228)
                       ..+|..+-..+.+.|+.++| ...+....    ..+-..-...+..+|.
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~~~~~~~~~~~~~~~~~~~  284 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKASFFFDILEMHAYKEALVNKIS  284 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhCcHhhHHHHHHHHH
Confidence             57778888889999999999 66555443    3444444444444443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.16  E-value=0.00017  Score=48.90  Aligned_cols=95  Identities=11%  Similarity=-0.002  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHH
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAH  151 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~  151 (228)
                      .+...=..|.+.|++++|...|++..+.  -+.+...|..+-.+|.+.|++++|...|++..+.. ..+...|..+-.++
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~   91 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHH
Confidence            3444444455555555555555554431  12234445555555555555555555555544432 12344455555555


Q ss_pred             HccCCHHHHHHHHHHHHH
Q 027083          152 LTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       152 ~~~g~~~~a~~~~~~m~~  169 (228)
                      ...|++++|.+.|++..+
T Consensus        92 ~~~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQ  109 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            555555555555554443

>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=98.15  E-value=0.0001  Score=52.74  Aligned_cols=150  Identities=8%  Similarity=0.008  Sum_probs=103.9

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHH-
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILG-   79 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~-   79 (228)
                      .|++++|...+++..+..          +.....+..+-..+.+.|  +..++...+.+.....+   +...+..+-.. 
T Consensus        19 ~g~~~~A~~~~~~al~~~----------P~~~~a~~~la~~~~~~g--~~~~A~~~~~~a~~~~p---~~~~~~~~~~~~   83 (176)
T 2r5s_A           19 QGEHAQALNVIQTLSDEL----------QSRGDVKLAKADCLLETK--QFELAQELLATIPLEYQ---DNSYKSLIAKLE   83 (176)
T ss_dssp             TTCHHHHHHHHHTSCHHH----------HTSHHHHHHHHHHHHHTT--CHHHHHHHHTTCCGGGC---CHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHC----------CCcHHHHHHHHHHHHHCC--CHHHHHHHHHHhhhccC---ChHHHHHHHHHH
Confidence            377888888887765542          223456788889999999  46666666666554443   33333222111 


Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-cHhhHHHHHHHHHccCCH
Q 027083           80 CANIWDLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKP-NAMSYSLLVDAHLTNRDQ  157 (228)
Q Consensus        80 ~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~  157 (228)
                      +...++...+...+++..+.   .| +...+..+-..+.+.|++++|...|++..+....+ +...+..+...+...|+.
T Consensus        84 ~~~~~~~~~a~~~~~~al~~---~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~  160 (176)
T 2r5s_A           84 LHQQAAESPELKRLEQELAA---NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQG  160 (176)
T ss_dssp             HHHHHTSCHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSS
T ss_pred             HHhhcccchHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCC
Confidence            12222333467888887763   35 47788889999999999999999999998764332 356899999999999999


Q ss_pred             HHHHHHHHHHH
Q 027083          158 KAALSVIDEMV  168 (228)
Q Consensus       158 ~~a~~~~~~m~  168 (228)
                      ++|...|++..
T Consensus       161 ~~A~~~y~~al  171 (176)
T 2r5s_A          161 NAIASKYRRQL  171 (176)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CcHHHHHHHHH
Confidence            99999887654

>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=98.15  E-value=0.00012  Score=56.95  Aligned_cols=131  Identities=6%  Similarity=-0.080  Sum_probs=100.2

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHH----hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-Cc----HhhH
Q 027083           74 NCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIH----SYNALIYAFGKLKKTFEASRVFEHLVSLGVK-PN----AMSY  144 (228)
Q Consensus        74 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~----~~t~  144 (228)
                      ...+..+...|+.++|..++++........|+..    .+..+...+...+++++|...|++....... ++    ..+|
T Consensus        79 ~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 3u3w_A           79 KDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHH
Confidence            3346778899999999999999887433445532    3445667778888999999999998874322 23    3369


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHH----C-CCCCCH-HHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          145 SLLVDAHLTNRDQKAALSVIDEMVN----A-GFAPSK-ETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       145 ~~li~~~~~~g~~~~a~~~~~~m~~----~-g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      +.+-..|...|++++|.+.+++..+    . +..|.. .++..+-..|...|++++|...+....+
T Consensus       159 ~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~  224 (293)
T 3u3w_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIE  224 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            9999999999999999999998773    2 223332 4778888899999999999998887765

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.15  E-value=0.00019  Score=52.95  Aligned_cols=130  Identities=15%  Similarity=0.118  Sum_probs=64.3

Q ss_pred             HHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHH
Q 027083           38 LVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAF  116 (228)
Q Consensus        38 ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~  116 (228)
                      +-.+|.+.|  +...+...+.+.....|.  +...+..+-..+...|+.++|...|++..+.   .| +...|..+-..|
T Consensus        60 lg~~~~~~g--~~~~A~~~~~~al~~~p~--~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~  132 (208)
T 3urz_A           60 LALAYKKNR--NYDKAYLFYKELLQKAPN--NVDCLEACAEMQVCRGQEKDALRMYEKILQL---EADNLAANIFLGNYY  132 (208)
T ss_dssp             HHHHHHHTT--CHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCC--CHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHH
Confidence            555566655  344444444444443333  5566666666666666666666666666552   23 344555555555


Q ss_pred             HhcCC--HHHHHHHHHHHHhCCCCCcHh--hHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 027083          117 GKLKK--TFEASRVFEHLVSLGVKPNAM--SYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLK  180 (228)
Q Consensus       117 ~~~~~--~~~a~~~~~~m~~~g~~p~~~--t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~  180 (228)
                      ...|.  .+.+...++...    .|+..  .+..+-.++...|+.++|...|++..+  +.|+.....
T Consensus       133 ~~~~~~~~~~~~~~~~~~~----~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~  194 (208)
T 3urz_A          133 YLTAEQEKKKLETDYKKLS----SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQK  194 (208)
T ss_dssp             HHHHHHHHHHHHHHHC-------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHh----CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHH
Confidence            44432  233344444332    23322  222233334445666666666665554  345544333

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.14  E-value=0.00012  Score=58.29  Aligned_cols=129  Identities=15%  Similarity=0.027  Sum_probs=106.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC----------------HHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD----------------IHSYNALIYAFGKLKKTFEASRVFEHL  132 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~----------------~~~~~~li~~~~~~~~~~~a~~~~~~m  132 (228)
                      +...+..+=..+.+.|++++|...|++....   .|+                ...|..+-.+|.+.|++++|...|++.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~a  222 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSW---LEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKA  222 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---TTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---hhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4557777888889999999999999998873   233                478999999999999999999999998


Q ss_pred             HhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhhHH-HHHHHHH
Q 027083          133 VSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAP-SKETLKKVRRRCVREMDEESND-RVEALAK  203 (228)
Q Consensus       133 ~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~-~~~~~m~  203 (228)
                      .+.. ..+...|..+-.+|...|++++|.+.|++..+.  .| +...+..+-.++.+.|+.+++. .++..|.
T Consensus       223 l~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          223 LELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8764 347888999999999999999999999988764  34 5678888888888889988884 4555554

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.13  E-value=8.6e-05  Score=48.05  Aligned_cols=95  Identities=15%  Similarity=0.008  Sum_probs=43.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHH
Q 027083          109 YNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFA-PSKETLKKVRRRCV  187 (228)
Q Consensus       109 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~t~~~li~~~~  187 (228)
                      +..+-..+.+.|++++|...|++..+.. ..+...|..+-..+...|++++|.+.+++..+..-. .+...+..+...+.
T Consensus         9 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~~~   87 (112)
T 2kck_A            9 YYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADALR   87 (112)
T ss_dssp             GGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHHHH
Confidence            3344444444555555555554444332 123444444444455555555555555544432100 02444444444555


Q ss_pred             hc-CChhhHHHHHHHHHH
Q 027083          188 RE-MDEESNDRVEALAKK  204 (228)
Q Consensus       188 ~~-~~~~~a~~~~~~m~~  204 (228)
                      .. |+.++|.+.+....+
T Consensus        88 ~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           88 YIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             TCSSCSHHHHHHHHHHGG
T ss_pred             HHhCCHHHHHHHHHHHhh
Confidence            55 555555555554444

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.12  E-value=0.00015  Score=48.32  Aligned_cols=115  Identities=9%  Similarity=-0.016  Sum_probs=91.6

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCC--CCCC----HHHH
Q 027083          106 IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAG--FAPS----KETL  179 (228)
Q Consensus       106 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~----~~t~  179 (228)
                      ...|..+-..+...|++++|...|++..+.. ..+...+..+-..+...|++++|...+++.....  ..++    ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            4567788889999999999999999987764 3477889999999999999999999999887542  1233    6788


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHh
Q 027083          180 KKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEY  223 (228)
Q Consensus       180 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~  223 (228)
                      ..+-..+...|+++.|...+....+..  |+......+-.....
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~  124 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEH--RTPDVLKKCQQAEKI  124 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHH
Confidence            888899999999999999999998865  455555555444443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.12  E-value=0.00014  Score=56.67  Aligned_cols=154  Identities=8%  Similarity=-0.029  Sum_probs=117.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +...+..+-..+...|+.++|...|++....  -+-+...+..+-..|.+.|++++|...+++....  .|+........
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~  191 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVA  191 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHH
Confidence            4556666667788999999999999999873  2235667888889999999999999999988665  45554333333


Q ss_pred             H-HHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCC-cchhhHHHHHHHHHhhhh
Q 027083          149 D-AHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIR-MNTENRKNILFNLEYSAS  226 (228)
Q Consensus       149 ~-~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~l~~~~~  226 (228)
                      . .+.+.++.+.|.+.+++..... ..+...+..+-..+...|+.++|...+..+.+..-. .+...+..+...+..+++
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~  270 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGT  270 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCT
T ss_pred             HHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCC
Confidence            2 3566777788888888877643 235788888999999999999999999999987543 236678888888777665


Q ss_pred             c
Q 027083          227 Y  227 (228)
Q Consensus       227 ~  227 (228)
                      +
T Consensus       271 ~  271 (287)
T 3qou_A          271 G  271 (287)
T ss_dssp             T
T ss_pred             C
Confidence            4

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.12  E-value=0.00019  Score=48.62  Aligned_cols=103  Identities=16%  Similarity=0.061  Sum_probs=83.1

Q ss_pred             CCCCH-HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 027083          102 LTPDI-HSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLK  180 (228)
Q Consensus       102 ~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~  180 (228)
                      +.|+. ..+...=..|.+.|++++|...|++..+.. +.+...|..+-.+|.+.|++++|++.+++..+.. ..+...|.
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~   85 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYI   85 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHH
Confidence            44543 356677778999999999999999987664 3478888999999999999999999999877643 23567888


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          181 KVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       181 ~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      .+-.++...|++++|...++...+..
T Consensus        86 ~lg~~~~~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           86 RKAACLVAMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            88889999999999999999888854

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.11  E-value=0.00016  Score=49.02  Aligned_cols=98  Identities=9%  Similarity=-0.026  Sum_probs=75.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +...|..+-..+...|++++|...|++....  .+.+...|..+-.+|.+.|++++|...+++..+.. ..+...|..+-
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            6677777788888888888888888887763  23346677888888888888888888888877654 23567788888


Q ss_pred             HHHHccCCHHHHHHHHHHHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      .++...|++++|.+.|++...
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            888888888888888877664

>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=98.10  E-value=0.00027  Score=55.44  Aligned_cols=188  Identities=15%  Similarity=0.031  Sum_probs=116.2

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhCh-hcHHHHHHHHhchhhcC-CCCCCHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGF-ETLDSVYFQLENLSRAE-PPYKSVAAINCVILG   79 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~-~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ll~~   79 (228)
                      |++++|...+.+..+......+.    .....+|+.+...|.+.|+ ......+.....+.... .+..-..+++.+-..
T Consensus        50 g~~~~A~~~~~~al~~~~~~~~~----~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~  125 (307)
T 2ifu_A           50 KQLEQAKDAYLQEAEAHANNRSL----FHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKL  125 (307)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCH----HHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCH----HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            56666666666655543211110    0113467888888888885 23333333222222111 111124567777777


Q ss_pred             HHHcCCHHHHHHHHHHHhhc---CCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCc-HhhHHHHHHH
Q 027083           80 CANIWDLDRAYQTFEAVGSS---FGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSL----GVKPN-AMSYSLLVDA  150 (228)
Q Consensus        80 ~~~~~~~~~a~~~~~~m~~~---~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~-~~t~~~li~~  150 (228)
                      |.. |++++|...|++...-   .+-.+ ...+++.+-..|.+.|++++|...|++..+.    +..++ ..++..+..+
T Consensus       126 ~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~  204 (307)
T 2ifu_A          126 MEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLV  204 (307)
T ss_dssp             HTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHH
Confidence            877 9999999999987642   01111 1467888899999999999999999987653    22222 2367777788


Q ss_pred             HHccCCHHHHHHHHHHHHHCCCCCC------HHHHHHHHHHHHhcCChhhHHHH
Q 027083          151 HLTNRDQKAALSVIDEMVNAGFAPS------KETLKKVRRRCVREMDEESNDRV  198 (228)
Q Consensus       151 ~~~~g~~~~a~~~~~~m~~~g~~p~------~~t~~~li~~~~~~~~~~~a~~~  198 (228)
                      +...|++++|...|++.. .  .|+      ......++.++ ..|+.+....+
T Consensus       205 ~~~~g~~~~A~~~~~~al-~--~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          205 QLHRADYVAAQKCVRESY-S--IPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHTTCHHHHHHHHHHHT-T--STTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHh-C--CCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            888899999999999877 3  332      12344555555 56776666554

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.08  E-value=0.0012  Score=52.69  Aligned_cols=199  Identities=14%  Similarity=0.010  Sum_probs=121.7

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHH-HHHHhchhhc-CCC-CC-CHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSV-YFQLENLSRA-EPP-YK-SVAAINCVI   77 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~-~~~~~~~~~~-~~~-~~-~~~~~~~ll   77 (228)
                      |++++|...+++..+.....+..    .....+++.+-..+...|+.+.+.. +......... ..+ .| ....+..+-
T Consensus        67 g~~~~A~~~~~~al~~~~~~~~~----~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la  142 (373)
T 1hz4_A           67 GELTRSLALMQQTEQMARQHDVW----HYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRA  142 (373)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCH----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHhcCcH----HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHH
Confidence            66777777777765542211110    0012235567777888885322222 2222221111 111 01 344566677


Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcC-CCCC--CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcH-hhHH-----HHH
Q 027083           78 LGCANIWDLDRAYQTFEAVGSSF-GLTP--DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNA-MSYS-----LLV  148 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~~-~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~t~~-----~li  148 (228)
                      ..+...|++++|...+++..... ...|  ...++..+-..+...|++++|...+++..+....++. ..+.     ...
T Consensus       143 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~  222 (373)
T 1hz4_A          143 QLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRV  222 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHH
Confidence            78889999999999999876521 1111  2356778888899999999999999987653212211 1222     233


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAP---SKETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p---~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      ..+...|++++|...+++.......+   ....+..+...+...|+.++|...++....
T Consensus       223 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~  281 (373)
T 1hz4_A          223 IYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNE  281 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44778999999999998876533211   133566777888899999999988887754

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.07  E-value=6.5e-05  Score=48.66  Aligned_cols=100  Identities=10%  Similarity=-0.078  Sum_probs=79.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--cHhhHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKP--NAMSYSL  146 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p--~~~t~~~  146 (228)
                      +...+..+-..+...|+.++|...|++..+.  ...+...+..+-..+.+.|++++|...|++..+.. ..  +...+..
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~   81 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAA   81 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHH
Confidence            3345666777788889999999999988763  23456778888888999999999999999887753 22  5778888


Q ss_pred             HHHHHHcc-CCHHHHHHHHHHHHHCC
Q 027083          147 LVDAHLTN-RDQKAALSVIDEMVNAG  171 (228)
Q Consensus       147 li~~~~~~-g~~~~a~~~~~~m~~~g  171 (228)
                      +-.++.+. |++++|.+.++......
T Consensus        82 l~~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           82 KADALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHhhcc
Confidence            88899999 99999999998887653

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.06  E-value=8.3e-05  Score=53.92  Aligned_cols=137  Identities=12%  Similarity=-0.016  Sum_probs=102.2

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhh---cCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGS---SFGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSL----GVKP-  139 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~---~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-  139 (228)
                      ...++..+-..+...|++++|...+++...   +.+..| ...+++.+-..|...|++++|...+++..+.    +-.| 
T Consensus        25 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  104 (203)
T 3gw4_A           25 ASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPL  104 (203)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHH
T ss_pred             HHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHH
Confidence            677888888889999999999999998765   112222 3456778888999999999999999886543    2122 


Q ss_pred             -cHhhHHHHHHHHHccCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          140 -NAMSYSLLVDAHLTNRDQKAALSVIDEMVNA----GFAP-SKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       140 -~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                       ....+..+-..+...|++++|.+.+++....    +..+ -..++..+-..+...|+.++|...+....+.
T Consensus       105 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          105 AASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARDI  176 (203)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence             2456788888899999999999999887632    2111 1234567777888999999999888777654

>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=98.06  E-value=0.00089  Score=62.38  Aligned_cols=134  Identities=14%  Similarity=0.077  Sum_probs=108.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +..+|..+=.++.+.|++++|.+.|.+-       -|...|.-++.+|.+.|++++|.+.|....+..  +++...+.+.
T Consensus      1104 ~p~vWsqLAKAql~~G~~kEAIdsYiKA-------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~La 1174 (1630)
T 1xi4_A         1104 EPAVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELI 1174 (1630)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHhc-------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHH
Confidence            4569999999999999999999999543       377788889999999999999999998766543  4544455699


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhhc
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSASY  227 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~~  227 (228)
                      .+|++.+++++..++.    +   .|+...|..+-..|...|++++|..++...         ..|..+..++..+++|
T Consensus      1175 faYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~ 1237 (1630)
T 1xi4_A         1175 FALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEY 1237 (1630)
T ss_pred             HHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCH
Confidence            9999999988655443    1   457777888889999999999999999985         4788888888776543

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.06  E-value=9.9e-05  Score=51.52  Aligned_cols=95  Identities=9%  Similarity=-0.091  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDA  150 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  150 (228)
                      ..+..+-..+...|++++|...|++....  -+.+...|..+-.+|.+.|++++|...|++..+.. +.+...|..+-.+
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~   98 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            34444444555555666666655555442  12244445555555555566666665555554432 1234455555555


Q ss_pred             HHccCCHHHHHHHHHHHH
Q 027083          151 HLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       151 ~~~~g~~~~a~~~~~~m~  168 (228)
                      |...|++++|.+.|+...
T Consensus        99 ~~~~g~~~~A~~~~~~al  116 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQ  116 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHH
Confidence            555555555555555544

>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=98.04  E-value=0.0014  Score=48.46  Aligned_cols=171  Identities=9%  Similarity=-0.059  Sum_probs=123.9

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcC----CHHHHHHHHHHHhhcCCCCCCHH
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIW----DLDRAYQTFEAVGSSFGLTPDIH  107 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~~~~m~~~~~~~p~~~  107 (228)
                      ..++..|-..|...+  +...++..+.+.....    +...+..+=..|.. +    +.++|...|++.... |   +..
T Consensus        18 ~~a~~~lg~~~~~~~--~~~~A~~~~~~a~~~g----~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~-g---~~~   86 (212)
T 3rjv_A           18 RRAQYYLADTWVSSG--DYQKAEYWAQKAAAQG----DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEA-G---SKS   86 (212)
T ss_dssp             HHHHHHHHHHHHHHT--CHHHHHHHHHHHHHTT----CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHT-T---CHH
T ss_pred             HHHHHHHHHHHhcCC--CHHHHHHHHHHHHHcC----CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHC-C---CHH
Confidence            345667777787777  4555555555544432    45566666666666 6    899999999999773 4   566


Q ss_pred             hHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCC-CcHhhHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHH
Q 027083          108 SYNALIYAFGK----LKKTFEASRVFEHLVSLGVK-PNAMSYSLLVDAHLT----NRDQKAALSVIDEMVNAGFAPSKET  178 (228)
Q Consensus       108 ~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~-p~~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t  178 (228)
                      .+..|=..|..    .+++++|...|++..+.|.. .++..+..|=..|..    .++.++|.+.|++..+.  .++...
T Consensus        87 a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a  164 (212)
T 3rjv_A           87 GEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYA  164 (212)
T ss_dssp             HHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHH
T ss_pred             HHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHH
Confidence            77777777877    88999999999998877532 126777778777877    78999999999998876  224445


Q ss_pred             HHHHHHHHHhc-C-----ChhhHHHHHHHHHHcCCCcchhhHH
Q 027083          179 LKKVRRRCVRE-M-----DEESNDRVEALAKKFDIRMNTENRK  215 (228)
Q Consensus       179 ~~~li~~~~~~-~-----~~~~a~~~~~~m~~~g~~~~~~~~~  215 (228)
                      +..|-..|... |     +.++|...+....+.|.......+.
T Consensus       165 ~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~~A~~~l~  207 (212)
T 3rjv_A          165 EYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFDTGCEEFD  207 (212)
T ss_dssp             HHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            66666666543 3     8999999999999998765554443

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.04  E-value=0.00035  Score=46.76  Aligned_cols=96  Identities=15%  Similarity=0.074  Sum_probs=64.0

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDA  150 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  150 (228)
                      ..|..+=..+...|++++|...|++..+.  -+.+...|..+-.+|.+.|++++|...|++..+.. ..+...|..+-.+
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            34555556666777777777777777652  22345667777777777777777777777766553 2246667777777


Q ss_pred             HHccCCHHHHHHHHHHHHH
Q 027083          151 HLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       151 ~~~~g~~~~a~~~~~~m~~  169 (228)
                      +...|++++|.+.|++..+
T Consensus        82 ~~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           82 QIAVKEYASALETLDAART  100 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHH
Confidence            7777777777777776654

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.04  E-value=0.00051  Score=44.62  Aligned_cols=100  Identities=12%  Similarity=-0.020  Sum_probs=84.7

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 027083          105 DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRR  184 (228)
Q Consensus       105 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~  184 (228)
                      +...+..+...+...|++++|...|++..+.. +.+...+..+-..+...|++++|.+.+++..... ..+...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            45567888889999999999999999987754 2377888999999999999999999999887653 235788888889


Q ss_pred             HHHhcCChhhHHHHHHHHHHcC
Q 027083          185 RCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       185 ~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      ++...|+.++|...+....+..
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHhhHHHHHHHHHHHHHcC
Confidence            9999999999999999887654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.03  E-value=0.00014  Score=51.14  Aligned_cols=99  Identities=10%  Similarity=0.017  Sum_probs=66.8

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +...+..+=..+.+.|++++|...|++....  -+-+...|..+-.+|.+.|++++|...|++..+... -++..|..+-
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P-~~~~~~~~lg  111 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGK-NDYTPVFHTG  111 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS-SCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCC-CCcHHHHHHH
Confidence            4445555556666777777777777777652  123455667777777777777777777777766532 2456677777


Q ss_pred             HHHHccCCHHHHHHHHHHHHHC
Q 027083          149 DAHLTNRDQKAALSVIDEMVNA  170 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~  170 (228)
                      .+|.+.|++++|.+.|+...+.
T Consensus       112 ~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          112 QCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh
Confidence            7777777777777777776653

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.03  E-value=0.0003  Score=58.07  Aligned_cols=169  Identities=12%  Similarity=-0.061  Sum_probs=91.5

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHc-------------------CCHHHHHHH
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANI-------------------WDLDRAYQT   92 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-------------------~~~~~a~~~   92 (228)
                      ..+++.+...|.+.|.  ...+...+.+.....|.  +..++..+-.+|...                   +..+.|...
T Consensus       247 ~~~~~~lg~~~~~~~~--~~~A~~~~~~al~~~p~--~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  322 (472)
T 4g1t_A          247 TDVLRSAAKFYRRKDE--PDKAIELLKKALEYIPN--NAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAH  322 (472)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHSTT--CHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCc--hHHHHHHHHHHHHhCCC--hHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHH
Confidence            3456677777777774  44444444444443433  555555554444221                   224566666


Q ss_pred             HHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHh--hHHHHHH-HHHccCCHHHHHHHHHHHHH
Q 027083           93 FEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAM--SYSLLVD-AHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus        93 ~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~--t~~~li~-~~~~~g~~~~a~~~~~~m~~  169 (228)
                      |++....  -+.+...+..+-..|.+.|++++|...|++..+....|...  .+..+-. .....|+.++|++.+++..+
T Consensus       323 ~~~a~~~--~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~  400 (472)
T 4g1t_A          323 LKKADEA--NDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK  400 (472)
T ss_dssp             HHHHHHH--CTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH
T ss_pred             HHHHhhc--CCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            6666542  22344567777788888888999988888877654333221  1222211 23466888888887776554


Q ss_pred             CC-----------------------CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          170 AG-----------------------FAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       170 ~g-----------------------~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      ..                       -..+..+|..+-..+...|+.++|...++...+.|
T Consensus       401 i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~  460 (472)
T 4g1t_A          401 INQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESG  460 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-------------
T ss_pred             cCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            21                       12245667777777778888888888888877754

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.03  E-value=0.00078  Score=45.86  Aligned_cols=98  Identities=11%  Similarity=-0.078  Sum_probs=76.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC----HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD----IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSY  144 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~  144 (228)
                      +...+..+-..+...|++++|...|++..+   ..|+    ...|..+-..|.+.|++++|...+++..+.. ..+...|
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            667777777888888888888888888875   2455    5677777788888888888888888876653 2356777


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHC
Q 027083          145 SLLVDAHLTNRDQKAALSVIDEMVNA  170 (228)
Q Consensus       145 ~~li~~~~~~g~~~~a~~~~~~m~~~  170 (228)
                      ..+-.++...|++++|.+.|++....
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            78888888888888888888877653

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.01  E-value=0.00031  Score=47.47  Aligned_cols=100  Identities=11%  Similarity=-0.026  Sum_probs=86.2

Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 027083          104 PDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVR  183 (228)
Q Consensus       104 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li  183 (228)
                      .+...|..+-..+.+.|++++|...|++..+.. ..+...|..+-.++...|++++|...++...... ..+...+..+-
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            467788889999999999999999999987764 3367889999999999999999999999988743 23578888899


Q ss_pred             HHHHhcCChhhHHHHHHHHHHc
Q 027083          184 RRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       184 ~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      .++...|+++.|...+....+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH
Confidence            9999999999999999888764

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.00  E-value=0.00069  Score=46.16  Aligned_cols=100  Identities=9%  Similarity=-0.024  Sum_probs=85.6

Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc----HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHH
Q 027083          104 PDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN----AMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETL  179 (228)
Q Consensus       104 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  179 (228)
                      .+...+..+-..+.+.|++++|...|++..+.  .|+    ...|..+-.+|...|++++|.+.+++..... ..+...+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            35677888889999999999999999998875  466    6888999999999999999999999877642 2257788


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          180 KKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       180 ~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      ..+-.++...|+.++|...+....+..
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            888889999999999999999988754

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.99  E-value=0.0048  Score=51.40  Aligned_cols=125  Identities=10%  Similarity=0.007  Sum_probs=59.9

Q ss_pred             HHHHHHHHHHHH----cCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCcHh
Q 027083           71 AAINCVILGCAN----IWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGK----LKKTFEASRVFEHLVSLGVKPNAM  142 (228)
Q Consensus        71 ~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~  142 (228)
                      ..+..+=..|..    .++.++|...|++.... |   +...+..+-..|..    .++.++|.+.|++..+.|   +..
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~-~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~  184 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQ-G---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVW  184 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHH
Confidence            344444444444    45556666666555542 2   33344444444444    455555555555554432   344


Q ss_pred             hHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHHc
Q 027083          143 SYSLLVDAHLT----NRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVR----EMDEESNDRVEALAKKF  205 (228)
Q Consensus       143 t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a~~~~~~m~~~  205 (228)
                      .+..|-..|..    .++.++|.+.|++..+.|   +...+..+-..|..    .++.++|...+....+.
T Consensus       185 a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~  252 (490)
T 2xm6_A          185 SCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQ  252 (490)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC
Confidence            44444444444    455555555555544433   33334444444433    44455555555444443

>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=97.99  E-value=0.00021  Score=49.80  Aligned_cols=99  Identities=10%  Similarity=-0.012  Sum_probs=74.4

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 027083          106 IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRR  185 (228)
Q Consensus       106 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  185 (228)
                      ...+..+-..+.+.|++++|...|+...... ..+...|..+-.+|...|++++|.+.|++..... .-+...+..+-.+
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~   98 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            3456666777888888888888888877654 2367778888888888888888888888877643 2245677777788


Q ss_pred             HHhcCChhhHHHHHHHHHHcC
Q 027083          186 CVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       186 ~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      +...|++++|...+....+..
T Consensus        99 ~~~~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQELI  119 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC
Confidence            888888888888888777643

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=97.98  E-value=0.00039  Score=48.82  Aligned_cols=128  Identities=11%  Similarity=-0.033  Sum_probs=93.5

Q ss_pred             HHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCH
Q 027083            7 AFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDL   86 (228)
Q Consensus         7 A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~   86 (228)
                      ....+.+.....+.+.....--+.....+..+-..+.+.|+  ..++...+.+.....|.  +...|..+=.+|...|+.
T Consensus        11 ~~~~l~~~~~~~~~l~~al~l~p~~~~~~~~lg~~~~~~g~--~~eA~~~~~~al~~~P~--~~~~~~~lg~~~~~~g~~   86 (151)
T 3gyz_A           11 ISTAVIDAINSGATLKDINAIPDDMMDDIYSYAYDFYNKGR--IEEAEVFFRFLCIYDFY--NVDYIMGLAAIYQIKEQF   86 (151)
T ss_dssp             HHHHHHHHHHTSCCTGGGCCSCHHHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHCCCCHHHHhCCCHHHHHHHHHHHHHHHHcCC--HHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHHccH
Confidence            33445555556555555332222235567788888899884  56666666665555554  788999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHh
Q 027083           87 DRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAM  142 (228)
Q Consensus        87 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  142 (228)
                      ++|...|++..+- . +-+...|..+-.+|.+.|++++|...|+...+.  .||..
T Consensus        87 ~~Ai~~~~~al~l-~-P~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l--~~~~~  138 (151)
T 3gyz_A           87 QQAADLYAVAFAL-G-KNDYTPVFHTGQCQLRLKAPLKAKECFELVIQH--SNDEK  138 (151)
T ss_dssp             HHHHHHHHHHHHH-S-SSCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHH
T ss_pred             HHHHHHHHHHHhh-C-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCHH
Confidence            9999999999873 2 234667888889999999999999999998875  46654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.97  E-value=0.00024  Score=50.04  Aligned_cols=99  Identities=12%  Similarity=0.011  Sum_probs=80.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +...+..+-..+...|++++|...|++....  ..-+...|..+-.+|.+.|++++|...|++..+.. .-+...|..+-
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   86 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            5667777778888999999999999998763  23367788888889999999999999999887764 23578888888


Q ss_pred             HHHHccCCHHHHHHHHHHHHHC
Q 027083          149 DAHLTNRDQKAALSVIDEMVNA  170 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~  170 (228)
                      .+|.+.|++++|.+.|++..+.
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHh
Confidence            9999999999999999887753

>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=97.97  E-value=0.00011  Score=51.31  Aligned_cols=117  Identities=11%  Similarity=-0.046  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHH
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVD  149 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~  149 (228)
                      ...+-.+=..|.+.|+.++|.+.|++..+.  -+-+...|..+-.+|.+.|++++|...|++..+... -+...|..+-.
T Consensus        31 ~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~  107 (150)
T 4ga2_A           31 SIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEENTDKAVECYRRSVELNP-TQKDLVLKIAE  107 (150)
T ss_dssp             HTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            334555667888999999999999998873  223567888899999999999999999999887642 25778999999


Q ss_pred             HHHccCCHHHHHHH-HHHHHHCCCCC-CHHHHHHHHHHHHhcCC
Q 027083          150 AHLTNRDQKAALSV-IDEMVNAGFAP-SKETLKKVRRRCVREMD  191 (228)
Q Consensus       150 ~~~~~g~~~~a~~~-~~~m~~~g~~p-~~~t~~~li~~~~~~~~  191 (228)
                      .|.+.|+.++|.+. ++...+  +.| +..+|...-..+.+.|+
T Consensus       108 ~~~~~~~~~~aa~~~~~~al~--l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A          108 LLCKNDVTDGRAKYWVERAAK--LFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHCSSSSHHHHHHHHHHH--HSTTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHcCChHHHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHhCc
Confidence            99999998776554 566554  345 45667666666665554

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.97  E-value=0.0015  Score=50.67  Aligned_cols=132  Identities=7%  Similarity=-0.133  Sum_probs=98.4

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc--HhhHHHHHH
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN--AMSYSLLVD  149 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~t~~~li~  149 (228)
                      .+-..-..+...|+.++|.++|+.+...   .|+....-.+-..+.+.+++++|+..|+...+.. .|.  ...+..+=.
T Consensus       104 l~LayA~~L~~~g~y~eA~~~l~~~~~~---~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~  179 (282)
T 4f3v_A          104 ITMGFAACEAAQGNYADAMEALEAAPVA---GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGV  179 (282)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTSSCCT---TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHH
Confidence            3444566778999999999999998763   3655444445558899999999999998554321 111  236777778


Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCChhhHHHHHHHHHHcCC
Q 027083          150 AHLTNRDQKAALSVIDEMVNAGFAPS--KETLKKVRRRCVREMDEESNDRVEALAKKFDI  207 (228)
Q Consensus       150 ~~~~~g~~~~a~~~~~~m~~~g~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~  207 (228)
                      ++.+.|++++|++.|++.......|.  .......-.++.+.|+.++|..+++.+....-
T Consensus       180 al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P  239 (282)
T 4f3v_A          180 AAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHP  239 (282)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSC
T ss_pred             HHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            89999999999999998875444365  23455566678889999999999999988653

>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=97.97  E-value=0.00038  Score=50.62  Aligned_cols=134  Identities=12%  Similarity=-0.028  Sum_probs=94.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC--------------HHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD--------------IHSYNALIYAFGKLKKTFEASRVFEHLVSL  135 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~--------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  135 (228)
                      ...+..+-..+...|++++|...|++......-.|+              ...|..+-.+|.+.|++++|...++...+.
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  117 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI  117 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            345556667778899999999999998863111221              267888888999999999999999998776


Q ss_pred             CCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhhHH-HHHHHHHHcC
Q 027083          136 GVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAP-SKETLKKVRRRCVREMDEESND-RVEALAKKFD  206 (228)
Q Consensus       136 g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~-~~~~~m~~~g  206 (228)
                      . ..+...|..+-.+|...|++++|.+.|++..+.  .| +...+..+-.++...++.+++. ..+..+...|
T Consensus       118 ~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          118 D-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             S-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHC-------------
T ss_pred             C-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            4 346788889999999999999999999987764  34 4667777777777777666666 4455554443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.96  E-value=0.00027  Score=48.63  Aligned_cols=96  Identities=14%  Similarity=-0.044  Sum_probs=60.6

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDA  150 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  150 (228)
                      ..+..+-..+...|++++|...|++....  -+.+...|..+-.+|.+.|++++|...|+...+.. +.+...|..+-.+
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   95 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHH
Confidence            34444445566677777777777776652  12345556666667777777777777777766553 2245556666667


Q ss_pred             HHccCCHHHHHHHHHHHHH
Q 027083          151 HLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       151 ~~~~g~~~~a~~~~~~m~~  169 (228)
                      +...|++++|.+.|+....
T Consensus        96 ~~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            7777777777777766554

>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=97.95  E-value=0.0005  Score=45.97  Aligned_cols=99  Identities=9%  Similarity=-0.026  Sum_probs=83.8

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 027083          106 IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRR  185 (228)
Q Consensus       106 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  185 (228)
                      ...|..+-..+.+.|++++|...|++..+.. ..+...|..+-.++.+.|++++|.+.+++..+.. .-+...|..+-.+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            3456777788999999999999999988764 3478899999999999999999999999988643 2247788888899


Q ss_pred             HHhcCChhhHHHHHHHHHHcC
Q 027083          186 CVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       186 ~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      +...|++++|...+....+..
T Consensus        82 ~~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHhC
Confidence            999999999999999888754

>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=97.94  E-value=0.00017  Score=63.12  Aligned_cols=133  Identities=9%  Similarity=-0.080  Sum_probs=109.8

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +...+..+-..+...|+.++|...|++..+.  -.-+...|..+-.+|.+.|++++|...|++..+... -+...|..+-
T Consensus       432 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~lg  508 (681)
T 2pzi_A          432 SVELPLMEVRALLDLGDVAKATRKLDDLAER--VGWRWRLVWYRAVAELLTGDYDSATKHFTEVLDTFP-GELAPKLALA  508 (681)
T ss_dssp             CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCSHHHHHHH
T ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHHHhcc--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHH
Confidence            5678888888899999999999999998873  233567888888899999999999999999887642 2677888899


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      .++.+.|++++ .+.|++..+.. .-+...|..+-.++.+.|+.++|...++...+..
T Consensus       509 ~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~  564 (681)
T 2pzi_A          509 ATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTLDEVPPTS  564 (681)
T ss_dssp             HHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTTS
T ss_pred             HHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHHHhhcccC
Confidence            99999999999 99998877643 2256788888899999999999999998776543

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.93  E-value=0.00047  Score=48.52  Aligned_cols=101  Identities=10%  Similarity=0.013  Sum_probs=86.4

Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 027083          104 PDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVR  183 (228)
Q Consensus       104 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li  183 (228)
                      .+...+..+-..+.+.|++++|...|++..+.. .-+...|..+-.+|.+.|++++|.+.|++..+.. .-+...|..+-
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   86 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            345678888889999999999999999988764 2378889999999999999999999999988653 22478888899


Q ss_pred             HHHHhcCChhhHHHHHHHHHHcC
Q 027083          184 RRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       184 ~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      .++...|++++|...+....+..
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC
Confidence            99999999999999999888754

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.92  E-value=0.0022  Score=49.70  Aligned_cols=136  Identities=6%  Similarity=-0.089  Sum_probs=100.0

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCH----HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---CCc--
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDI----HSYNALIYAFGKLKKTFEASRVFEHLVSLGV---KPN--  140 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~---~p~--  140 (228)
                      ...+...+..+...|+.++|.+.+++........++.    ..+..+...+...|++++|...+++......   .+.  
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            3455567788889999999999999887631211211    2234455667888999999999998765321   122  


Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHH----CCCCC--CHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          141 AMSYSLLVDAHLTNRDQKAALSVIDEMVN----AGFAP--SKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       141 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p--~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      ..+|+.+-..|...|++++|.+.+++..+    .+-.+  ...++..+-..|...|++++|...+....+.
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~  225 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEI  225 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            45889999999999999999999998762    12112  1258888888999999999999999887654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.90  E-value=0.00086  Score=44.69  Aligned_cols=89  Identities=17%  Similarity=0.065  Sum_probs=58.6

Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhcCCCCCCH----HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc----HhhHHHHH
Q 027083           77 ILGCANIWDLDRAYQTFEAVGSSFGLTPDI----HSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN----AMSYSLLV  148 (228)
Q Consensus        77 l~~~~~~~~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~t~~~li  148 (228)
                      -..+...|++++|...|++..+.   .|+.    ..+..+-.+|.+.|++++|...|++..+..  |+    ...+..+-
T Consensus         9 a~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la   83 (129)
T 2xev_A            9 AFDALKNGKYDDASQLFLSFLEL---YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH---CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHH---CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHH
Confidence            34555677777777777777663   2322    355566667777777777777777766543  32    45566666


Q ss_pred             HHHHccCCHHHHHHHHHHHHHC
Q 027083          149 DAHLTNRDQKAALSVIDEMVNA  170 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~  170 (228)
                      .++.+.|++++|.+.|++....
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            7777777777777777776653

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.89  E-value=0.00036  Score=47.97  Aligned_cols=98  Identities=13%  Similarity=-0.026  Sum_probs=81.4

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 027083          107 HSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRC  186 (228)
Q Consensus       107 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~  186 (228)
                      ..+..+-..+.+.|++++|...|++..... +.+...|..+-.++.+.|++++|...|+...... .-+...+..+-.++
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHH
Confidence            345566678899999999999999988764 2477888999999999999999999999988753 23457777888899


Q ss_pred             HhcCChhhHHHHHHHHHHcC
Q 027083          187 VREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       187 ~~~~~~~~a~~~~~~m~~~g  206 (228)
                      ...|++++|...++...+..
T Consensus        97 ~~~g~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALA  116 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999887653

>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=97.89  E-value=0.00014  Score=51.78  Aligned_cols=135  Identities=10%  Similarity=0.057  Sum_probs=100.4

Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHH-HHccCCH--
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDA-HLTNRDQ--  157 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~-~~~~g~~--  157 (228)
                      ...|+.++|...+++....  .+.+...|..+-..|...|++++|...|++..+.. ..+...+..+-.+ +...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            3567888899899887763  23466788889999999999999999999987754 2366777788888 7788998  


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHH
Q 027083          158 KAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNL  221 (228)
Q Consensus       158 ~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l  221 (228)
                      ++|...+++..... .-+...+..+-..+...|+.++|...+....+..-  +......++..+
T Consensus        98 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~~~~i  158 (177)
T 2e2e_A           98 AQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLNS--PRINRTQLVESI  158 (177)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCC--TTSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCC--CCccHHHHHHHH
Confidence            99999999888653 22467788888899999999999999999887643  233333444443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.89  E-value=0.0077  Score=50.17  Aligned_cols=126  Identities=10%  Similarity=0.066  Sum_probs=61.0

Q ss_pred             HHHHHHHHHHHHH----cCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCcH
Q 027083           70 VAAINCVILGCAN----IWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGK----LKKTFEASRVFEHLVSLGVKPNA  141 (228)
Q Consensus        70 ~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~  141 (228)
                      ...+..+-..|..    .++.++|...|++.... +   +...+..+-..|..    .++.++|.+.|++..+.|   +.
T Consensus       147 ~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~-~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  219 (490)
T 2xm6_A          147 DSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQ-G---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DE  219 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CH
Confidence            3344444444444    45666666666665552 2   44455555555554    555666666655555433   33


Q ss_pred             hhHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHHc
Q 027083          142 MSYSLLVDAHLT----NRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVR----EMDEESNDRVEALAKKF  205 (228)
Q Consensus       142 ~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a~~~~~~m~~~  205 (228)
                      ..+..+-..|..    .++.++|.++|+...+.|   +...+..+-..+..    .++.++|...+....+.
T Consensus       220 ~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~  288 (490)
T 2xm6_A          220 LGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQ  288 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHc
Confidence            344444444443    455555555555544432   23333333333333    44555555555444443

>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=97.87  E-value=0.0004  Score=46.96  Aligned_cols=95  Identities=18%  Similarity=0.125  Sum_probs=43.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCc----HhhHH
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLG--VKPN----AMSYS  145 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~p~----~~t~~  145 (228)
                      .+..+=..+.+.|++++|...|++..+-  -+-+...|+.+-.+|.+.|++++|...|++..+..  ..++    ..+|.
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            3344444555555555555555555441  11233445555555555555555555555543321  0000    12333


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHH
Q 027083          146 LLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       146 ~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      .+=.++...|++++|.+.|++..
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal  110 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSL  110 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHH
Confidence            34444444555555555554433

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=97.86  E-value=0.0029  Score=52.09  Aligned_cols=133  Identities=9%  Similarity=-0.032  Sum_probs=90.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHHHh-------------------cCCHHHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAFGK-------------------LKKTFEASRV  128 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~-------------------~~~~~~a~~~  128 (228)
                      +..++..+-..|...|+.++|...+++..+.   .| +..++..+-..|..                   .+..+.|...
T Consensus       246 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  322 (472)
T 4g1t_A          246 VTDVLRSAAKFYRRKDEPDKAIELLKKALEY---IPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAH  322 (472)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCchHHHHHHHHHHHHh---CCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHH
Confidence            6677888888888889999999988888763   34 34455555444432                   1235667777


Q ss_pred             HHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHH--HHHHHHH-HHHhcCChhhHHHHHHHHHHc
Q 027083          129 FEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKE--TLKKVRR-RCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       129 ~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--t~~~li~-~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      |+...... ..+..++..+-..+...|++++|.+.|++.......|...  .+..+-. .....|+.++|...+....+.
T Consensus       323 ~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i  401 (472)
T 4g1t_A          323 LKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI  401 (472)
T ss_dssp             HHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS
T ss_pred             HHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            77766543 3456678888889999999999999999888765443321  1222221 234678899998888877664

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.85  E-value=0.00022  Score=51.59  Aligned_cols=156  Identities=11%  Similarity=-0.032  Sum_probs=101.4

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchh---hcC-CCCCCHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLS---RAE-PPYKSVAAINCV   76 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~---~~~-~~~~~~~~~~~l   76 (228)
                      .|++++|...++.+.+.   +.       ....+++.+-..+...|+  ...+...+.+..   ... .+.....+++.+
T Consensus         5 ~g~~~~A~~~~~~~~~~---~~-------~~~~~~~~l~~~~~~~g~--~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   72 (203)
T 3gw4_A            5 AHDYALAERQAQALLAH---PA-------TASGARFMLGYVYAFMDR--FDEARASFQALQQQAQKSGDHTAEHRALHQV   72 (203)
T ss_dssp             --CHHHHHHHHHHHHTS---TT-------THHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHhcCC---hH-------HHHHHHHHHHHHHHHhCc--HHHHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            37888898855554221   11       113467788888888885  333322222222   111 222245677777


Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhc---CCCCC--CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-CcHhhHHH
Q 027083           77 ILGCANIWDLDRAYQTFEAVGSS---FGLTP--DIHSYNALIYAFGKLKKTFEASRVFEHLVSL----GVK-PNAMSYSL  146 (228)
Q Consensus        77 l~~~~~~~~~~~a~~~~~~m~~~---~~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~-p~~~t~~~  146 (228)
                      -..+...|++++|...+++....   .+-.|  ....++.+-..+...|++++|...+++..+.    +-. .-..++..
T Consensus        73 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  152 (203)
T 3gw4_A           73 GMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRG  152 (203)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            78888999999999999986642   12122  2346788888999999999999999886532    211 11334678


Q ss_pred             HHHHHHccCCHHHHHHHHHHHH
Q 027083          147 LVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       147 li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      +-..+...|++++|.+.+++..
T Consensus       153 la~~~~~~g~~~~A~~~~~~al  174 (203)
T 3gw4_A          153 LGDLAQQEKNLLEAQQHWLRAR  174 (203)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCcCHHHHHHHHHHHH
Confidence            8888899999999999888765

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.84  E-value=0.00024  Score=48.92  Aligned_cols=136  Identities=12%  Similarity=-0.077  Sum_probs=97.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC----HHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-c
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD----IHSYNALIYAFGKLKKTFEASRVFEHLVSL----GVKP-N  140 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~  140 (228)
                      ..++..+-..+...|++++|...+++......-.++    ..++..+-..|...|++++|...+++..+.    +-.+ .
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   88 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVE   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHH
Confidence            346667777788889999999999887652100111    146778888899999999999999886542    1111 1


Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          141 AMSYSLLVDAHLTNRDQKAALSVIDEMVNA----GFAPS-KETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       141 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      ...+..+-..+...|++++|.+.+++..+.    +..+. ..++..+-..+...|+.++|...+....+.
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            456778888888999999999988876632    22222 356677778888899999999988876653

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.82  E-value=0.001  Score=44.31  Aligned_cols=92  Identities=17%  Similarity=0.125  Sum_probs=69.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCcH----hhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC----HHHHHHH
Q 027083          111 ALIYAFGKLKKTFEASRVFEHLVSLGVKPNA----MSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPS----KETLKKV  182 (228)
Q Consensus       111 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~t~~~l  182 (228)
                      .+-..+.+.|++++|...|++..+..  |+.    ..+..+-.++.+.|++++|...|++..+..  |+    ...+..+
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~l   82 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHH
Confidence            34456778888999998888887653  333    367777788888899999988888877643  33    5666777


Q ss_pred             HHHHHhcCChhhHHHHHHHHHHcC
Q 027083          183 RRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       183 i~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      -.++...|+.++|...++.+.+..
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC
Confidence            778888899999988888887754

>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=97.81  E-value=0.00078  Score=45.48  Aligned_cols=107  Identities=11%  Similarity=0.014  Sum_probs=78.1

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHC--CCCCC----HHHHH
Q 027083          107 HSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNA--GFAPS----KETLK  180 (228)
Q Consensus       107 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~----~~t~~  180 (228)
                      ..+..+=..+.+.|++++|...|++..+.. +-+...|+.+-.+|.+.|++++|++.+++..+.  ...++    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            356667778888999999999998887654 235777888888899999999999888887642  12222    24566


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHH
Q 027083          181 KVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKN  216 (228)
Q Consensus       181 ~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  216 (228)
                      .+=.++...|++++|...+......  .|++.....
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~  121 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVKK  121 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHHH
Confidence            6667788889999999888887764  455555444

>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=97.76  E-value=0.0014  Score=52.08  Aligned_cols=131  Identities=12%  Similarity=-0.007  Sum_probs=100.6

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCC-------------HHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKS-------------VAAINCVILGCANIWDLDRAYQTFEAVGSS   99 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   99 (228)
                      ..|..+-..|.+.|+  ...+...+.+.....+..++             ..+|..+-.++.+.|++++|...|++..+.
T Consensus       148 ~~~~~~g~~~~~~g~--~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          148 TIVKERGTVYFKEGK--YKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHTC--HHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCC--HHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            457778888888884  55555555554444433110             578999999999999999999999999873


Q ss_pred             CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHH-HHHHHHHH
Q 027083          100 FGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAA-LSVIDEMV  168 (228)
Q Consensus       100 ~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a-~~~~~~m~  168 (228)
                        -+.+...|..+-.+|.+.|++++|...|++..+.. .-+...+..+-.++.+.|+.+++ ...++.|.
T Consensus       226 --~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          226 --DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             --CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              23467788999999999999999999999988764 23677888899999999999888 44566554

>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=97.69  E-value=0.0044  Score=54.18  Aligned_cols=137  Identities=13%  Similarity=0.085  Sum_probs=89.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC--------CCCCC------------HHhHHHHHHHHHhcCCHHHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSF--------GLTPD------------IHSYNALIYAFGKLKKTFEASRV  128 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--------~~~p~------------~~~~~~li~~~~~~~~~~~a~~~  128 (228)
                      +...|-..+...-..|+++.|.++|+......        .-.|+            ...|-..++...+.|..+.|..+
T Consensus       377 s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~v  456 (679)
T 4e6h_A          377 SAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKI  456 (679)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            56666667777777888888888888876520        00132            33677777777778888888888


Q ss_pred             HHHHHhC-C-CCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          129 FEHLVSL-G-VKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       129 ~~~m~~~-g-~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      |+...+. + ..+......+.+.-. ..++++.|..+|+...+. +.-+...|...++.....|+.+.|+.+|+......
T Consensus       457 f~~A~~~~~~~~~~lyi~~A~lE~~-~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~  534 (679)
T 4e6h_A          457 FGKCRRLKKLVTPDIYLENAYIEYH-ISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKI  534 (679)
T ss_dssp             HHHHHHTGGGSCTHHHHHHHHHHHT-TTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTS
T ss_pred             HHHHHHhcCCCChHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhc
Confidence            8887665 2 223333333333321 234578888888876654 33345556677777777788888888888877654


Q ss_pred             C
Q 027083          207 I  207 (228)
Q Consensus       207 ~  207 (228)
                      .
T Consensus       535 ~  535 (679)
T 4e6h_A          535 S  535 (679)
T ss_dssp             S
T ss_pred             C
Confidence            4

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.66  E-value=0.00015  Score=48.13  Aligned_cols=102  Identities=13%  Similarity=0.016  Sum_probs=62.0

Q ss_pred             cCCHHHHHHHHHHHhhcCCC-CC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHH
Q 027083           83 IWDLDRAYQTFEAVGSSFGL-TP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAA  160 (228)
Q Consensus        83 ~~~~~~a~~~~~~m~~~~~~-~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  160 (228)
                      .|+.++|...|++..+. +. .| +...+..+-..|.+.|++++|...|++..+... -+...+..+-.++.+.|++++|
T Consensus         3 ~g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP-NHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             ----CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHcCCHHHH
Confidence            46677777777777652 21 13 344666777777788888888888887766542 2466777777777788888888


Q ss_pred             HHHHHHHHHC-CCCCCHHHHHHHHHHH
Q 027083          161 LSVIDEMVNA-GFAPSKETLKKVRRRC  186 (228)
Q Consensus       161 ~~~~~~m~~~-g~~p~~~t~~~li~~~  186 (228)
                      .+.+++.... .-.|+...|...+..+
T Consensus        81 ~~~~~~al~~~p~~~~~~~~~~ai~~~  107 (117)
T 3k9i_A           81 VELLLKIIAETSDDETIQSYKQAILFY  107 (117)
T ss_dssp             HHHHHHHHHHHCCCHHHHHTHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            8877776543 2223333444444443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.66  E-value=0.0008  Score=45.02  Aligned_cols=90  Identities=19%  Similarity=0.128  Sum_probs=56.0

Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCC
Q 027083           77 ILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRD  156 (228)
Q Consensus        77 l~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~  156 (228)
                      -..+.+.|++++|...|++..+.  -+-+...|..+-.++.+.|++++|...|++..+... -+...+..+-.++.+.|+
T Consensus        24 g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~~~~g~  100 (121)
T 1hxi_A           24 GLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTNEHN  100 (121)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCC
Confidence            34555667777777777776652  122455555666666777777777777776655432 245566666666777777


Q ss_pred             HHHHHHHHHHHHH
Q 027083          157 QKAALSVIDEMVN  169 (228)
Q Consensus       157 ~~~a~~~~~~m~~  169 (228)
                      +++|.+.+++..+
T Consensus       101 ~~~A~~~~~~al~  113 (121)
T 1hxi_A          101 ANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHH
Confidence            7777777766553

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.63  E-value=0.00023  Score=47.17  Aligned_cols=102  Identities=14%  Similarity=-0.056  Sum_probs=75.2

Q ss_pred             hcCCHHHHHHHHHHHHhCC--CCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhH
Q 027083          118 KLKKTFEASRVFEHLVSLG--VKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESN  195 (228)
Q Consensus       118 ~~~~~~~a~~~~~~m~~~g--~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a  195 (228)
                      ..|++++|...|++..+.+  -+-+...|..+-.+|.+.|++++|.+.|++..+.. .-+...+..+-.++...|+.++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHH
Confidence            4588899999999998764  12356778889999999999999999999988653 22467888888999999999999


Q ss_pred             HHHHHHHHHc-CCCcchhhHHHHHHH
Q 027083          196 DRVEALAKKF-DIRMNTENRKNILFN  220 (228)
Q Consensus       196 ~~~~~~m~~~-g~~~~~~~~~~li~~  220 (228)
                      ...+....+. .-.|+...|...|..
T Consensus        81 ~~~~~~al~~~p~~~~~~~~~~ai~~  106 (117)
T 3k9i_A           81 VELLLKIIAETSDDETIQSYKQAILF  106 (117)
T ss_dssp             HHHHHHHHHHHCCCHHHHHTHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            9999887764 334445555544443

>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=97.62  E-value=0.0032  Score=55.01  Aligned_cols=135  Identities=16%  Similarity=0.022  Sum_probs=101.8

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhc-CCCCCCHHhHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCCCcHhhHHHH
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSS-FGLTPDIHSYNALIYAFGKL-KKTFEASRVFEHLVSLGVKPNAMSYSLL  147 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~p~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~g~~p~~~t~~~l  147 (228)
                      ..+|...+....+.|+++.|+.+|....+. ....+......+.+.  .+. ++.+.|.++|+...+. +.-+...|...
T Consensus       434 ~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE--~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y  510 (679)
T 4e6h_A          434 TYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIE--YHISKDTKTACKVLELGLKY-FATDGEYINKY  510 (679)
T ss_dssp             HHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHH--HTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHH--HHhCCCHHHHHHHHHHHHHH-CCCchHHHHHH
Confidence            346888888888889999999999999873 122333333333333  333 5599999999998776 33466677888


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCC
Q 027083          148 VDAHLTNRDQKAALSVIDEMVNAGFAP--SKETLKKVRRRCVREMDEESNDRVEALAKKFDI  207 (228)
Q Consensus       148 i~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~  207 (228)
                      ++.....|+.+.|..+|+......-.|  ....|...++-=.+.|+.+.+..+...+.+.--
T Consensus       511 ~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P  572 (679)
T 4e6h_A          511 LDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFP  572 (679)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHST
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            888888999999999999887654322  346788888888889999999999999987653

>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=97.57  E-value=0.0077  Score=43.53  Aligned_cols=143  Identities=11%  Similarity=0.017  Sum_probs=95.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-Cc--------------H
Q 027083           77 ILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVK-PN--------------A  141 (228)
Q Consensus        77 l~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~--------------~  141 (228)
                      .......|+++.+.+.|+.-...  .......+..+-..+.+.|++++|...|++..+.... |+              .
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~   88 (198)
T 2fbn_A           11 SSGRENLYFQGAKKSIYDYTDEE--KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEI   88 (198)
T ss_dssp             -----------CCCSGGGCCHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHH
T ss_pred             hhhhhhhhhccccCchhhCCHHH--HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHH
Confidence            34445556666666666533221  1113445677778899999999999999998764211 11              2


Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHH
Q 027083          142 MSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNL  221 (228)
Q Consensus       142 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l  221 (228)
                      ..|..+-.+|.+.|++++|...++...... ..+...+..+-.++...|+++.|...+....+..-. +...+..+-.++
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~  166 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYELCV  166 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHH
Confidence            788889999999999999999999887652 335788888889999999999999999998876432 344444444444


Q ss_pred             Hh
Q 027083          222 EY  223 (228)
Q Consensus       222 ~~  223 (228)
                      ..
T Consensus       167 ~~  168 (198)
T 2fbn_A          167 NK  168 (198)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.56  E-value=0.0013  Score=43.89  Aligned_cols=95  Identities=12%  Similarity=-0.017  Sum_probs=79.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHH
Q 027083          108 SYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAP-SKETLKKVRRRC  186 (228)
Q Consensus       108 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~  186 (228)
                      .+-.+-..+.+.|++++|...|++..+.. .-+...|..+-.++.+.|++++|...|++..+.  .| +...+..+-.++
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~~   95 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSH   95 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            34555677889999999999999988764 237888888999999999999999999988764  34 567888888899


Q ss_pred             HhcCChhhHHHHHHHHHHc
Q 027083          187 VREMDEESNDRVEALAKKF  205 (228)
Q Consensus       187 ~~~~~~~~a~~~~~~m~~~  205 (228)
                      .+.|+.++|...++...+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           96 TNEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHC-
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            9999999999999888753

>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=97.55  E-value=0.00087  Score=56.11  Aligned_cols=116  Identities=15%  Similarity=0.062  Sum_probs=71.6

Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHH
Q 027083           80 CANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKA  159 (228)
Q Consensus        80 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~  159 (228)
                      +.+.|+.++|...|++..+.  -.-+...|..+-.+|.+.|++++|...+++..+.. .-+...|..+-.+|.+.|++++
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            34567777777777777652  22246677777777777778888877777776653 2356677777777777778888


Q ss_pred             HHHHHHHHHHCCCCCC-HHHHHHHHHH--HHhcCChhhHHHHHH
Q 027083          160 ALSVIDEMVNAGFAPS-KETLKKVRRR--CVREMDEESNDRVEA  200 (228)
Q Consensus       160 a~~~~~~m~~~g~~p~-~~t~~~li~~--~~~~~~~~~a~~~~~  200 (228)
                      |.+.+++..+..  |+ ...+..+-.+  +.+.|++++|...++
T Consensus        93 A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           93 ALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHS--TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            877777766532  21 2233333333  666677777777665

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.53  E-value=0.0051  Score=49.97  Aligned_cols=201  Identities=10%  Similarity=-0.135  Sum_probs=125.4

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhh-------hCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHH--
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEI-------FSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAA--   72 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~-------~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~--   72 (228)
                      |++++|+..+....+............       .....++..|...|.+.|+  ..++...+..........++..+  
T Consensus        18 ~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~   95 (434)
T 4b4t_Q           18 KQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGA--KDKLREFIPHSTEYMMQFAKSKTVK   95 (434)
T ss_dssp             TCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTC--HHHHHHHHHHTHHHHHTSCHHHHHH
T ss_pred             CCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHHHHHHccchHHHH
Confidence            778899999988877644333211100       0012347789999999995  33333333322221111112221  


Q ss_pred             -HHHHHH-HHHHcCCHHHHHHHHHHHhhc---CCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC----C-CcH
Q 027083           73 -INCVIL-GCANIWDLDRAYQTFEAVGSS---FGLTPD-IHSYNALIYAFGKLKKTFEASRVFEHLVSLGV----K-PNA  141 (228)
Q Consensus        73 -~~~ll~-~~~~~~~~~~a~~~~~~m~~~---~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~----~-p~~  141 (228)
                       ....+. .+...|+.+.+..++.+....   .+..+. ..++..+...|...|++++|..++++....-.    + -..
T Consensus        96 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~  175 (434)
T 4b4t_Q           96 VLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLV  175 (434)
T ss_dssp             HHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHH
Confidence             222222 233568899999888876431   233333 45778889999999999999999998754311    1 235


Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHC--CCC-C-C--HHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          142 MSYSLLVDAHLTNRDQKAALSVIDEMVNA--GFA-P-S--KETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       142 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~-p-~--~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      .+|..++..|...|++++|..+++.....  .+. | .  ...+..+...+...++++.|...+....+
T Consensus       176 ~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          176 DVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            57899999999999999999999876532  222 2 1  24455555667778999999877666554

>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=97.51  E-value=0.0034  Score=48.53  Aligned_cols=96  Identities=8%  Similarity=-0.138  Sum_probs=57.1

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNAL  112 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  112 (228)
                      ..+..+-..+.+.|  +...+...+.+.....+.  +...|..+-.++...|++++|...+++..+.  -.-+...+..+
T Consensus         5 ~~~~~~g~~~~~~g--~~~~A~~~~~~al~~~p~--~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l   78 (281)
T 2c2l_A            5 QELKEQGNRLFVGR--KYPEAAACYGRAITRNPL--VAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   78 (281)
T ss_dssp             HHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCSC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCc--cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            34555566666666  344444444444443333  5566666666666777777777777766542  22244566666


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh
Q 027083          113 IYAFGKLKKTFEASRVFEHLVS  134 (228)
Q Consensus       113 i~~~~~~~~~~~a~~~~~~m~~  134 (228)
                      -.+|.+.|++++|...|++..+
T Consensus        79 g~~~~~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           79 GQCQLEMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Confidence            6677777777777777766554

>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=97.50  E-value=0.015  Score=42.74  Aligned_cols=129  Identities=11%  Similarity=0.028  Sum_probs=104.2

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcC----CHHHHHHHHHHHHhCCCCCcHhhH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLK----KTFEASRVFEHLVSLGVKPNAMSY  144 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~g~~p~~~t~  144 (228)
                      +...+..+=..|...++.++|...|++.... |   +...+..|=..|.. +    ++++|.+.|++..+.|   ++..+
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~-g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~   88 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQ-G---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGE   88 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT-T---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHc-C---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            5667777778888899999999999999874 4   56667777777777 6    8999999999998765   56677


Q ss_pred             HHHHHHHHc----cCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHh----cCChhhHHHHHHHHHHc
Q 027083          145 SLLVDAHLT----NRDQKAALSVIDEMVNAGFA-PSKETLKKVRRRCVR----EMDEESNDRVEALAKKF  205 (228)
Q Consensus       145 ~~li~~~~~----~g~~~~a~~~~~~m~~~g~~-p~~~t~~~li~~~~~----~~~~~~a~~~~~~m~~~  205 (228)
                      ..|-..|..    .+++++|.+.|++..+.|.. .+...+..|-..|..    .++.++|...+....+.
T Consensus        89 ~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~  158 (212)
T 3rjv_A           89 IVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL  158 (212)
T ss_dssp             HHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc
Confidence            777777776    88999999999988876532 126777777778877    78999999999999887

>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=97.45  E-value=0.0035  Score=52.06  Aligned_cols=130  Identities=14%  Similarity=0.087  Sum_probs=100.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC----------------HHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD----------------IHSYNALIYAFGKLKKTFEASRVFEHL  132 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~----------------~~~~~~li~~~~~~~~~~~a~~~~~~m  132 (228)
                      ....|..+=..+.+.|++++|...|++....   .|+                ...|..+-.+|.+.|++++|...|++.
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~---~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~a  343 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSW---LEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKA  343 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH---hcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            3456777778888999999999999998763   233                578889999999999999999999998


Q ss_pred             HhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhhHH-HHHHHHHH
Q 027083          133 VSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAP-SKETLKKVRRRCVREMDEESND-RVEALAKK  204 (228)
Q Consensus       133 ~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~-~~~~~m~~  204 (228)
                      .+.. ..+...|..+-.+|...|++++|...|++..+.  .| +...+..+-.++.+.++.+++. .++..|..
T Consensus       344 l~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          344 LGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQISMCQKKAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             HhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            8764 236788999999999999999999999988763  45 3466777777787888777666 34554443

>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=97.43  E-value=0.0049  Score=47.60  Aligned_cols=98  Identities=9%  Similarity=-0.026  Sum_probs=83.6

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +...+..+-..+...|++++|...|++....  -.-+...|..+-.+|.+.|++++|...+++..+.. .-+...+..+-
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            5667778888899999999999999999873  22367788889999999999999999999988764 23677889999


Q ss_pred             HHHHccCCHHHHHHHHHHHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      .++...|++++|...|++..+
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            999999999999999988765

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.39  E-value=0.0041  Score=43.41  Aligned_cols=104  Identities=12%  Similarity=0.077  Sum_probs=73.9

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC------CC---------CC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSF------GL---------TP-DIHSYNALIYAFGKLKKTFEASRVFEHLV  133 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~------~~---------~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~  133 (228)
                      ...+...=..+.+.|++++|...|.+.....      .-         .| +...|..+-.+|.+.|++++|...++...
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            3455555667778888888888888776510      00         11 23567777788888888888888888877


Q ss_pred             hCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH
Q 027083          134 SLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSK  176 (228)
Q Consensus       134 ~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  176 (228)
                      +.. ..+...|..+-.+|...|++++|.+.|+.....  .|+.
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~  130 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAA  130 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGG
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCC
Confidence            654 335777888888888888888888888876653  4553

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.36  E-value=0.003  Score=43.21  Aligned_cols=137  Identities=9%  Similarity=-0.052  Sum_probs=90.7

Q ss_pred             hhHHHHHHHHHhhChhcHHHH-HHHHhchhhc-CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc---CCCCC-CH
Q 027083           33 TSLYPLVVACSRKGFETLDSV-YFQLENLSRA-EPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSS---FGLTP-DI  106 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~p-~~  106 (228)
                      .++..+-..+...|+.+.+.. +......... ..+.....++..+-..+...|+.++|...+++....   .+-.+ ..
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            356777788888885222222 2222222111 111112247777888888999999999999987642   11111 14


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-CcHhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 027083          107 HSYNALIYAFGKLKKTFEASRVFEHLVSL----GVK-PNAMSYSLLVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       107 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~-p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      ..+..+-..+...|++++|...+++..+.    +.. ....++..+-..+...|++++|.+.+++..+
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            56778888999999999999999886543    211 1245678888889999999999999987653

>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=97.36  E-value=0.0054  Score=49.52  Aligned_cols=123  Identities=10%  Similarity=0.033  Sum_probs=90.7

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcC-------------CCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSF-------------GLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSLG  136 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-------------~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  136 (228)
                      ..+..+=..+.+.|++++|...|++..+..             ...| +...|+.+-.+|.+.|++++|...+++..+..
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            346666677888999999999999877510             0122 34678888888999999999999999988754


Q ss_pred             CCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhhHH
Q 027083          137 VKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAP-SKETLKKVRRRCVREMDEESND  196 (228)
Q Consensus       137 ~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~  196 (228)
                       .-+...|..+-.+|.+.|++++|.+.|++..+.  .| +...+..+-..+...++.+++.
T Consensus       304 -p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          304 -PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence             236778888888999999999999999887764  34 4556666666666656555544

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.33  E-value=0.0084  Score=41.79  Aligned_cols=100  Identities=11%  Similarity=0.054  Sum_probs=80.9

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhC--------C---------CCCcHhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 027083          106 IHSYNALIYAFGKLKKTFEASRVFEHLVSL--------G---------VKPNAMSYSLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       106 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------g---------~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      ...+...=..+.+.|++++|...|++..+.        .         -..+...|..+-.+|.+.|++++|...++...
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            345666677889999999999999987654        0         01234678889999999999999999999887


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          169 NAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       169 ~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      ... ..+...|..+-.++...|++++|...+....+..
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            653 3357888889999999999999999999988864

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.31  E-value=0.0024  Score=41.09  Aligned_cols=63  Identities=14%  Similarity=0.108  Sum_probs=34.0

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 027083          106 IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       106 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      ...+..+-..+.+.|++++|...|++..+.. +.+...|..+-.++.+.|++++|.+.+++...
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3344455555555566666666555554432 12445555555555666666666666655543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.24  E-value=0.0042  Score=52.18  Aligned_cols=125  Identities=8%  Similarity=-0.106  Sum_probs=92.4

Q ss_pred             HHHcCCHHHHHHHHHHHhhc--CCC---CC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CC-CC-cHhhHHH
Q 027083           80 CANIWDLDRAYQTFEAVGSS--FGL---TP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSL-----GV-KP-NAMSYSL  146 (228)
Q Consensus        80 ~~~~~~~~~a~~~~~~m~~~--~~~---~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g~-~p-~~~t~~~  146 (228)
                      +-..|++++|..++++....  .-+   .| ...+++.|...|...|++++|+.++++...-     |- .| ...+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            44679999999999876542  012   23 2458999999999999999999999886432     21 13 3567999


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHH-----CCC-CCCH-HHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          147 LVDAHLTNRDQKAALSVIDEMVN-----AGF-APSK-ETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       147 li~~~~~~g~~~~a~~~~~~m~~-----~g~-~p~~-~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      |-..|...|++++|+.++++...     .|- .|+. .+.+.+-+++...+.+++|+.++..+.+
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999887653     232 3443 4445555667777889999999988876

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=97.23  E-value=0.048  Score=42.78  Aligned_cols=187  Identities=9%  Similarity=-0.011  Sum_probs=131.1

Q ss_pred             cHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHH----HhhCh-hcHHHHHHHHhchhhcCCCCCCHHHHHHHH
Q 027083            3 DLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVAC----SRKGF-ETLDSVYFQLENLSRAEPPYKSVAAINCVI   77 (228)
Q Consensus         3 ~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~----~~~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll   77 (228)
                      ++++++..++.+....          +....+|+.--..+    .+.+. .+..+.+....++....+-  |-.+|+---
T Consensus        84 ~~~eeL~~~~~~L~~n----------Pk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~pk--ny~aW~~R~  151 (306)
T 3dra_A           84 NLYDELDWCEEIALDN----------EKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDPK--NHHVWSYRK  151 (306)
T ss_dssp             CHHHHHHHHHHHHHHC----------TTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCTT--CHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHC----------cccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCCC--CHHHHHHHH
Confidence            6777777777776552          12234455422222    33310 2345555555555554443  888998888


Q ss_pred             HHHHHcCCHH--HHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCC------HHHHHHHHHHHHhCCCCCcHhhHHHHHH
Q 027083           78 LGCANIWDLD--RAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKK------TFEASRVFEHLVSLGVKPNAMSYSLLVD  149 (228)
Q Consensus        78 ~~~~~~~~~~--~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~------~~~a~~~~~~m~~~g~~p~~~t~~~li~  149 (228)
                      -.....|..+  ++++.++++... . .-|-..|+..-..+.+.+.      ++++.+.+++...... -|...|+-+-.
T Consensus       152 ~vl~~l~~~~~~~EL~~~~~~i~~-d-~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p-~n~SaW~y~~~  228 (306)
T 3dra_A          152 WLVDTFDLHNDAKELSFVDKVIDT-D-LKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCP-QNPSTWNYLLG  228 (306)
T ss_dssp             HHHHHTTCTTCHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCS-SCHHHHHHHHH
T ss_pred             HHHHHhcccChHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCC-CCccHHHHHHH
Confidence            8888888887  999999999874 2 3466678777777777776      8899999999887764 48888998888


Q ss_pred             HHHccCCH-HHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          150 AHLTNRDQ-KAALSVIDEMVNAG--FAPSKETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       150 ~~~~~g~~-~~a~~~~~~m~~~g--~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      .+.+.|+. +.+.++..+..+.+  -..+...+..+...+...|+.++|..+++.+.+
T Consensus       229 ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          229 IHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             HHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            88888874 43555666655432  234778888999999999999999999999865

>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=97.20  E-value=0.022  Score=38.79  Aligned_cols=113  Identities=11%  Similarity=0.004  Sum_probs=83.7

Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHc----cCCHHH
Q 027083           84 WDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLT----NRDQKA  159 (228)
Q Consensus        84 ~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~g~~~~  159 (228)
                      ++.++|.+.|++..+. | .|+..    |=..|...+.+++|.+.|++..+.|   ++..+..|=..|..    .++.++
T Consensus         9 ~d~~~A~~~~~~aa~~-g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACEL-N-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHT-T-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcC-C-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            4677888888888774 5 34433    4455666677888888888887764   55666666666666    788899


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHHcCCC
Q 027083          160 ALSVIDEMVNAGFAPSKETLKKVRRRCVR----EMDEESNDRVEALAKKFDIR  208 (228)
Q Consensus       160 a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~  208 (228)
                      |.+.|+...+.|   +...+..|-..|..    .++.++|...+....+.|..
T Consensus        80 A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~  129 (138)
T 1klx_A           80 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  129 (138)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCCH
Confidence            999988888765   56666677777777    78889999998888888764

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=97.18  E-value=0.074  Score=43.92  Aligned_cols=160  Identities=14%  Similarity=0.044  Sum_probs=90.6

Q ss_pred             hhHHHHHHHHHhhCh-hcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHc----CCHHHHHHHHHHHhhcCCCCCCHH
Q 027083           33 TSLYPLVVACSRKGF-ETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANI----WDLDRAYQTFEAVGSSFGLTPDIH  107 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~----~~~~~a~~~~~~m~~~~~~~p~~~  107 (228)
                      ..+..|-..|.+.|. .+...++..+.+.....++  +...+..+-..|...    ++.++|...|++.. . |   +..
T Consensus       177 ~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~--~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~-g---~~~  249 (452)
T 3e4b_A          177 ICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV--TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P-G---YPA  249 (452)
T ss_dssp             THHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS--CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G-G---STH
T ss_pred             HHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH--HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C-C---CHH
Confidence            356666667776662 2345555555554444443  444444444555433    57777777777765 2 2   333


Q ss_pred             hHHHHHHH-H--HhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccC-----CHHHHHHHHHHHHHCCCCCCHHHH
Q 027083          108 SYNALIYA-F--GKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNR-----DQKAALSVIDEMVNAGFAPSKETL  179 (228)
Q Consensus       108 ~~~~li~~-~--~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g-----~~~~a~~~~~~m~~~g~~p~~~t~  179 (228)
                      .+..+=.. |  ...+++++|.+.|++..+.|   +...+..|=..|. .|     ++++|.+.|++.. .   -+....
T Consensus       250 a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~  321 (452)
T 3e4b_A          250 SWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---REVAAD  321 (452)
T ss_dssp             HHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHHHH
T ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHHHH
Confidence            34444333 2  45677788888877777665   4445555555554 34     7777777776554 2   244455


Q ss_pred             HHHHHHHHh----cCChhhHHHHHHHHHHcCC
Q 027083          180 KKVRRRCVR----EMDEESNDRVEALAKKFDI  207 (228)
Q Consensus       180 ~~li~~~~~----~~~~~~a~~~~~~m~~~g~  207 (228)
                      ..|-..|..    ..+.++|...+....+.|.
T Consensus       322 ~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  353 (452)
T 3e4b_A          322 YYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ  353 (452)
T ss_dssp             HHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh
Confidence            545444444    2367777777777666665

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=97.16  E-value=0.021  Score=47.23  Aligned_cols=122  Identities=14%  Similarity=0.061  Sum_probs=65.1

Q ss_pred             HHHHHHHHHHHcC---CHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhc----CCHHHHHHHHHHHHhCCCCCcHhhH
Q 027083           72 AINCVILGCANIW---DLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKL----KKTFEASRVFEHLVSLGVKPNAMSY  144 (228)
Q Consensus        72 ~~~~ll~~~~~~~---~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~----~~~~~a~~~~~~m~~~g~~p~~~t~  144 (228)
                      .+..+-..|...|   +.++|...|++.... | .++...+..+-..|...    +++++|.+.|+... .|   ++..+
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~-g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~  251 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSR-G-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASW  251 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHT-T-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHC-C-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHH
Confidence            4555555555566   666666666666552 3 33344334444444433    56666666666655 22   22333


Q ss_pred             HHHHHH-H--HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-----ChhhHHHHHHHHH
Q 027083          145 SLLVDA-H--LTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREM-----DEESNDRVEALAK  203 (228)
Q Consensus       145 ~~li~~-~--~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~-----~~~~a~~~~~~m~  203 (228)
                      ..|-.. +  ...++.++|.+.|++..+.|   +...+..|-..|. .|     +.++|...+....
T Consensus       252 ~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa  314 (452)
T 3e4b_A          252 VSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV  314 (452)
T ss_dssp             HHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT
T ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh
Confidence            333333 2  34666667766666666555   4444444444444 33     6666666666555

>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=97.16  E-value=0.031  Score=39.36  Aligned_cols=109  Identities=14%  Similarity=0.020  Sum_probs=71.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC-------------HHhHHHHHHHHHhcCCHHHHHHHHHHHHhC---
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD-------------IHSYNALIYAFGKLKKTFEASRVFEHLVSL---  135 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---  135 (228)
                      .+...=..+.+.|++++|...|++..+-   .|+             ...|+.+-.++.+.|++++|...+++..+.   
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l---~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~   89 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEI---SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   89 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH---HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhh---CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhc
Confidence            3444445666788888888888887652   233             227777777888888888888888776653   


Q ss_pred             --CCCC-cHhhH----HHHHHHHHccCCHHHHHHHHHHHHH-----CCCCCCHHHHHHHH
Q 027083          136 --GVKP-NAMSY----SLLVDAHLTNRDQKAALSVIDEMVN-----AGFAPSKETLKKVR  183 (228)
Q Consensus       136 --g~~p-~~~t~----~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~t~~~li  183 (228)
                        .+.| +...|    ...=.++...|++++|+..|++..+     .|+.+........+
T Consensus        90 ~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~~~~  149 (159)
T 2hr2_A           90 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVA  149 (159)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHHH
T ss_pred             cccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHH
Confidence              1134 34456    6666777777778888777776652     45666555444443

>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=97.16  E-value=0.012  Score=48.77  Aligned_cols=117  Identities=14%  Similarity=0.019  Sum_probs=88.9

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc--------------HhhHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 027083          106 IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN--------------AMSYSLLVDAHLTNRDQKAALSVIDEMVNAG  171 (228)
Q Consensus       106 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--------------~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  171 (228)
                      ...|..+-..|.+.|++++|...|++..+..-...              ...|..+-.+|.+.|++++|...+++.....
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  347 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD  347 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            44677778889999999999999999876421111              5889999999999999999999999988643


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhh
Q 027083          172 FAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYS  224 (228)
Q Consensus       172 ~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~  224 (228)
                       ..+...|..+-.+|...|++++|...+....+..-. +...+..+-..+..+
T Consensus       348 -p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~  398 (457)
T 1kt0_A          348 -SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQISMCQKKA  398 (457)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHH
T ss_pred             -CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHH
Confidence             235788888899999999999999999998875422 334444444444433

>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=97.13  E-value=0.0022  Score=53.60  Aligned_cols=120  Identities=10%  Similarity=-0.049  Sum_probs=85.2

Q ss_pred             HHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHh
Q 027083           39 VVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGK  118 (228)
Q Consensus        39 l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~  118 (228)
                      -..+.+.|  +..++...+.+.....+.  +..+|..+-.++.+.|+.++|...+++..+.  -.-+...|..+-.+|.+
T Consensus        13 g~~~~~~g--~~~~A~~~~~~Al~~~p~--~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~   86 (477)
T 1wao_1           13 ANDYFKAK--DYENAIKFYSQAIELNPS--NAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMA   86 (477)
T ss_dssp             SSSTTTTT--CHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhC--CHHHHHHHHHHHHHhCCc--cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            33445556  455555555554444443  6889999999999999999999999999873  23456788899999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHH--HHccCCHHHHHHHHH
Q 027083          119 LKKTFEASRVFEHLVSLGVKPNAMSYSLLVDA--HLTNRDQKAALSVID  165 (228)
Q Consensus       119 ~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~--~~~~g~~~~a~~~~~  165 (228)
                      .|++++|.+.|++..+... -+...+..+-.+  +.+.|++++|.+.++
T Consensus        87 ~g~~~eA~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           87 LGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HTCHHHHHHHHHHHHHHST-TCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             cCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999999877532 234455555555  788899999999887

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.10  E-value=0.023  Score=46.06  Aligned_cols=133  Identities=11%  Similarity=-0.042  Sum_probs=96.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCH---HhHHHHHH-HHHhcCCHHHHHHHHHHHHh----CCCCCc-Hh
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDI---HSYNALIY-AFGKLKKTFEASRVFEHLVS----LGVKPN-AM  142 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~---~~~~~li~-~~~~~~~~~~a~~~~~~m~~----~g~~p~-~~  142 (228)
                      .+..+...|...|++++|.+.+.+.....+-.++.   ......+. .+...|+.+.|..+++....    .+..+. ..
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            46778899999999999999999876521222222   22233333 34556889999999887643    233333 56


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          143 SYSLLVDAHLTNRDQKAALSVIDEMVNA----GFAPS-KETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       143 t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      ++..+...+...|++++|..++++....    +-+|. ..++..+.+.|...|++++|..++.....
T Consensus       137 ~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          137 LSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            7888999999999999999999887632    22232 46788888999999999999999887765

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.09  E-value=0.046  Score=42.33  Aligned_cols=137  Identities=12%  Similarity=-0.009  Sum_probs=94.1

Q ss_pred             HHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC--HHhHHHHHH
Q 027083           37 PLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD--IHSYNALIY  114 (228)
Q Consensus        37 ~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~  114 (228)
                      .....+...|  +..++...+.......+   +....-.+-..+.+.+++++|+..|+...+. . .|.  ...+..+=.
T Consensus       107 ayA~~L~~~g--~y~eA~~~l~~~~~~~p---~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~-d~~~~~~a~~~LG~  179 (282)
T 4f3v_A          107 GFAACEAAQG--NYADAMEALEAAPVAGS---EHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P-DKFLAGAAGVAHGV  179 (282)
T ss_dssp             HHHHHHHHHT--CHHHHHHHHTSSCCTTC---HHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCC--CHHHHHHHHHHHHhcCC---chHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C-CcccHHHHHHHHHH
Confidence            4566777777  46666666665544333   3324444445777899999999999866542 1 221  235666667


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCc--HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 027083          115 AFGKLKKTFEASRVFEHLVSLGVKPN--AMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKV  182 (228)
Q Consensus       115 ~~~~~~~~~~a~~~~~~m~~~g~~p~--~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l  182 (228)
                      ++.+.|++++|.+.|++.......|.  .......-.++.+.|+.++|..+|+++...  .|+...+..|
T Consensus       180 al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~~~~aL  247 (282)
T 4f3v_A          180 AAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPEPKVAAAL  247 (282)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHHHH
Confidence            89999999999999999875433253  335666677788999999999999999874  4554444444

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.06  E-value=0.011  Score=36.40  Aligned_cols=61  Identities=15%  Similarity=0.026  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVS  134 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  134 (228)
                      .+..+-..+...|++++|...|++....  .+.+...+..+-..|.+.|++++|...|++..+
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            3444444444555555555555554431  112333444444455555555555555554443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.05  E-value=0.012  Score=38.33  Aligned_cols=78  Identities=10%  Similarity=0.038  Sum_probs=46.9

Q ss_pred             HHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 027083           89 AYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus        89 a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      +...|++..+.  -+.+...+..+-..|.+.|++++|...|++..+.. ..+...|..+-.++...|++++|...|++..
T Consensus         4 a~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            4 ITERLEAMLAQ--GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHTT--TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44555555441  22345566666666777777777777777665543 2245566666666777777777777666654


Q ss_pred             H
Q 027083          169 N  169 (228)
Q Consensus       169 ~  169 (228)
                      .
T Consensus        81 ~   81 (115)
T 2kat_A           81 A   81 (115)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=97.04  E-value=0.021  Score=46.03  Aligned_cols=113  Identities=10%  Similarity=-0.010  Sum_probs=87.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhC---------------CCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCC
Q 027083          108 SYNALIYAFGKLKKTFEASRVFEHLVSL---------------GVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGF  172 (228)
Q Consensus       108 ~~~~li~~~~~~~~~~~a~~~~~~m~~~---------------g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~  172 (228)
                      .+..+-..+.+.|++++|...|++..+.               --.-+...|+.+-.+|.+.|++++|.+.+++..+.  
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~--  302 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI--  302 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--
Confidence            3666777899999999999999987751               11235678889999999999999999999988864  


Q ss_pred             CC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHh
Q 027083          173 AP-SKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEY  223 (228)
Q Consensus       173 ~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~  223 (228)
                      .| +...|..+-.++...|++++|...++...+..-. +...+..+-..+..
T Consensus       303 ~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~-~~~~~~~l~~~~~~  353 (370)
T 1ihg_A          303 DPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKVKQK  353 (370)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            34 5788888889999999999999999998876432 34444444444433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.04  E-value=0.0081  Score=39.19  Aligned_cols=99  Identities=12%  Similarity=0.045  Sum_probs=73.9

Q ss_pred             HHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 027083          124 EASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAK  203 (228)
Q Consensus       124 ~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~  203 (228)
                      .|...|++..+.. ..+...+..+-..|...|++++|...|++..... ..+...|..+-.++...|+.++|...+....
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4677788777654 3467889999999999999999999999988643 2346788888899999999999999999887


Q ss_pred             HcCC-CcchhhHHHHHHHHHhh
Q 027083          204 KFDI-RMNTENRKNILFNLEYS  224 (228)
Q Consensus       204 ~~g~-~~~~~~~~~li~~l~~~  224 (228)
                      +..- ..+......+...+..+
T Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l  102 (115)
T 2kat_A           81 AAAQSRGDQQVVKELQVFLRRL  102 (115)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhccccccHHHHHHHHHHHHHh
Confidence            6432 23444445554444443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.02  E-value=0.0031  Score=50.16  Aligned_cols=129  Identities=13%  Similarity=-0.038  Sum_probs=76.6

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHH------------------hHHHHHHHHHhcCCHHHHHHHHHHH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIH------------------SYNALIYAFGKLKKTFEASRVFEHL  132 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~------------------~~~~li~~~~~~~~~~~a~~~~~~m  132 (228)
                      ..+..+=..+.+.|++++|...|++....   .|+..                  .|+.+-.+|.+.|++++|...+++.
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~a  256 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY---MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIV  256 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH---SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH---hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34555556666789999999999987652   35443                  7888889999999999999999998


Q ss_pred             HhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHH-HHhcCChhhHHHHHHHHHHc
Q 027083          133 VSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSK-ETLKKVRRR-CVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       133 ~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~-~~~~~~~~~a~~~~~~m~~~  205 (228)
                      .+.. ..+...|..+-.+|...|++++|.+.|++..+  +.|+. ..+..+-.. ....+..+.+..++..|.+.
T Consensus       257 l~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~--l~p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          257 LTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQK--YAPDDKAIRRELRALAEQEKALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------------------
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence            7754 23678899999999999999999999987664  34543 334433333 22345667777777777643

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.99  E-value=0.0036  Score=40.22  Aligned_cols=68  Identities=9%  Similarity=-0.025  Sum_probs=56.2

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN  140 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~  140 (228)
                      +...+..+-..+...|++++|...|++..+.  .+.+...+..+-.+|.+.|++++|...|++..+.  .|+
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~   70 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITA--QPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TST   70 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCC
Confidence            4567777888888999999999999998873  2346778888889999999999999999998865  454

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.97  E-value=0.018  Score=35.32  Aligned_cols=79  Identities=16%  Similarity=0.142  Sum_probs=54.6

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 027083          106 IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRR  185 (228)
Q Consensus       106 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  185 (228)
                      ...+..+-..+.+.|++++|...|++..+.. ..+...+..+-.++.+.|++++|.+.+++..... .-+...+..+-..
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~   86 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            4566677778888888888888888876653 2356777788888888888888888888776532 1234444444444


Q ss_pred             H
Q 027083          186 C  186 (228)
Q Consensus       186 ~  186 (228)
                      +
T Consensus        87 ~   87 (91)
T 1na3_A           87 K   87 (91)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.84  E-value=0.026  Score=35.91  Aligned_cols=62  Identities=18%  Similarity=0.058  Sum_probs=32.9

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 027083          106 IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       106 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      ...+..+-..|.+.|++++|...|++..+... -+...|..+-.+|...|++++|.+.+++..
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETDP-DYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33444555555555555555555555544421 134455555555556666666655555443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=96.60  E-value=0.017  Score=48.48  Aligned_cols=101  Identities=5%  Similarity=-0.097  Sum_probs=77.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc----CC-CCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCC
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSS----FG-LTPD-IHSYNALIYAFGKLKKTFEASRVFEHLVS-----LGV  137 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~-~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~  137 (228)
                      ...+++.|-..|...|++++|..++++...-    .| -.|+ ..+++.|-..|...|++++|+.++++...     .|-
T Consensus       350 ~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~  429 (490)
T 3n71_A          350 VLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGP  429 (490)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCT
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            4567899999999999999999998886531    12 2344 44799999999999999999999987643     232


Q ss_pred             C-Cc-HhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 027083          138 K-PN-AMSYSLLVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       138 ~-p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      . |+ ..+.+.+-.++...|..++|+.+++.+++
T Consensus       430 ~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          430 SHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            1 22 34456667777788999999999999875

>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=96.49  E-value=0.12  Score=36.27  Aligned_cols=111  Identities=9%  Similarity=-0.132  Sum_probs=85.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC------c-----HhhHHHHHHHHHccCCHHHHHHHHHHHHHC-----C
Q 027083          108 SYNALIYAFGKLKKTFEASRVFEHLVSLGVKP------N-----AMSYSLLVDAHLTNRDQKAALSVIDEMVNA-----G  171 (228)
Q Consensus       108 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p------~-----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~-----g  171 (228)
                      .+...=..+.+.|++++|...|++..+.....      +     ...|+.+-.++.+.|++++|+..+++..+.     .
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            34555567888999999999999987653220      2     238999999999999999999999987763     2


Q ss_pred             CCCCH-HHH----HHHHHHHHhcCChhhHHHHHHHHHH-----cCCCcchhhHHHHH
Q 027083          172 FAPSK-ETL----KKVRRRCVREMDEESNDRVEALAKK-----FDIRMNTENRKNIL  218 (228)
Q Consensus       172 ~~p~~-~t~----~~li~~~~~~~~~~~a~~~~~~m~~-----~g~~~~~~~~~~li  218 (228)
                      +.||. ..|    ...=.++...|++++|...++...+     .|+.+........|
T Consensus        93 ~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~~~~  149 (159)
T 2hr2_A           93 LNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVA  149 (159)
T ss_dssp             TTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHHH
T ss_pred             CCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHH
Confidence            37764 566    6777889999999999999998876     46666666655554

>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=96.44  E-value=0.031  Score=46.05  Aligned_cols=93  Identities=13%  Similarity=-0.046  Sum_probs=71.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCC---CCC----cHhhHHHHHHHHHccCCHHHHHHHHHHHHH-----CC-CCCC-HH
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLG---VKP----NAMSYSLLVDAHLTNRDQKAALSVIDEMVN-----AG-FAPS-KE  177 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g---~~p----~~~t~~~li~~~~~~g~~~~a~~~~~~m~~-----~g-~~p~-~~  177 (228)
                      .+..+.+.|++++|+.++++..+..   ..|    ...+++.|...|...|++++|+.++++...     .| -.|+ ..
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~  372 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGV  372 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHH
Confidence            3555667889999999999886531   112    356789999999999999999999887663     22 3454 37


Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          178 TLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       178 t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      +++.|-..|...|+.++|+.++....+
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            788888899999999999988776664

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=96.30  E-value=0.022  Score=45.16  Aligned_cols=96  Identities=10%  Similarity=0.012  Sum_probs=78.8

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHh------------------hHHHHHHHHHccCCHHHHHHHHHHHH
Q 027083          107 HSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAM------------------SYSLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       107 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~------------------t~~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      ..+..+-..+.+.|++++|...|++..+.  .|+..                  .|+.+-.+|.+.|++++|...++...
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al  257 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVL  257 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34566677888999999999999997664  35543                  78889999999999999999999887


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          169 NAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       169 ~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      ... .-+...|..+-.++...|++++|...+....+.
T Consensus       258 ~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l  293 (338)
T 2if4_A          258 TEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKY  293 (338)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            643 236788888999999999999999999887654

>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=96.26  E-value=0.029  Score=46.32  Aligned_cols=87  Identities=11%  Similarity=0.016  Sum_probs=67.3

Q ss_pred             hcCCHHHHHHHHHHHHhC---CCC---C-cHhhHHHHHHHHHccCCHHHHHHHHHHHHH-----CC-CCCCH-HHHHHHH
Q 027083          118 KLKKTFEASRVFEHLVSL---GVK---P-NAMSYSLLVDAHLTNRDQKAALSVIDEMVN-----AG-FAPSK-ETLKKVR  183 (228)
Q Consensus       118 ~~~~~~~a~~~~~~m~~~---g~~---p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~-----~g-~~p~~-~t~~~li  183 (228)
                      ..|++++|+.++++..+.   -+-   | ...+++.|...|...|++++|+.++++...     .| -.|+. .+++.|-
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            357889999999886442   111   2 257799999999999999999999988663     23 34554 7788899


Q ss_pred             HHHHhcCChhhHHHHHHHHHH
Q 027083          184 RRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       184 ~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      ..|...|+.++|+.+++...+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999998887765

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.20  E-value=0.046  Score=34.69  Aligned_cols=64  Identities=14%  Similarity=0.123  Sum_probs=53.9

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVS  134 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  134 (228)
                      +...+..+-..+...|+.++|...|++..+. . +-+...|..+-.+|.+.|++++|...|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVET-D-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-S-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-C-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            6778888888999999999999999998874 2 23456788888999999999999999998754

>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=96.10  E-value=0.045  Score=45.09  Aligned_cols=93  Identities=14%  Similarity=0.039  Sum_probs=71.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcC--CCCC----CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CCC-cHh
Q 027083           76 VILGCANIWDLDRAYQTFEAVGSSF--GLTP----DIHSYNALIYAFGKLKKTFEASRVFEHLVSL-----G-VKP-NAM  142 (228)
Q Consensus        76 ll~~~~~~~~~~~a~~~~~~m~~~~--~~~p----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g-~~p-~~~  142 (228)
                      .+..+...|+.++|..++++.....  -+.|    ...+++.+...|...|++++|+.++++...-     | -.| ...
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~  372 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGV  372 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHH
Confidence            3556667899999999999886421  1222    2458999999999999999999999976432     2 123 356


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHH
Q 027083          143 SYSLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       143 t~~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      +++.|-..|...|++++|+.++++..
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            69999999999999999999988765

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=96.09  E-value=0.23  Score=41.54  Aligned_cols=124  Identities=9%  Similarity=-0.039  Sum_probs=88.7

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHH--HHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYN--ALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      ..|-..+....+.++++.|..+|+.. ...+  ++...|-  +.+...+ .++.+.|..+|+...+.- .-++..|...+
T Consensus       287 ~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~~--~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~-~~~~~~~~~yi  361 (493)
T 2uy1_A          287 LLRINHLNYVLKKRGLELFRKLFIEL-GNEG--VGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKH-PDSTLLKEEFF  361 (493)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHHH-TTSC--CCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHh-hCCC--CChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHC-CCCHHHHHHHH
Confidence            45666666666778899999999999 4222  2333443  3333332 236999999999987652 12345567777


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      +-..+.|+.+.|..+|+...     .....|...++-=...|+.+.+..+++...+
T Consensus       362 d~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          362 LFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77788899999999999863     2577888888777778999999988777764

>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=95.93  E-value=0.077  Score=43.77  Aligned_cols=86  Identities=7%  Similarity=-0.066  Sum_probs=66.3

Q ss_pred             cCCHHHHHHHHHHHhhc--CCCC---CC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHh-----CC-CCC-cHhhHHHHHH
Q 027083           83 IWDLDRAYQTFEAVGSS--FGLT---PD-IHSYNALIYAFGKLKKTFEASRVFEHLVS-----LG-VKP-NAMSYSLLVD  149 (228)
Q Consensus        83 ~~~~~~a~~~~~~m~~~--~~~~---p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g-~~p-~~~t~~~li~  149 (228)
                      .|++++|..++++....  .-+-   |+ ..+++.|..+|...|++++|+.++++...     .| -.| ...+++.|-.
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            46789999998876541  0222   23 46899999999999999999999998643     23 123 3566999999


Q ss_pred             HHHccCCHHHHHHHHHHHH
Q 027083          150 AHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       150 ~~~~~g~~~~a~~~~~~m~  168 (228)
                      .|...|+.++|+.++++..
T Consensus       391 ~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHH
Confidence            9999999999999998765

>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=95.81  E-value=0.084  Score=37.08  Aligned_cols=113  Identities=16%  Similarity=0.048  Sum_probs=71.7

Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCC----------HHHHHHHHHHHHhCCCCCcHhhHHHHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKK----------TFEASRVFEHLVSLGVKPNAMSYSLLVDAH  151 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~g~~p~~~t~~~li~~~  151 (228)
                      +.+.+++|...++.....  -+-+...|+.+=.++.+.++          +++|...|++..+... -+...|+.+=.+|
T Consensus        14 r~~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP-~~~~A~~~LG~ay   90 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP-KKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCc-CcHHHHHHHHHHH
Confidence            445667777777777653  12245566656566666554          4588888888776542 2556777777777


Q ss_pred             Hcc-----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          152 LTN-----------RDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       152 ~~~-----------g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      ...           |++++|.+.|++..+  +.|+...|...+...      +++-+++-.+.+.
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~~~------~ka~el~~~~~~~  147 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKAPQLHAEAYKQ  147 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTHHHHHHHHHHS
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHH------HhCHhccCccccc
Confidence            765           478888888887776  467777776666653      3345555554443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=95.39  E-value=0.13  Score=31.97  Aligned_cols=55  Identities=20%  Similarity=0.186  Sum_probs=30.4

Q ss_pred             HHHHcCCHHHHHHHHHHHhhcCCCCCCHH-hHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027083           79 GCANIWDLDRAYQTFEAVGSSFGLTPDIH-SYNALIYAFGKLKKTFEASRVFEHLVSL  135 (228)
Q Consensus        79 ~~~~~~~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~  135 (228)
                      .+...|++++|...|++..+.  ...+.. .+..+-.+|.+.|++++|...|++..+.
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            344556666666666666542  112333 5555555666666666666666665544

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=95.12  E-value=0.27  Score=30.47  Aligned_cols=58  Identities=16%  Similarity=0.098  Sum_probs=46.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCcHh-hHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 027083          113 IYAFGKLKKTFEASRVFEHLVSLGVKPNAM-SYSLLVDAHLTNRDQKAALSVIDEMVNAG  171 (228)
Q Consensus       113 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~g~~~~a~~~~~~m~~~g  171 (228)
                      -..+.+.|++++|...|++..+.. ..+.. .|..+-.++...|++++|.+.|++..+..
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            456778899999999999987763 22556 78888888999999999999999887643

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=95.11  E-value=0.89  Score=35.50  Aligned_cols=168  Identities=11%  Similarity=0.012  Sum_probs=117.3

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH----HHc---CCHHHHHHHHHHHhhcCCCCC
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC----ANI---WDLDRAYQTFEAVGSSFGLTP  104 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~----~~~---~~~~~a~~~~~~m~~~~~~~p  104 (228)
                      ...||.--..+...|.....+.+..........|-  +..+|+.--..+    ...   +++++++.+++.+...  -+-
T Consensus        67 ~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk--~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~--~pk  142 (306)
T 3dra_A           67 YTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK--NYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSS--DPK  142 (306)
T ss_dssp             HHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT--CCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHH--CTT
T ss_pred             HHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc--cHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHh--CCC
Confidence            34566655555554412456666666655554544  666777665555    555   7899999999999874  344


Q ss_pred             CHHhHHHHHHHHHhcCCHH--HHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCC------HHHHHHHHHHHHHCCCCCCH
Q 027083          105 DIHSYNALIYAFGKLKKTF--EASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRD------QKAALSVIDEMVNAGFAPSK  176 (228)
Q Consensus       105 ~~~~~~~li~~~~~~~~~~--~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~------~~~a~~~~~~m~~~g~~p~~  176 (228)
                      |-..|+.---.+.+.|.++  ++...++.+.+.... |-..|+---....+.|.      ++++++.++++.... .-|.
T Consensus       143 ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~-p~n~  220 (306)
T 3dra_A          143 NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC-PQNP  220 (306)
T ss_dssp             CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC-SSCH
T ss_pred             CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC-CCCc
Confidence            6778888888888888888  999999999887654 78888877777777666      888888888877643 3478


Q ss_pred             HHHHHHHHHHHhcCC-hhhHHHHHHHHHHc
Q 027083          177 ETLKKVRRRCVREMD-EESNDRVEALAKKF  205 (228)
Q Consensus       177 ~t~~~li~~~~~~~~-~~~a~~~~~~m~~~  205 (228)
                      ..|+-+-..+.+.|. .+.+..+...+.+.
T Consensus       221 SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~  250 (306)
T 3dra_A          221 STWNYLLGIHERFDRSITQLEEFSLQFVDL  250 (306)
T ss_dssp             HHHHHHHHHHHHTTCCGGGGHHHHHTTEEG
T ss_pred             cHHHHHHHHHHhcCCChHHHHHHHHHHHhc
Confidence            888888777777766 34455555555543

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=94.70  E-value=0.48  Score=30.39  Aligned_cols=65  Identities=18%  Similarity=0.194  Sum_probs=33.8

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHH
Q 027083          156 DQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNL  221 (228)
Q Consensus       156 ~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l  221 (228)
                      +.-+..+-++.+....+.|+.....+.+++|.|.+++..|.++++-++.+- .....+|..++.-+
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lqEl   89 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQEL   89 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHHHH
Confidence            334444455555555556666666666666666666666666655544321 11234455555443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=94.59  E-value=1.2  Score=39.03  Aligned_cols=47  Identities=15%  Similarity=-0.060  Sum_probs=26.7

Q ss_pred             HHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027083           80 CANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLV  133 (228)
Q Consensus        80 ~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  133 (228)
                      ....|+++.|.++.+.+       .+...|..+-+.+.+.++++.|++.|..+.
T Consensus       662 ~l~~~~~~~A~~~~~~~-------~~~~~W~~la~~al~~~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTDE-------SAEMKWRALGDASLQRFNFKLAIEAFTNAH  708 (814)
T ss_dssp             HHHHTCHHHHHHHHTTC-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             hhhcCCHHHHHHHHHhh-------CcHhHHHHHHHHHHHcCCHHHHHHHHHHcc
Confidence            34556666666653322       244566666666666666666666666543

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=94.26  E-value=2.3  Score=36.28  Aligned_cols=135  Identities=11%  Similarity=0.023  Sum_probs=94.6

Q ss_pred             HHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcC-CHHHHH
Q 027083           50 LDSVYFQLENLSRAEPPYKSVAAINCVILGCANIW--DLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLK-KTFEAS  126 (228)
Q Consensus        50 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~-~~~~a~  126 (228)
                      ..+++..+.+.....+-  +..+|+.---.+.+.+  ++++++..++++.+.  -.-|...|+..--.+.+.| ..+++.
T Consensus        89 ~~~eL~~~~~~l~~~pK--~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el  164 (567)
T 1dce_A           89 VKAELGFLESCLRVNPK--SYGTWHHRCWLLSRLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEEL  164 (567)
T ss_dssp             HHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHcccccHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHH
Confidence            45555555555544443  7788888777777888  779999999998874  2336667888777788888 788888


Q ss_pred             HHHHHHHhCCCCCcHhhHHHHHHHHHcc--------------CCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCC
Q 027083          127 RVFEHLVSLGVKPNAMSYSLLVDAHLTN--------------RDQKAALSVIDEMVNAGFAP-SKETLKKVRRRCVREMD  191 (228)
Q Consensus       127 ~~~~~m~~~g~~p~~~t~~~li~~~~~~--------------g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~  191 (228)
                      +.++++.+.... |...|+-.-..+.+.              +.++++.+.+++....  .| |...|.-.-..+.+.+.
T Consensus       165 ~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~--~P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          165 AFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             HHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHH--CSSCSHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHHHCCC-CccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhh--CCCCccHHHHHHHHHhcCCC
Confidence            888888877643 777787776666552              4567788888776653  34 56777766666666555

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.16  E-value=0.66  Score=32.24  Aligned_cols=80  Identities=11%  Similarity=0.123  Sum_probs=38.8

Q ss_pred             HHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCC--cHhhHHHHHHHHHccCCHHHHH
Q 027083           87 DRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLK---KTFEASRVFEHLVSLGVKP--NAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        87 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~g~~p--~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ..+.+-|.+.... +. ++..+--.+--++++.+   +++++..+|++..+.. .|  ....+-.|--+|.+.|++++|.
T Consensus        15 ~~~~~~y~~e~~~-~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           15 LKFEKKFQSEKAA-GS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHT-TC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHcc-CC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            3444444444432 22 44444444444555555   4445666666655543 23  2233333333446666666666


Q ss_pred             HHHHHHHH
Q 027083          162 SVIDEMVN  169 (228)
Q Consensus       162 ~~~~~m~~  169 (228)
                      +.++...+
T Consensus        92 ~y~~~lL~   99 (152)
T 1pc2_A           92 KYVRGLLQ   99 (152)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            66665554

>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=94.13  E-value=1.8  Score=34.73  Aligned_cols=65  Identities=8%  Similarity=-0.018  Sum_probs=31.6

Q ss_pred             CcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          139 PNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       139 p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      .++.+|.++-..+...|++++|...+++....+  |+...|..+=..+.-.|+.++|...+......
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            344445444444444455555555555555443  44444433334444455555555555444443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.11  E-value=0.64  Score=32.28  Aligned_cols=84  Identities=8%  Similarity=0.075  Sum_probs=62.7

Q ss_pred             CHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccC---CHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCChhhH
Q 027083          121 KTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNR---DQKAALSVIDEMVNAGFAP--SKETLKKVRRRCVREMDEESN  195 (228)
Q Consensus       121 ~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p--~~~t~~~li~~~~~~~~~~~a  195 (228)
                      .+..+++-|.+-...|. ++..+.-.+--++++++   +++++..+|++..+.. .|  ....+-.|--++.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            45667777777766665 67777777777889988   6679999999988765 45  233333455567999999999


Q ss_pred             HHHHHHHHHcC
Q 027083          196 DRVEALAKKFD  206 (228)
Q Consensus       196 ~~~~~~m~~~g  206 (228)
                      .+.++.+.+..
T Consensus        91 ~~y~~~lL~ie  101 (152)
T 1pc2_A           91 LKYVRGLLQTE  101 (152)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHhcC
Confidence            99999998743

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.08  E-value=0.91  Score=31.06  Aligned_cols=137  Identities=14%  Similarity=0.065  Sum_probs=90.7

Q ss_pred             cHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHH
Q 027083           49 TLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRV  128 (228)
Q Consensus        49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~  128 (228)
                      ...+......+.-.+.    +..-||-.|--....-+-+-..++++.+.+-..+.              .++++......
T Consensus        22 ~v~qGveii~k~~~ss----ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis--------------~C~NlKrVi~C   83 (172)
T 1wy6_A           22 YIDEGVKIVLEITKSS----TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLD--------------KCQNLKSVVEC   83 (172)
T ss_dssp             CHHHHHHHHHHHHHHS----CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGG--------------GCSCTHHHHHH
T ss_pred             hHHHHHHHHHHHcCCC----CccccceeeeecchhhchhHHHHHHHHHhhhcCcH--------------hhhcHHHHHHH
Confidence            3444444444433323    45566667766666667676666666665532111              22333333322


Q ss_pred             HHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCC
Q 027083          129 FEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIR  208 (228)
Q Consensus       129 ~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~  208 (228)
                      +-.+     ..+...++.-++....+|.-++-.++..++.. +.+|++...-.+-.+|.+.|+..++..++...-+.|++
T Consensus        84 ~~~~-----n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           84 GVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHh-----cchHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            2221     23667788888889999999998888888543 45788888889999999999999999999999999986


Q ss_pred             c
Q 027083          209 M  209 (228)
Q Consensus       209 ~  209 (228)
                      -
T Consensus       158 E  158 (172)
T 1wy6_A          158 E  158 (172)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=93.93  E-value=0.96  Score=39.68  Aligned_cols=29  Identities=7%  Similarity=0.043  Sum_probs=14.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVG   97 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~   97 (228)
                      +...|..+=..+.+.++++.|.+.|..+.
T Consensus       680 ~~~~W~~la~~al~~~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          680 AEMKWRALGDASLQRFNFKLAIEAFTNAH  708 (814)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             cHhHHHHHHHHHHHcCCHHHHHHHHHHcc
Confidence            34445555555555555555555555443

>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=93.82  E-value=2.1  Score=34.36  Aligned_cols=62  Identities=15%  Similarity=-0.026  Sum_probs=29.7

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 027083          105 DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       105 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      +..+|.++--.+...|++++|...+++....+  |+...|..+=..+.-.|++++|.+.+++..
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Al  337 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAF  337 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            44444444444444455555555555554443  444444444444445555555555554433

>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=93.76  E-value=0.68  Score=32.38  Aligned_cols=96  Identities=13%  Similarity=0.028  Sum_probs=48.9

Q ss_pred             cHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhc--------HHHHHHHHhchhhcCCCCCCHHHHH
Q 027083            3 DLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFET--------LDSVYFQLENLSRAEPPYKSVAAIN   74 (228)
Q Consensus         3 ~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~   74 (228)
                      .+++|...++...+..          +.....|+.+-.++.+.+..+        ..++...+++.....|.  +..+|.
T Consensus        17 ~feeA~~~~~~Ai~l~----------P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~--~~~A~~   84 (158)
T 1zu2_A           17 LFEQIRQDAENTYKSN----------PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK--KDEAVW   84 (158)
T ss_dssp             HHHHHHHHHHHHHHHC----------TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT--CHHHHH
T ss_pred             HHHHHHHHHHHHHHHC----------CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC--cHHHHH
Confidence            4556666665554442          122445666666776665322        23444444444443433  455666


Q ss_pred             HHHHHHHHcC-----------CHHHHHHHHHHHhhcCCCCCCHHhHHHHH
Q 027083           75 CVILGCANIW-----------DLDRAYQTFEAVGSSFGLTPDIHSYNALI  113 (228)
Q Consensus        75 ~ll~~~~~~~-----------~~~~a~~~~~~m~~~~~~~p~~~~~~~li  113 (228)
                      .+=.+|...|           ++++|...|++...   +.|+...|..-+
T Consensus        85 ~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~---l~P~~~~y~~al  131 (158)
T 1zu2_A           85 CIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD---EQPDNTHYLKSL  131 (158)
T ss_dssp             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHH
T ss_pred             HHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHH---hCCCCHHHHHHH
Confidence            6666665543           55666666665554   345544443333

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=93.33  E-value=1.2  Score=30.16  Aligned_cols=63  Identities=17%  Similarity=0.176  Sum_probs=35.8

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHH
Q 027083          158 KAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNL  221 (228)
Q Consensus       158 ~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l  221 (228)
                      -+..+-++.+....+.|+.....+.+++|.|.+++..|.++++-++.+- .+...+|.-++.-+
T Consensus        70 wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~lqEl  132 (152)
T 2y69_E           70 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQEL  132 (152)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHHHHH
Confidence            3344455555556666666666666666666666666666666554322 22244565555544

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=93.29  E-value=3.4  Score=35.15  Aligned_cols=150  Identities=9%  Similarity=-0.014  Sum_probs=110.3

Q ss_pred             HHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCC----------HHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcC
Q 027083           51 DSVYFQLENLSRAEPPYKSVAAINCVILGCANIWD----------LDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLK  120 (228)
Q Consensus        51 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~  120 (228)
                      .+++....+.....|-  +..+|+.-=..+...++          +++++..++.+.+.  -+-+...|+.---.+.+.+
T Consensus        46 eeal~~~~~~l~~nP~--~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           46 ESVLELTSQILGANPD--FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             HHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCS
T ss_pred             HHHHHHHHHHHHHCch--hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcc
Confidence            3445555555554544  77788877666666666          89999999999874  3345667888888888889


Q ss_pred             --CHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc--------
Q 027083          121 --KTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNR-DQKAALSVIDEMVNAGFAPSKETLKKVRRRCVRE--------  189 (228)
Q Consensus       121 --~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~--------  189 (228)
                        +++++...++.+.+...+ |-..|+----.+.+.| ..+++.+.++++.+.. .-|...|+..-..+.+.        
T Consensus       122 ~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          122 EPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhcccccccc
Confidence              779999999999887644 8888998888888888 8899999998887654 33678888777766653        


Q ss_pred             ------CChhhHHHHHHHHHHcC
Q 027083          190 ------MDEESNDRVEALAKKFD  206 (228)
Q Consensus       190 ------~~~~~a~~~~~~m~~~g  206 (228)
                            +.++++...+....+..
T Consensus       200 ~~~~~~~~~~eel~~~~~ai~~~  222 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNAFFTD  222 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHHHC
T ss_pred             cccccHHHHHHHHHHHHHHHhhC
Confidence                  34566667766666543

>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=93.18  E-value=0.68  Score=37.46  Aligned_cols=116  Identities=14%  Similarity=0.053  Sum_probs=81.2

Q ss_pred             CCHHHHHHHHHHHH---HcCCHHHHHHHHHHHhhcC-C-CCCCH------------------HhHHHHHHHHHhcCCHHH
Q 027083           68 KSVAAINCVILGCA---NIWDLDRAYQTFEAVGSSF-G-LTPDI------------------HSYNALIYAFGKLKKTFE  124 (228)
Q Consensus        68 ~~~~~~~~ll~~~~---~~~~~~~a~~~~~~m~~~~-~-~~p~~------------------~~~~~li~~~~~~~~~~~  124 (228)
                      .|...|..++....   ..|+.+.+...+.+...-+ | +-|+.                  .....++..+...|+.++
T Consensus       110 ~D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~~~~w~~~~r~~l~~~~~~a~~~~~~~~l~~g~~~~  189 (388)
T 2ff4_A          110 CDLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASA  189 (388)
T ss_dssp             BHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             chHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHH
Confidence            36666666665443   3478888888887765421 1 11221                  112455677788999999


Q ss_pred             HHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHH-----CCCCCCHHHHHHHHH
Q 027083          125 ASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVN-----AGFAPSKETLKKVRR  184 (228)
Q Consensus       125 a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~t~~~li~  184 (228)
                      |...++.+.... ..+...|-.+|.++.+.|+..+|.+.|+...+     .|+.|+..+-...-.
T Consensus       190 a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~~~  253 (388)
T 2ff4_A          190 VIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNER  253 (388)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence            998888877653 34777999999999999999999999988764     599998876554333

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=93.10  E-value=1.5  Score=30.45  Aligned_cols=100  Identities=12%  Similarity=0.114  Sum_probs=49.3

Q ss_pred             CHHHHHHHHHHHHHcCCH------HHHHHHHHHHhhcCCCCCCHHh-HHHHHHH------HHhcCCHHHHHHHHHHHHhC
Q 027083           69 SVAAINCVILGCANIWDL------DRAYQTFEAVGSSFGLTPDIHS-YNALIYA------FGKLKKTFEASRVFEHLVSL  135 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~------~~a~~~~~~m~~~~~~~p~~~~-~~~li~~------~~~~~~~~~a~~~~~~m~~~  135 (228)
                      |..+|=..+...-+.|+.      +..+++|++...  .++|+... |-.-|..      +...+++++|..+|+.+.+.
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia--~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE--ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH--HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH--cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            666777777777777777      777777877776  46665321 1111111      12223444444555444333


Q ss_pred             CCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 027083          136 GVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAG  171 (228)
Q Consensus       136 g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  171 (228)
                       ++--+..|-..-.-=.+.|+++.|.+++..-...+
T Consensus        90 -hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~  124 (161)
T 4h7y_A           90 -CKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERG  124 (161)
T ss_dssp             -CTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             -hHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccC
Confidence             12123333333333344455555555554444433

>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=93.09  E-value=1.4  Score=34.18  Aligned_cols=113  Identities=14%  Similarity=0.075  Sum_probs=81.2

Q ss_pred             CHHHHHHHHH-HHHHc--CC------HHHHHHHHHHHhhcCCCCCC---HHhHHHHHHHHHh-----cCCHHHHHHHHHH
Q 027083           69 SVAAINCVIL-GCANI--WD------LDRAYQTFEAVGSSFGLTPD---IHSYNALIYAFGK-----LKKTFEASRVFEH  131 (228)
Q Consensus        69 ~~~~~~~ll~-~~~~~--~~------~~~a~~~~~~m~~~~~~~p~---~~~~~~li~~~~~-----~~~~~~a~~~~~~  131 (228)
                      ....|..++. .++..  |+      +..|...+++..+   +.|+   -..|..+-..|.+     -|+.++|.+.|++
T Consensus       153 e~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~fer  229 (301)
T 3u64_A          153 GTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEH  229 (301)
T ss_dssp             HHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHH
Confidence            4556655554 33332  33      4566666666654   4566   5578888888998     4999999999999


Q ss_pred             HHhCCCCCcHhhHHHHHHHHHcc-CCHHHHHHHHHHHHHCCCC--CCHHHHHHHHH
Q 027083          132 LVSLGVKPNAMSYSLLVDAHLTN-RDQKAALSVIDEMVNAGFA--PSKETLKKVRR  184 (228)
Q Consensus       132 m~~~g~~p~~~t~~~li~~~~~~-g~~~~a~~~~~~m~~~g~~--p~~~t~~~li~  184 (228)
                      ..+.+-.-+..++...-..+++. |+.+.+.+.+++.......  |+....+.+-+
T Consensus       230 AL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~~~q  285 (301)
T 3u64_A          230 LTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLVILSQ  285 (301)
T ss_dssp             HHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHHHHH
T ss_pred             HHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHHHHH
Confidence            88764222478888888888885 9999999999999988776  77666655543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=92.81  E-value=3.5  Score=34.38  Aligned_cols=97  Identities=7%  Similarity=0.073  Sum_probs=72.4

Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHH
Q 027083           84 WDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSV  163 (228)
Q Consensus        84 ~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~  163 (228)
                      ++.+.|..+|+...+..  .-+...+...++...+.|+.+.|..+|+...     .....|...+.-=...|+.+.+.++
T Consensus       334 ~d~~~ar~ife~al~~~--~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v  406 (493)
T 2uy1_A          334 GSRATPYNIFSSGLLKH--PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFREL  406 (493)
T ss_dssp             CCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHH
Confidence            47999999999998752  2234456777888889999999999999973     2567888888877788999999998


Q ss_pred             HHHHHH----CC-CCC------------CHHHHHHHHHHHH
Q 027083          164 IDEMVN----AG-FAP------------SKETLKKVRRRCV  187 (228)
Q Consensus       164 ~~~m~~----~g-~~p------------~~~t~~~li~~~~  187 (228)
                      +++...    .+ ..|            ...++..+++.|.
T Consensus       407 ~~~~~~~~~~~~~~~~~~~~~~~~~fe~~~g~l~~~~~~~~  447 (493)
T 2uy1_A          407 VDQKMDAIKADAILPPLPPREHNVQMEGILGRYHCFLDSFN  447 (493)
T ss_dssp             HHHHHHHHHTTCCBCCCCCC--CCCCCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhcccccCCcccccccHHHHHHHhhhHHHHHHHhh
Confidence            888763    11 111            1267777788874

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=92.80  E-value=2.9  Score=33.00  Aligned_cols=166  Identities=7%  Similarity=-0.072  Sum_probs=105.8

Q ss_pred             chhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHhhcCCCCCCHHhHH
Q 027083           32 FTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWD-LDRAYQTFEAVGSSFGLTPDIHSYN  110 (228)
Q Consensus        32 ~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~~~~~p~~~~~~  110 (228)
                      ..+|+----.+.+.+.......+....++....+-  |-.+|+----.....|. .+++++.++++...  -.-|...|+
T Consensus       108 y~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dpr--Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~--~p~N~SAW~  183 (331)
T 3dss_A          108 YGTWHHRCWLLSRLPEPNWARELELCARFLEADER--NFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWH  183 (331)
T ss_dssp             HHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CSCCHHHHH
T ss_pred             HHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--CCCCHHHHH
Confidence            45566544445555543355566666665554544  88899888877788887 68999999998874  234666777


Q ss_pred             HHHHHHHhc--------------CCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHcc-----------CCHHHHHHHHH
Q 027083          111 ALIYAFGKL--------------KKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTN-----------RDQKAALSVID  165 (228)
Q Consensus       111 ~li~~~~~~--------------~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~-----------g~~~~a~~~~~  165 (228)
                      ..-..+.+.              +.++++...++...... +-|...|+-+--.+.+.           +.++++.+.++
T Consensus       184 ~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~  262 (331)
T 3dss_A          184 YRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCK  262 (331)
T ss_dssp             HHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHH
Confidence            766666554              45788888888877654 33777777554444444           45788888888


Q ss_pred             HHHHCCCCCCHHHHHHHHH-----HHHhcCChhhHHHHHHHHHHc
Q 027083          166 EMVNAGFAPSKETLKKVRR-----RCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       166 ~m~~~g~~p~~~t~~~li~-----~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      ++.+  +.||- .|+.+-.     .....+..+++...+..+.+.
T Consensus       263 elle--~~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          263 ELQE--LEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             HHHH--HCTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             HHHh--hCccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence            8876  34653 3432211     222345666666777777653

>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=92.68  E-value=1.5  Score=29.38  Aligned_cols=110  Identities=10%  Similarity=0.056  Sum_probs=79.5

Q ss_pred             HHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHh----cCCHHHH
Q 027083           50 LDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGK----LKKTFEA  125 (228)
Q Consensus        50 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~~~~~~a  125 (228)
                      ...++..+.+......+  +..    +=..|...+.++.|.+.|++.... |   +...+..|=..|..    .+++++|
T Consensus        11 ~~~A~~~~~~aa~~g~~--~a~----lg~~y~~g~~~~~A~~~~~~Aa~~-g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A           11 LKKAIQYYVKACELNEM--FGC----LSLVSNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHTTCT--THH----HHHHTCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             HHHHHHHHHHHHcCCCH--hhh----HHHHHHcCCCHHHHHHHHHHHHcC-C---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            44444444444443332  332    444455667788899999998874 3   66777777777877    8899999


Q ss_pred             HHHHHHHHhCCCCCcHhhHHHHHHHHHc----cCCHHHHHHHHHHHHHCCC
Q 027083          126 SRVFEHLVSLGVKPNAMSYSLLVDAHLT----NRDQKAALSVIDEMVNAGF  172 (228)
Q Consensus       126 ~~~~~~m~~~g~~p~~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~  172 (228)
                      .+.|+...+.|   ++..+..|=..|..    .++.++|.+.|+.-.+.|.
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            99999998875   55667777777777    7899999999998888774

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=92.60  E-value=1.8  Score=30.07  Aligned_cols=115  Identities=9%  Similarity=-0.001  Sum_probs=69.5

Q ss_pred             CHHhHHHHHHHHHhcCCH------HHHHHHHHHHHhCCCCCcHh----hHHHHHHHH---HccCCHHHHHHHHHHHHHCC
Q 027083          105 DIHSYNALIYAFGKLKKT------FEASRVFEHLVSLGVKPNAM----SYSLLVDAH---LTNRDQKAALSVIDEMVNAG  171 (228)
Q Consensus       105 ~~~~~~~li~~~~~~~~~------~~a~~~~~~m~~~g~~p~~~----t~~~li~~~---~~~g~~~~a~~~~~~m~~~g  171 (228)
                      |..+|=..++-.-+.|+.      +...++|++... .++|+..    .|--|.--|   -..+++++|.++|+.+.+.+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia-~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE-ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH-HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH-cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            444444445555555555      566666666554 2344321    111111111   22378888888888887654


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHH
Q 027083          172 FAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLE  222 (228)
Q Consensus       172 ~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~  222 (228)
                      -+. ...|..--+-=.+.|++..|+++++.....+.+ +.+.....|.+|.
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k-~~~~le~a~~nl~  139 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV-PLEMLEIALRNLN  139 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB-CHHHHHHHHHHHH
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC-cHHHHHHHHHhhh
Confidence            344 666666666666789999999999888887766 4566777777664

>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=91.74  E-value=1.2  Score=35.93  Aligned_cols=70  Identities=14%  Similarity=0.107  Sum_probs=56.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCcHhhHHH
Q 027083           75 CVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVS-----LGVKPNAMSYSL  146 (228)
Q Consensus        75 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~~p~~~t~~~  146 (228)
                      .++..+...|+.+++..........  -..+...|-.+|.++.+.|+..+|.+.|++..+     .|+.|+..+-..
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~~--~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l  250 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTFE--HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRAL  250 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence            4456667889999999888888763  345888999999999999999999999998754     499998876443

>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=91.65  E-value=1.7  Score=27.84  Aligned_cols=63  Identities=17%  Similarity=0.270  Sum_probs=35.7

Q ss_pred             CHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHH
Q 027083           85 DLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVD  149 (228)
Q Consensus        85 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~  149 (228)
                      |.=+..+-++.+.. ..+.|+.....+.+++|-+.+++.-|.++|+-.+.+ +.+...+|..+++
T Consensus        25 D~~e~rrglN~l~~-~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVG-YDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTT-SSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhc-cccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHH
Confidence            34445555555555 366666666666666666666666666666655433 2233344555554

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=91.28  E-value=4.5  Score=31.90  Aligned_cols=151  Identities=9%  Similarity=-0.020  Sum_probs=106.4

Q ss_pred             HHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCC-HHHHH
Q 027083           50 LDSVYFQLENLSRAEPPYKSVAAINCVILGCANIW--DLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKK-TFEAS  126 (228)
Q Consensus        50 ~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~-~~~a~  126 (228)
                      ..+.+..+.......|-  +..+|+.---.+...+  ++++++.+++.+...  -.-|-..|+.---.+.+.|. ++++.
T Consensus        90 l~~EL~~~~~~L~~~PK--ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~--dprNy~AW~~R~~vl~~l~~~~~eel  165 (331)
T 3dss_A           90 VKAELGFLESCLRVNPK--SYGTWHHRCWLLSRLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEEL  165 (331)
T ss_dssp             HHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC--CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCcCHHHHH
Confidence            34445555554444443  8889988887777877  489999999999874  24467788888888888888 68999


Q ss_pred             HHHHHHHhCCCCCcHhhHHHHHHHHHcc--------------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc---
Q 027083          127 RVFEHLVSLGVKPNAMSYSLLVDAHLTN--------------RDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVRE---  189 (228)
Q Consensus       127 ~~~~~m~~~g~~p~~~t~~~li~~~~~~--------------g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~---  189 (228)
                      ..++.+.+..+. |...|+-.-..+.+.              +.++++++.++...... .-|...|+-+-..+.+.   
T Consensus       166 ~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~  243 (331)
T 3dss_A          166 AFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGR  243 (331)
T ss_dssp             HHHHHHHHHCSC-CHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCG
T ss_pred             HHHHHHHHHCCC-CHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCc
Confidence            999999887654 788888776665554              44778888888776532 23677777665555554   


Q ss_pred             --------CChhhHHHHHHHHHHcC
Q 027083          190 --------MDEESNDRVEALAKKFD  206 (228)
Q Consensus       190 --------~~~~~a~~~~~~m~~~g  206 (228)
                              +.++++.+.+..+.+..
T Consensus       244 ~~~~~~~~~~l~~el~~~~elle~~  268 (331)
T 3dss_A          244 CELSVEKSTVLQSELESCKELQELE  268 (331)
T ss_dssp             GGCCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             cccchHHHHHHHHHHHHHHHHHhhC
Confidence                    34667777777776644

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=91.16  E-value=1.9  Score=27.29  Aligned_cols=61  Identities=11%  Similarity=0.017  Sum_probs=30.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 027083          109 YNALIYAFGKLKKTFEASRVFEHLVSL------GVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       109 ~~~li~~~~~~~~~~~a~~~~~~m~~~------g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      +-.|=..+.+.++++.|...|+...+.      .-.+....+..+-.++.+.|+++.|...+++..+
T Consensus         8 c~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            8 CFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            334444455555555555555543321      0123444555555566666666666666555543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=90.49  E-value=2.2  Score=26.95  Aligned_cols=68  Identities=12%  Similarity=0.009  Sum_probs=54.2

Q ss_pred             CcHhhHHHHHHHHHccCCHHHHHHHHHHHHHC---C---CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          139 PNAMSYSLLVDAHLTNRDQKAALSVIDEMVNA---G---FAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       139 p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~---g---~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      .++.-+-.|=..+.+.|+++.|...|+...+.   .   -.+....+..+-.++.+.|+++.|...++...+..
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            45556667778888999999999999886642   1   13456788899999999999999999999988743

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=90.48  E-value=2.4  Score=28.81  Aligned_cols=62  Identities=18%  Similarity=0.235  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 027083          122 TFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRR  184 (228)
Q Consensus       122 ~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~  184 (228)
                      .-+..+-++.+....+-|++....+.+.+|-|-+++..|.++|+-.+.+ ..+...+|..+++
T Consensus        69 ~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           69 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            3344445555555555566666666666666666666666666444422 2233444555543

>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=90.42  E-value=4.3  Score=31.48  Aligned_cols=105  Identities=11%  Similarity=0.045  Sum_probs=77.8

Q ss_pred             CHHhHHHHHH-HHHhc--CC------HHHHHHHHHHHHhCCCCCc---HhhHHHHHHHHHc-----cCCHHHHHHHHHHH
Q 027083          105 DIHSYNALIY-AFGKL--KK------TFEASRVFEHLVSLGVKPN---AMSYSLLVDAHLT-----NRDQKAALSVIDEM  167 (228)
Q Consensus       105 ~~~~~~~li~-~~~~~--~~------~~~a~~~~~~m~~~g~~p~---~~t~~~li~~~~~-----~g~~~~a~~~~~~m  167 (228)
                      ....|..++. ++...  |.      ...|...+++..+.  .|+   ...|..+-..|.+     .|+.++|.+.|++-
T Consensus       153 e~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferA  230 (301)
T 3u64_A          153 GTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHL  230 (301)
T ss_dssp             HHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHH
Confidence            3456776665 44442  32      45666677776654  455   6789999999988     59999999999998


Q ss_pred             HHCCCCC--CHHHHHHHHHHHHhc-CChhhHHHHHHHHHHcCCC--cchhh
Q 027083          168 VNAGFAP--SKETLKKVRRRCVRE-MDEESNDRVEALAKKFDIR--MNTEN  213 (228)
Q Consensus       168 ~~~g~~p--~~~t~~~li~~~~~~-~~~~~a~~~~~~m~~~g~~--~~~~~  213 (228)
                      .+-  .|  +..++...-+.+++. |+.+.+.+.++.......+  |+...
T Consensus       231 L~L--nP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~l  279 (301)
T 3u64_A          231 TRY--CSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKL  279 (301)
T ss_dssp             HHH--CCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHH
T ss_pred             HHh--CCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhH
Confidence            874  45  366777778888885 9999999999999998887  66543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=90.06  E-value=2.3  Score=26.50  Aligned_cols=45  Identities=20%  Similarity=0.214  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 027083          123 FEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       123 ~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                      ++|..++++..+... -+......+=..+.+.|++++|.+.++.+.
T Consensus        26 ~~A~~~l~~AL~~dp-~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l   70 (93)
T 3bee_A           26 DEVSLLLEQALQLEP-YNEAALSLIANDHFISFRFQEAIDTWVLLL   70 (93)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCc-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            444444444433321 123333333334444444444444444444

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=89.34  E-value=2.9  Score=27.95  Aligned_cols=81  Identities=9%  Similarity=0.047  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHH---HHHHHHHHHHCCCCC-CH-HHHHHHHHHHHhcCChhhHH
Q 027083          122 TFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKA---ALSVIDEMVNAGFAP-SK-ETLKKVRRRCVREMDEESND  196 (228)
Q Consensus       122 ~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~---a~~~~~~m~~~g~~p-~~-~t~~~li~~~~~~~~~~~a~  196 (228)
                      +..+.+-|.+-...|. |+..+--.+--+++++....+   ++.++.+....+ .| .. .-.-.|--++.+.|+++.|.
T Consensus        17 l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~   94 (126)
T 1nzn_A           17 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            3444444444433332 444444444445555555444   555555554432 12 11 11222333555666666666


Q ss_pred             HHHHHHHH
Q 027083          197 RVEALAKK  204 (228)
Q Consensus       197 ~~~~~m~~  204 (228)
                      +..+.+.+
T Consensus        95 ~~~~~lL~  102 (126)
T 1nzn_A           95 KYVRGLLQ  102 (126)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66665554

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=86.93  E-value=10  Score=30.13  Aligned_cols=131  Identities=8%  Similarity=0.009  Sum_probs=75.1

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHc-C-CHHHHHHHHHHHhhcCCCCCCHHhHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANI-W-DLDRAYQTFEAVGSSFGLTPDIHSYN  110 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-~-~~~~a~~~~~~m~~~~~~~p~~~~~~  110 (228)
                      .+||.--..+...|. ...+.+..........+-  +..+|+.---.+... + +.++++.+++.+...  -.-|-..|+
T Consensus        89 taWn~R~~iL~~l~~-~l~eEL~~~~~~L~~nPK--ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~--dpkNy~AW~  163 (349)
T 3q7a_A           89 TVWQYRFSLLTSLNK-SLEDELRLMNEFAVQNLK--SYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLP--DPKNYHTWA  163 (349)
T ss_dssp             HHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTTCC--CHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSS--CTTCHHHHH
T ss_pred             HHHHHHHHHHHHhhh-hHHHHHHHHHHHHHhCCC--cHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHh--CCCCHHHHH
Confidence            345554444444442 244455555544443333  677777776666665 5 777777777777753  223455665


Q ss_pred             HHHHHHHhcCCHH--------HHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCC-------HHHHHHHHHHHHH
Q 027083          111 ALIYAFGKLKKTF--------EASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRD-------QKAALSVIDEMVN  169 (228)
Q Consensus       111 ~li~~~~~~~~~~--------~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~-------~~~a~~~~~~m~~  169 (228)
                      ..--.+.+.+.++        ++...++++.+.... |...|+-.-..+.+.+.       ++++++.+++...
T Consensus       164 ~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~  236 (349)
T 3q7a_A          164 YLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIH  236 (349)
T ss_dssp             HHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHH
Confidence            5554554444444        677777777665543 66667666666666554       4566666655543

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=86.46  E-value=11  Score=29.97  Aligned_cols=150  Identities=7%  Similarity=-0.027  Sum_probs=108.5

Q ss_pred             HHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhc-C-CHHHHHH
Q 027083           51 DSVYFQLENLSRAEPPYKSVAAINCVILGCANIW-DLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKL-K-KTFEASR  127 (228)
Q Consensus        51 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~-~-~~~~a~~  127 (228)
                      .+++....+.....+-  +..+|+.-=..+...+ ++++++.+++.+...  ..-+...|+.---.+.+. + +++++..
T Consensus        71 e~AL~lt~~~L~~nP~--~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~--nPKny~aW~hR~wlL~~l~~~~~~~EL~  146 (349)
T 3q7a_A           71 ERALELTEIIVRMNPA--HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQ--NLKSYQVWHHRLLLLDRISPQDPVSEIE  146 (349)
T ss_dssp             HHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHT--TCCCHHHHHHHHHHHHHHCCSCCHHHHH
T ss_pred             HHHHHHHHHHHHhCch--hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCCChHHHHH
Confidence            3456666666555554  7788988888888888 599999999999873  344666888887777776 7 8899999


Q ss_pred             HHHHHHhCCCCCcHhhHHHHHHHHHccCCHH--------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-------h
Q 027083          128 VFEHLVSLGVKPNAMSYSLLVDAHLTNRDQK--------AALSVIDEMVNAGFAPSKETLKKVRRRCVREMD-------E  192 (228)
Q Consensus       128 ~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~--------~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~-------~  192 (228)
                      +++.+.+... -|-..|+----.+.+.|..+        ++++.++++.+.. .-|-..|+---..+.+.+.       +
T Consensus       147 ~~~k~L~~dp-kNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~  224 (349)
T 3q7a_A          147 YIHGSLLPDP-KNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRSL  224 (349)
T ss_dssp             HHHHHTSSCT-TCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHH
T ss_pred             HHHHHHHhCC-CCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHHH
Confidence            9999987653 37777876555555544444        8888898888754 3477888888777777765       4


Q ss_pred             hhHHHHHHHHHHcC
Q 027083          193 ESNDRVEALAKKFD  206 (228)
Q Consensus       193 ~~a~~~~~~m~~~g  206 (228)
                      +++...........
T Consensus       225 ~eELe~~~~aI~~~  238 (349)
T 3q7a_A          225 QDELIYILKSIHLI  238 (349)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhC
Confidence            56666666555543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=86.15  E-value=5.7  Score=26.49  Aligned_cols=82  Identities=12%  Similarity=0.151  Sum_probs=39.5

Q ss_pred             CHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHH---HHHHHHHHHhCCCCC--cHhhHHHHHHHHHccCCHHH
Q 027083           85 DLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFE---ASRVFEHLVSLGVKP--NAMSYSLLVDAHLTNRDQKA  159 (228)
Q Consensus        85 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~---a~~~~~~m~~~g~~p--~~~t~~~li~~~~~~g~~~~  159 (228)
                      .+..+.+-|.+-... |. |+..+--.+--++.++....+   +..++++..+.+ .|  .....-.|--++.+.|+.++
T Consensus        16 ~l~~~~~~y~~e~~~-~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~   92 (126)
T 1nzn_A           16 DLLKFEKKFQSEKAA-GS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   92 (126)
T ss_dssp             HHHHHHHHHHHHHHH-SC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHhcc-CC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHH
Confidence            344444444444332 22 343333333345555554444   566666655543 12  22223333345566666666


Q ss_pred             HHHHHHHHHH
Q 027083          160 ALSVIDEMVN  169 (228)
Q Consensus       160 a~~~~~~m~~  169 (228)
                      |.+.++.+.+
T Consensus        93 A~~~~~~lL~  102 (126)
T 1nzn_A           93 ALKYVRGLLQ  102 (126)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6666666554

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=86.13  E-value=6.3  Score=26.99  Aligned_cols=85  Identities=11%  Similarity=-0.002  Sum_probs=67.6

Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ..|++..+...+..+-.      +...++..++.+...|.-++..+++.++.. +..|++...-.+-++|.+-|+..++.
T Consensus        73 ~C~NlKrVi~C~~~~n~------~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~  145 (172)
T 1wy6_A           73 KCQNLKSVVECGVINNT------LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDAT  145 (172)
T ss_dssp             GCSCTHHHHHHHHHTTC------CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hhhcHHHHHHHHHHhcc------hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHH
Confidence            34566677766665543      566778889999999999999999999643 34688888899999999999999999


Q ss_pred             HHHHHHHHCCCC
Q 027083          162 SVIDEMVNAGFA  173 (228)
Q Consensus       162 ~~~~~m~~~g~~  173 (228)
                      +++.+.=+.|++
T Consensus       146 eLl~~AC~kG~k  157 (172)
T 1wy6_A          146 TLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHHTTCH
T ss_pred             HHHHHHHHhhhH
Confidence            999998888864

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=86.09  E-value=7.3  Score=27.66  Aligned_cols=109  Identities=13%  Similarity=0.099  Sum_probs=70.4

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +...|..|=......|+++-|.+.|.....          |..+.--|.-.|+.+...++-+.-...|      -+|.-.
T Consensus        33 ~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D----------~~~L~~Ly~~tg~~e~L~kla~iA~~~g------~~n~af   96 (177)
T 3mkq_B           33 DSITWERLIQEALAQGNASLAEMIYQTQHS----------FDKLSFLYLVTGDVNKLSKMQNIAQTRE------DFGSML   96 (177)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHTTC----------HHHHHHHHHHHTCHHHHHHHHHHHHHTT------CHHHHH
T ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHhCC----------HHHHHHHHHHhCCHHHHHHHHHHHHHCc------cHHHHH
Confidence            566888888888888888888888887765          5666667777777777766665554443      256666


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHH
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALA  202 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m  202 (228)
                      .++.-.|+++++.++|.+   .|-.|....+      ....|-.+.|.++.+.+
T Consensus        97 ~~~l~lGdv~~~i~lL~~---~~r~~eA~~~------A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           97 LNTFYNNSTKERSSIFAE---GGSLPLAYAV------AKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHTCHHHHHHHHHH---TTCHHHHHHH------HHHTTCHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHH---CCChHHHHHH------HHHcCcHHHHHHHHHHh
Confidence            667777888888888743   3333322211      11245566666665543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=85.63  E-value=7.8  Score=27.53  Aligned_cols=101  Identities=11%  Similarity=0.016  Sum_probs=70.9

Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCC
Q 027083           77 ILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRD  156 (228)
Q Consensus        77 l~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~  156 (228)
                      .....+.|+++.|.++.+++       -+...|..|=+...+.|+++-|++.|.....         |..+.--|.-.|+
T Consensus        12 F~LAL~lg~l~~A~e~a~~l-------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~   75 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL-------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGD   75 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTC
T ss_pred             HHHHHhcCCHHHHHHHHHHh-------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCC
Confidence            45566889999999998766       2678999999999999999999999988642         4445555566777


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHH
Q 027083          157 QKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVE  199 (228)
Q Consensus       157 ~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~  199 (228)
                      .+...++-+.-...|      -++.....+.-.|+++++.+++
T Consensus        76 ~e~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL  112 (177)
T 3mkq_B           76 VNKLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIF  112 (177)
T ss_dssp             HHHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHH
Confidence            766655544444443      2445555566667777666665

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=83.98  E-value=5.7  Score=24.61  Aligned_cols=79  Identities=8%  Similarity=0.034  Sum_probs=56.6

Q ss_pred             CcHhhHHHHHHHHHccCC---HHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhH
Q 027083          139 PNAMSYSLLVDAHLTNRD---QKAALSVIDEMVNAGFAP-SKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENR  214 (228)
Q Consensus       139 p~~~t~~~li~~~~~~g~---~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  214 (228)
                      .|+..+..+-.++...++   .++|..++++....  .| +......+-..+.+.|++++|...++.+.+..-.  ....
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~--dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~--~~~~   79 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQL--EPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP--NLDR   79 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT--TCCH
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC--CccH
Confidence            466677777777754444   69999999987763  45 4566666777889999999999999999886543  3334


Q ss_pred             HHHHHHH
Q 027083          215 KNILFNL  221 (228)
Q Consensus       215 ~~li~~l  221 (228)
                      ..+....
T Consensus        80 ~~i~~~I   86 (93)
T 3bee_A           80 VTIIESI   86 (93)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444444

>2ion_A PDCD4, programmed cell death 4, PDCD4; alpha-helical, antitumor protein; 1.57A {Mus musculus} SCOP: a.118.1.14 PDB: 2ios_A 2iol_A

Probab=80.27  E-value=10  Score=26.13  Aligned_cols=64  Identities=9%  Similarity=0.041  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCC--HHHHHHHHHHHHhCCC
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKK--TFEASRVFEHLVSLGV  137 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~--~~~a~~~~~~m~~~g~  137 (228)
                      ..+.+|.-|...||.++|.+.++++..  ..-....+..++..++-+.+.  .+.+.+++..+...|+
T Consensus        11 ki~~lL~EY~~~~D~~EA~~cl~EL~~--p~f~~e~V~~~i~~alE~~~~~~re~~~~LL~~L~~~~~   76 (152)
T 2ion_A           11 EIDMLLKEYLLSGDISEAEHCLKELEV--PHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSST   76 (152)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTC--GGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHhCC--CcchHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCC
Confidence            456677777777777777777777753  111233444455555555322  3456666766665544

---

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	228
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.17
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.08
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.98
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.77
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.7
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.66
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.4
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.31
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.29
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.1
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.1
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.06
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.04
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.01
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.0
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.96
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.94
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.89
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.89
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.82
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.75
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.72
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.68
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.65
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.64
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.5
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	97.45
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.42
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.41
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	97.38
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.15
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.12
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.11
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.04
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	96.91
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.86
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	96.69
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	96.58
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.42
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	96.32
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.17
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	95.91
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	95.87
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	95.81
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	95.58
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	95.48
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	94.91
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	94.48
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	93.45
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.26
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.09
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	91.73
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	90.42
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	90.38
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	88.36
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	85.85
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	80.7

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.17  E-value=2.8e-08  Score=77.50  Aligned_cols=201  Identities=11%  Similarity=-0.008  Sum_probs=151.7

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|...+++..+..          +.....|..+...+...|+.+  ++...+.+.....+.  +...+..+-..+.
T Consensus       183 ~~~~~A~~~~~~al~~~----------p~~~~~~~~l~~~~~~~~~~~--~A~~~~~~~~~~~~~--~~~~~~~l~~~~~  248 (388)
T d1w3ba_         183 GEIWLAIHHFEKAVTLD----------PNFLDAYINLGNVLKEARIFD--RAVAAYLRALSLSPN--HAVVHGNLACVYY  248 (388)
T ss_dssp             TCHHHHHHHHHHHHHHC----------TTCHHHHHHHHHHHHTTTCTT--HHHHHHHHHHHHCTT--CHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHhC----------cccHHHHHHHhhhhhccccHH--HHHHHHHHhHHHhhh--HHHHHHHHHHHHH
Confidence            55667777776655442          112346778888898888533  333333433433433  6778888889999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      +.|+.++|...|++..+.  -+-+...+..+-..+.+.|++++|.+.++...... +.+...+..+...+.+.|++++|.
T Consensus       249 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  325 (388)
T d1w3ba_         249 EQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAV  325 (388)
T ss_dssp             HTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHH
Confidence            999999999999998762  23346688899999999999999999999887654 567888999999999999999999


Q ss_pred             HHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCc-chhhHHHHHHHHHh
Q 027083          162 SVIDEMVNAGFAPS-KETLKKVRRRCVREMDEESNDRVEALAKKFDIRM-NTENRKNILFNLEY  223 (228)
Q Consensus       162 ~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~l~~  223 (228)
                      +.|++..+  +.|+ ..++..+-..+...|++++|...++...+.  .| +...|..+-..+.-
T Consensus       326 ~~~~~al~--~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~lg~~~~~  385 (388)
T d1w3ba_         326 RLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKE  385 (388)
T ss_dssp             HHHHHHTT--SCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            99998775  3454 677888889999999999999999998765  44 35556666555543

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.08  E-value=2.2e-07  Score=71.42  Aligned_cols=187  Identities=11%  Similarity=-0.003  Sum_probs=139.7

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGC   80 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~   80 (228)
                      .|++++|...|++..+..          +....+|..+..++.+.|+  ...+...+.+.....|-  +...|..+...+
T Consensus        32 ~g~~~~A~~~~~~al~~~----------P~~~~a~~~lg~~~~~~~~--~~~A~~~~~~al~~~p~--~~~~~~~la~~~   97 (323)
T d1fcha_          32 EGDLPNAVLLFEAAVQQD----------PKHMEAWQYLGTTQAENEQ--ELLAISALRRCLELKPD--NQTALMALAVSF   97 (323)
T ss_dssp             TTCHHHHHHHHHHHHHSC----------TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHCTT--CHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC----------CCCHHHHHHHHHHHHHcCC--hHHHHHHHHhhhccccc--cccccccccccc
Confidence            478899999999887652          1124568888899999884  45555555554444443  677888888899


Q ss_pred             HHcCCHHHHHHHHHHHhhc-------------------------------------------------CCCCCCHHhHHH
Q 027083           81 ANIWDLDRAYQTFEAVGSS-------------------------------------------------FGLTPDIHSYNA  111 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~-------------------------------------------------~~~~p~~~~~~~  111 (228)
                      ...|+.++|.+.+++....                                                 ..-.++...+..
T Consensus        98 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~  177 (323)
T d1fcha_          98 TNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCG  177 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHH
T ss_pred             cccccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchh
Confidence            9999999999888876431                                                 001223455666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcC
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAP-SKETLKKVRRRCVREM  190 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~  190 (228)
                      +-..+...|++++|...|++...... -+...|..+-..|.+.|++++|.+.|++..+.  .| +..+|..+-.+|.+.|
T Consensus       178 l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g  254 (323)
T d1fcha_         178 LGVLFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLG  254 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHhhhhccccccccccc-ccccchhhhhhcccccccchhHHHHHHHHHHH--hhccHHHHHHHHHHHHHCC
Confidence            77788889999999999998776532 35778888888999999999999999887763  34 4677888888899999


Q ss_pred             ChhhHHHHHHHHHH
Q 027083          191 DEESNDRVEALAKK  204 (228)
Q Consensus       191 ~~~~a~~~~~~m~~  204 (228)
                      ++++|...+....+
T Consensus       255 ~~~~A~~~~~~al~  268 (323)
T d1fcha_         255 AHREAVEHFLEALN  268 (323)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999888776

>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=98.98  E-value=9.8e-08  Score=74.33  Aligned_cols=171  Identities=13%  Similarity=0.033  Sum_probs=132.9

Q ss_pred             ccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHH
Q 027083            2 GDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCA   81 (228)
Q Consensus         2 g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~   81 (228)
                      |++++|...+++.....          ......+..+...+.+.|+  ...+...+.+.....+.  +..+|..+-..+.
T Consensus       217 ~~~~~A~~~~~~~~~~~----------~~~~~~~~~l~~~~~~~~~--~~~A~~~~~~al~~~p~--~~~~~~~l~~~~~  282 (388)
T d1w3ba_         217 RIFDRAVAAYLRALSLS----------PNHAVVHGNLACVYYEQGL--IDLAIDTYRRAIELQPH--FPDAYCNLANALK  282 (388)
T ss_dssp             TCTTHHHHHHHHHHHHC----------TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHTCSS--CHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHhHHHh----------hhHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHHhCCC--CHHHHHHHHHHHH
Confidence            66777888777765542          1123456778888888884  45555555554443433  6788999999999


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ..|+.++|.+.++....  ..+.+...+..+...+.+.|++++|...|++..+.. +-+..++..+-.+|.+.|++++|.
T Consensus       283 ~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~  359 (388)
T d1w3ba_         283 EKGSVAEAEDCYNTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEAL  359 (388)
T ss_dssp             HHSCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHH
T ss_pred             HcCCHHHHHHHHHhhhc--cCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999999887  356677889999999999999999999999987653 225677899999999999999999


Q ss_pred             HHHHHHHHCCCCCC-HHHHHHHHHHHHhcCC
Q 027083          162 SVIDEMVNAGFAPS-KETLKKVRRRCVREMD  191 (228)
Q Consensus       162 ~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~  191 (228)
                      +.|++..+  +.|+ ...|..+-..+.+.||
T Consensus       360 ~~~~~al~--l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         360 MHYKEAIR--ISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHT--TCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHH--hCCCCHHHHHHHHHHHHHcCC
Confidence            99998775  4575 6788888888877765

>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=98.77  E-value=2.3e-06  Score=65.60  Aligned_cols=165  Identities=11%  Similarity=-0.004  Sum_probs=120.6

Q ss_pred             hHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHH
Q 027083           34 SLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALI  113 (228)
Q Consensus        34 ~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li  113 (228)
                      .|.......-+.|.  ...+...+.+.....+ .....+|...+..+.+.|+.+.|.++|+...+. + ..+...|-...
T Consensus       101 l~~~ya~~~~~~~~--~~~a~~i~~~~l~~~~-~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~-~-~~~~~~~~~~a  175 (308)
T d2onda1         101 LYFAYADYEESRMK--YEKVHSIYNRLLAIED-IDPTLVYIQYMKFARRAEGIKSGRMIFKKARED-A-RTRHHVYVTAA  175 (308)
T ss_dssp             HHHHHHHHHHHTTC--HHHHHHHHHHHHTSSS-SCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS-T-TCCTHHHHHHH
T ss_pred             HHHHHHHHHHhccc--HHHHHHHHHHHHHHhc-CChHHHHHHHHHHHHHcCChHHHHHHHHHHHHh-C-CCcHHHHHHHH
Confidence            46666777777774  3333334444443333 224567999999999999999999999998874 2 22333333333


Q ss_pred             H-HHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCC-CCCC--HHHHHHHHHHHHhc
Q 027083          114 Y-AFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAG-FAPS--KETLKKVRRRCVRE  189 (228)
Q Consensus       114 ~-~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~--~~t~~~li~~~~~~  189 (228)
                      . -+...|+.+.|.++|+...+.. ..+...|...++...+.|+.+.|..+|++..... ..|+  ...|...+.--...
T Consensus       176 ~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~  254 (308)
T d2onda1         176 LMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNI  254 (308)
T ss_dssp             HHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHH
T ss_pred             HHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHc
Confidence            3 2345688999999999988763 3467889999999999999999999999977653 5554  56788888877888


Q ss_pred             CChhhHHHHHHHHHH
Q 027083          190 MDEESNDRVEALAKK  204 (228)
Q Consensus       190 ~~~~~a~~~~~~m~~  204 (228)
                      |+.+.+..+.+++.+
T Consensus       255 G~~~~~~~~~~r~~~  269 (308)
T d2onda1         255 GDLASILKVEKRRFT  269 (308)
T ss_dssp             SCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999999987765

>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=98.70  E-value=7.5e-06  Score=62.49  Aligned_cols=181  Identities=10%  Similarity=-0.020  Sum_probs=133.1

Q ss_pred             HHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHH
Q 027083           38 LVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFG  117 (228)
Q Consensus        38 ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~  117 (228)
                      .-..+.+.|  +..++...+.+.....|-  +..+|..+-.++...|++++|...|++..+. . +-+...|..+...|.
T Consensus        25 ~g~~~~~~g--~~~~A~~~~~~al~~~P~--~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~-~-p~~~~~~~~la~~~~   98 (323)
T d1fcha_          25 EGLRRLQEG--DLPNAVLLFEAAVQQDPK--HMEAWQYLGTTQAENEQELLAISALRRCLEL-K-PDNQTALMALAVSFT   98 (323)
T ss_dssp             HHHHHHHTT--CHHHHHHHHHHHHHSCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcC--CHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHcCChHHHHHHHHhhhcc-c-ccccccccccccccc
Confidence            445566777  466666666665554543  7889999999999999999999999998763 2 235667888889999


Q ss_pred             hcCCHHHHHHHHHHHHhCCC--------------------------------------------------CCcHhhHHHH
Q 027083          118 KLKKTFEASRVFEHLVSLGV--------------------------------------------------KPNAMSYSLL  147 (228)
Q Consensus       118 ~~~~~~~a~~~~~~m~~~g~--------------------------------------------------~p~~~t~~~l  147 (228)
                      ..|++++|.+.+++......                                                  .++...+..+
T Consensus        99 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l  178 (323)
T d1fcha_          99 NESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGL  178 (323)
T ss_dssp             HTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHH
T ss_pred             ccccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhh
Confidence            99999999998887654311                                                  1234566777


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhhh
Q 027083          148 VDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSAS  226 (228)
Q Consensus       148 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~~  226 (228)
                      -..+...|++++|...+++..... .-+...|..+-..+...|++++|.+.+....+..-. +...+..+-.++.-.++
T Consensus       179 ~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~  255 (323)
T d1fcha_         179 GVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPG-YIRSRYNLGISCINLGA  255 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhhc-cHHHHHHHHHHHHHCCC
Confidence            778888999999999999877542 124678888888999999999999999998875422 34455555555554443

>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=98.66  E-value=3.2e-05  Score=58.92  Aligned_cols=152  Identities=5%  Similarity=-0.075  Sum_probs=114.2

Q ss_pred             HHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027083           55 FQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVS  134 (228)
Q Consensus        55 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  134 (228)
                      ..+.+.....+|. +...|..........|+.+.|..+|+++... ........|...++.+.+.|.++.|.++|+...+
T Consensus        85 ~i~~ral~~~~p~-~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~-~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~  162 (308)
T d2onda1          85 NIYERAISTLLKK-NMLLYFAYADYEESRMKYEKVHSIYNRLLAI-EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARE  162 (308)
T ss_dssp             HHHHHHHTTTTTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS-SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCC-CHHHHHHHHHHHHhcccHHHHHHHHHHHHHH-hcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            3344333333343 6778888888889999999999999999863 3333355799999999999999999999999887


Q ss_pred             CCCCCcHhhHHHHHH-HHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC-CCcc
Q 027083          135 LGVKPNAMSYSLLVD-AHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFD-IRMN  210 (228)
Q Consensus       135 ~g~~p~~~t~~~li~-~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~~~  210 (228)
                      .+.. +...|..... -+...|+.+.|..+|+.+.+. ...+...|...++.+.+.|+++.|+.+++...+.. ..|.
T Consensus       163 ~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~  238 (308)
T d2onda1         163 DART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             STTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             hCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChH
Confidence            6532 3333333222 234568999999999998865 34457889999999999999999999999987754 4543

>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=98.40  E-value=8.7e-05  Score=56.80  Aligned_cols=200  Identities=8%  Similarity=-0.033  Sum_probs=136.0

Q ss_pred             cHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHH
Q 027083            3 DLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCAN   82 (228)
Q Consensus         3 ~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~   82 (228)
                      ..++|+..+++..+..          +.....|+..-.++.+.|. +..+++..+.+.....+-  +..+|+.+-..+..
T Consensus        58 ~~~~Al~~~~~ai~ln----------P~~~~a~~~r~~~l~~l~~-~~~eal~~~~~al~~~p~--~~~a~~~~~~~~~~  124 (315)
T d2h6fa1          58 RSERAFKLTRDAIELN----------AANYTVWHFRRVLLKSLQK-DLHEEMNYITAIIEEQPK--NYQVWHHRRVLVEW  124 (315)
T ss_dssp             CCHHHHHHHHHHHHHC----------TTCHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHC----------CCChHHHHHHHHHHHHhCc-CHHHHHHHHHHHHHHHHh--hhhHHHHHhHHHHh
Confidence            4456666666555541          1224568877777777663 345555555555444443  88899999999999


Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCC------
Q 027083           83 IWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRD------  156 (228)
Q Consensus        83 ~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~------  156 (228)
                      .|+.++|...+++..+.  -+-+...|+.+-..+.+.|++++|...|+...+... -+...|+.+-..+.+.+.      
T Consensus       125 l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p-~n~~a~~~r~~~l~~~~~~~~~~~  201 (315)
T d2h6fa1         125 LRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDRAV  201 (315)
T ss_dssp             HTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             hccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC-ccHHHHHHHHHHHHHccccchhhh
Confidence            99999999999999873  334678999999999999999999999999988753 367778766555554443      


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCc-chhhHHHHHHH
Q 027083          157 QKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRM-NTENRKNILFN  220 (228)
Q Consensus       157 ~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~  220 (228)
                      .++|.+.+....+.. .-+...|+.+-..+... ..+++...+....+....+ +...+..+...
T Consensus       202 ~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~  264 (315)
T d2h6fa1         202 LEREVQYTLEMIKLV-PHNESAWNYLKGILQDR-GLSKYPNLLNQLLDLQPSHSSPYLIAFLVDI  264 (315)
T ss_dssp             HHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHTTTCCCHHHHHHHHHH
T ss_pred             hHHhHHHHHHHHHhC-CCchHHHHHHHHHHHhc-ChHHHHHHHHHHHHhCCCcCCHHHHHHHHHH
Confidence            678888887766543 22567777665555444 4577777777776654433 33344444433

>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=98.31  E-value=0.00023  Score=52.03  Aligned_cols=185  Identities=14%  Similarity=0.024  Sum_probs=115.7

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNAL  112 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  112 (228)
                      ..|..+-.+|.+.|  +...+...+.+.....|-  +..+|+.+=.++...|++++|...|++..+. . +-+...+..+
T Consensus        38 ~~~~~~G~~y~~~g--~~~~A~~~~~~al~l~p~--~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~-~-p~~~~a~~~l  111 (259)
T d1xnfa_          38 QLLYERGVLYDSLG--LRALARNDFSQALAIRPD--MPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL-D-PTYNYAHLNR  111 (259)
T ss_dssp             HHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCTHHHHHH
T ss_pred             HHHHHHHHHHHHCC--CHHHHHHHHHHhhccCCC--CHHHHhhhchHHHHHHHHHHhhhhhhHHHHH-H-hhhhhhHHHH
Confidence            35666777888888  455555555555554444  7778888888889999999999999998863 2 2235567778


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCC---------------------
Q 027083          113 IYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAG---------------------  171 (228)
Q Consensus       113 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g---------------------  171 (228)
                      -.+|...|++++|...|+...+... .+......+..++.+.+..+.+..+........                     
T Consensus       112 g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  190 (259)
T d1xnfa_         112 GIALYYGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTL  190 (259)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTSSCHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhhHHHHHHHHHHHHHH
Confidence            8888899999999999988776532 233333333333333333333322222222110                     


Q ss_pred             -------------CCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHhhh
Q 027083          172 -------------FAPS-KETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEYSA  225 (228)
Q Consensus       172 -------------~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~~~  225 (228)
                                   ..|+ ..+|..+-..+...|+.++|...++........ +...|..-...|..++
T Consensus       191 ~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~a~~~L~~l~  257 (259)
T d1xnfa_         191 MERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVH-NFVEHRYALLELSLLG  257 (259)
T ss_dssp             HHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCT-TCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhC
Confidence                         1111 234555667788899999999999998865432 3344454456665554

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.29  E-value=5.3e-05  Score=53.76  Aligned_cols=80  Identities=20%  Similarity=0.172  Sum_probs=38.6

Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAAL  161 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  161 (228)
                      ..|+++.|++.|.++.     .|+..+|..+=.+|.+.|++++|.+.|++..+.. +-+...|..+=.++.+.|+.++|.
T Consensus        17 ~~~d~~~Al~~~~~i~-----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          17 DKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HCCCHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHH
Confidence            4455555555554321     2344444445555555555555555555544433 123444555555555555555555


Q ss_pred             HHHHHH
Q 027083          162 SVIDEM  167 (228)
Q Consensus       162 ~~~~~m  167 (228)
                      +.|++.
T Consensus        91 ~~~~kA   96 (192)
T d1hh8a_          91 KDLKEA   96 (192)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555443

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.10  E-value=7.2e-05  Score=48.47  Aligned_cols=89  Identities=16%  Similarity=-0.004  Sum_probs=58.3

Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCH
Q 027083           78 LGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQ  157 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~  157 (228)
                      +.+.+.|++++|..+|++..+.  -+-+...|..+-.+|.+.|++++|...++...+.. +.++..|..+-.++...|++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            3455667777777777776652  23344556666667777777777777777766554 34666677777777777777


Q ss_pred             HHHHHHHHHHHH
Q 027083          158 KAALSVIDEMVN  169 (228)
Q Consensus       158 ~~a~~~~~~m~~  169 (228)
                      ++|...|+...+
T Consensus        88 ~~A~~~~~~a~~   99 (117)
T d1elwa_          88 EEAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHH
Confidence            777777766664

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.10  E-value=8.3e-05  Score=48.15  Aligned_cols=102  Identities=15%  Similarity=-0.017  Sum_probs=84.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChh
Q 027083          114 YAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEE  193 (228)
Q Consensus       114 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~  193 (228)
                      +.+.+.|++++|...|++..+.. +-+...|..+-.++...|++++|++.+....+.. ..+...|..+-.++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            46788899999999999988765 3478889999999999999999999999988654 346788999999999999999


Q ss_pred             hHHHHHHHHHHcCCCcchhhHHHHHH
Q 027083          194 SNDRVEALAKKFDIRMNTENRKNILF  219 (228)
Q Consensus       194 ~a~~~~~~m~~~g~~~~~~~~~~li~  219 (228)
                      +|...++...+.  .|+...+...+.
T Consensus        89 ~A~~~~~~a~~~--~p~~~~~~~~l~  112 (117)
T d1elwa_          89 EAKRTYEEGLKH--EANNPQLKEGLQ  112 (117)
T ss_dssp             HHHHHHHHHHTT--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            999999999864  455544444443

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.06  E-value=2.6e-05  Score=51.26  Aligned_cols=93  Identities=12%  Similarity=0.121  Sum_probs=46.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCH---HHHHHHHHHHHhCCCCCcH-hhHHHHHHH
Q 027083           75 CVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKT---FEASRVFEHLVSLGVKPNA-MSYSLLVDA  150 (228)
Q Consensus        75 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~---~~a~~~~~~m~~~g~~p~~-~t~~~li~~  150 (228)
                      .+++.+...++++.|.+.|+.....  -+.+..++..+-.++.+.++.   ++|..+|++..+....|+. .+|..+=.+
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            4455555555566666666555542  122344455555555543332   3355555555543322221 244445555


Q ss_pred             HHccCCHHHHHHHHHHHHH
Q 027083          151 HLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       151 ~~~~g~~~~a~~~~~~m~~  169 (228)
                      |.+.|++++|.+.|++..+
T Consensus        82 y~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHH
Confidence            5555566666555555554

>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=98.04  E-value=0.00021  Score=54.61  Aligned_cols=165  Identities=6%  Similarity=-0.022  Sum_probs=122.9

Q ss_pred             hHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHhhcCCCCCCHHhHHHH
Q 027083           34 SLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIW-DLDRAYQTFEAVGSSFGLTPDIHSYNAL  112 (228)
Q Consensus        34 ~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~p~~~~~~~l  112 (228)
                      .|+-+-..+.+.+  ...+++....+.....|-  +...|+..-.++...| +.++|...++...+.  -+-+..+|+.+
T Consensus        45 a~~~~~~~~~~~e--~~~~Al~~~~~ai~lnP~--~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~--~p~~~~a~~~~  118 (315)
T d2h6fa1          45 VYDYFRAVLQRDE--RSERAFKLTRDAIELNAA--NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHR  118 (315)
T ss_dssp             HHHHHHHHHHHTC--CCHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHHHHHHHhCC--chHHHHHHHHHHHHHCCC--ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--HHhhhhHHHHH
Confidence            4555555666666  456666666666665554  7888888888888766 599999999998763  23356788888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-
Q 027083          113 IYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMD-  191 (228)
Q Consensus       113 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~-  191 (228)
                      -..+.+.|++++|...++.+.+... -+...|+.+-..+.+.|++++|.+.++...+.. .-+...|+.+-..+.+.+. 
T Consensus       119 ~~~~~~l~~~~eAl~~~~kal~~dp-~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~  196 (315)
T d2h6fa1         119 RVLVEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGY  196 (315)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCS
T ss_pred             hHHHHhhccHHHHHHHHhhhhhhhh-cchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHcccc
Confidence            8899999999999999999987643 378899999999999999999999999988753 2256777766666666555 


Q ss_pred             -----hhhHHHHHHHHHHcC
Q 027083          192 -----EESNDRVEALAKKFD  206 (228)
Q Consensus       192 -----~~~a~~~~~~m~~~g  206 (228)
                           +++|...+....+..
T Consensus       197 ~~~~~~~~ai~~~~~al~~~  216 (315)
T d2h6fa1         197 NDRAVLEREVQYTLEMIKLV  216 (315)
T ss_dssp             CSHHHHHHHHHHHHHHHHHS
T ss_pred             chhhhhHHhHHHHHHHHHhC
Confidence                 455666666665544

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.01  E-value=0.0008  Score=50.39  Aligned_cols=212  Identities=9%  Similarity=-0.088  Sum_probs=123.2

Q ss_pred             CccHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChh-cHHHHHHHHhchhhcC-CCCCCHHHHHHHHH
Q 027083            1 MGDLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFE-TLDSVYFQLENLSRAE-PPYKSVAAINCVIL   78 (228)
Q Consensus         1 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~~ll~   78 (228)
                      +|++++|...|.+....+....+.    .....+|+.+-.+|.+.|.. .....+.....+.... .+.....++..+..
T Consensus        50 ~~~~~~A~~~y~kA~~~~~~~~~~----~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~  125 (290)
T d1qqea_          50 RKELNLAGDSFLKAADYQKKAGNE----DEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGE  125 (290)
T ss_dssp             TTCTHHHHHHHHHHHHHHHHTTCH----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHHHHcCCC----HHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHH
Confidence            367788888888776653221110    01135788899999998852 2233333322222222 21112445555555


Q ss_pred             HHH-HcCCHHHHHHHHHHHhh---cCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcH------hhHHHH
Q 027083           79 GCA-NIWDLDRAYQTFEAVGS---SFGLTPD-IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNA------MSYSLL  147 (228)
Q Consensus        79 ~~~-~~~~~~~a~~~~~~m~~---~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~------~t~~~l  147 (228)
                      .|- ..|++++|...|++...   ..+-.+. ..+|..+...|.+.|++++|...|++..........      ..+...
T Consensus       126 ~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (290)
T d1qqea_         126 ILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKK  205 (290)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHH
T ss_pred             hHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHH
Confidence            664 46999999999988653   1122221 346788889999999999999999998765322111      123344


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCC-CC---HHHHHHHHHHHHhc--CChhhHHHHHHHHHHcCCCcchhhHHHHHHH
Q 027083          148 VDAHLTNRDQKAALSVIDEMVNAGFA-PS---KETLKKVRRRCVRE--MDEESNDRVEALAKKFDIRMNTENRKNILFN  220 (228)
Q Consensus       148 i~~~~~~g~~~~a~~~~~~m~~~g~~-p~---~~t~~~li~~~~~~--~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  220 (228)
                      +.++...|+++.|...+++..+.... ++   ......++.++-..  +.++++...++.+.    +.|+.....+.+.
T Consensus       206 ~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~----~lD~~~~~~L~~~  280 (290)
T d1qqea_         206 GLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM----RLDKWKITILNKI  280 (290)
T ss_dssp             HHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS----CCCHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh----hcCHHHHHHHHHH
Confidence            55667889999999999987754321 12   23456667766542  34556655554332    3344444444443

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.00  E-value=0.00012  Score=51.53  Aligned_cols=96  Identities=9%  Similarity=-0.030  Sum_probs=58.2

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-cHhhHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKP-NAMSYSLL  147 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~t~~~l  147 (228)
                      +.......=+.+.+.|++++|...|.+....  -+-+...|+.+-.+|.+.|++++|...|+...+.  .| +..+|..+
T Consensus         3 ~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~l   78 (201)
T d2c2la1           3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   78 (201)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHH
Confidence            4444444445666667777777777666542  1234555666666667777777777777666543  23 45566666


Q ss_pred             HHHHHccCCHHHHHHHHHHHH
Q 027083          148 VDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       148 i~~~~~~g~~~~a~~~~~~m~  168 (228)
                      -.+|.+.|++++|...|+...
T Consensus        79 g~~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHH
Confidence            666666777777766666544

>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=97.96  E-value=0.00016  Score=50.86  Aligned_cols=99  Identities=10%  Similarity=-0.032  Sum_probs=85.4

Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHH
Q 027083          103 TPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPS-KETLKK  181 (228)
Q Consensus       103 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~  181 (228)
                      .|+...+...=+.|.+.|++++|...|++..... +-++..|+.+-.+|.+.|++++|...|+...+  +.|+ ..+|..
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~   77 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFF   77 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHH
Confidence            3667777777788999999999999999987764 34788899999999999999999999998775  4564 788999


Q ss_pred             HHHHHHhcCChhhHHHHHHHHHH
Q 027083          182 VRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       182 li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      +-.++.+.|++++|...+....+
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999988765

>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=97.94  E-value=0.00028  Score=48.07  Aligned_cols=101  Identities=15%  Similarity=0.075  Sum_probs=81.5

Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCC
Q 027083           77 ILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRD  156 (228)
Q Consensus        77 l~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~  156 (228)
                      =+.|.+.|++++|...|.+..+. . +-+...|..+-.+|.+.|++++|...|+...+.. +-+...|..+..++...|+
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~-~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIEL-N-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH-S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHhhhcccc-c-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCC
Confidence            36678999999999999999873 2 3466788888889999999999999999988764 3366889999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 027083          157 QKAALSVIDEMVNAGFAPS-KETLKKV  182 (228)
Q Consensus       157 ~~~a~~~~~~m~~~g~~p~-~~t~~~l  182 (228)
                      +++|.+.+++....  .|+ ...+..+
T Consensus        94 ~~eA~~~~~~a~~~--~p~~~~~~~~l  118 (159)
T d1a17a_          94 FRAALRDYETVVKV--KPHDKDAKMKY  118 (159)
T ss_dssp             HHHHHHHHHHHHHH--STTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHc--CCCCHHHHHHH
Confidence            99999999988774  354 3444333

>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=97.89  E-value=9.2e-05  Score=48.46  Aligned_cols=106  Identities=8%  Similarity=0.075  Sum_probs=79.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCH---HHHHHHHHHHHHCCCCCCH-HHHHHHHHH
Q 027083          110 NALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQ---KAALSVIDEMVNAGFAPSK-ETLKKVRRR  185 (228)
Q Consensus       110 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~---~~a~~~~~~m~~~g~~p~~-~t~~~li~~  185 (228)
                      ..+++.+...+++++|++.|+.....+ ..+..++..+-.++.+.++.   ++|+++|++.....-.|+. .++..+-.+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            567888888999999999999988765 34778888888888876554   4688889887765544443 466677788


Q ss_pred             HHhcCChhhHHHHHHHHHHcCCCcchhhHHHHH
Q 027083          186 CVREMDEESNDRVEALAKKFDIRMNTENRKNIL  218 (228)
Q Consensus       186 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  218 (228)
                      |.+.|++++|...++.+.+..  |+......+.
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~--P~~~~A~~l~  112 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTE--PQNNQAKELE  112 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHhC--cCCHHHHHHH
Confidence            889999999999999998854  5554444433

>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=97.89  E-value=0.00022  Score=48.56  Aligned_cols=95  Identities=13%  Similarity=-0.042  Sum_probs=66.8

Q ss_pred             HHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHH
Q 027083           35 LYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIY  114 (228)
Q Consensus        35 ~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  114 (228)
                      +..--+.|.+.|  +...+...+.+.....|.  +...|..+-.+|...|++++|...|+...+-  -+-+...|..+..
T Consensus        13 l~~~gn~~~~~~--~y~~A~~~~~~al~~~p~--~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~p~~~~a~~~~g~   86 (159)
T d1a17a_          13 LKTQANDYFKAK--DYENAIKFYSQAIELNPS--NAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAA   86 (159)
T ss_dssp             HHHHHHHHHHTT--CHHHHHHHHHHHHHHSTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHcC--CHHHHHHHhhhccccchh--hhhhhhhhHHHHHhccccchHHHHHHHHHHH--cccchHHHHHHHH
Confidence            344456777777  455555555555554443  7778888888888888888888888887762  2234467888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC
Q 027083          115 AFGKLKKTFEASRVFEHLVSL  135 (228)
Q Consensus       115 ~~~~~~~~~~a~~~~~~m~~~  135 (228)
                      +|...|++++|...+++..+.
T Consensus        87 ~~~~~g~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          87 SNMALGKFRAALRDYETVVKV  107 (159)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHc
Confidence            888888888888888887765

>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=97.82  E-value=0.0021  Score=46.59  Aligned_cols=132  Identities=8%  Similarity=-0.114  Sum_probs=96.5

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHH
Q 027083           70 VAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVD  149 (228)
Q Consensus        70 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~  149 (228)
                      ..+|..+=..|.+.|+.++|...|++...-  -+-+..+|+.+=.+|.+.|++++|...|++..+... -+..+|..+-.
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~  113 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGI  113 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhcc--CCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHh-hhhhhHHHHHH
Confidence            345666667888999999999999999863  223566889999999999999999999999987642 25667888889


Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHc
Q 027083          150 AHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKF  205 (228)
Q Consensus       150 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~  205 (228)
                      ++...|++++|.+.|+...+.. ..+......+..++.+.+..+....+.......
T Consensus       114 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (259)
T d1xnfa_         114 ALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  168 (259)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             HHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc
Confidence            9999999999999999887643 223444333444445555545554554544443

>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=97.75  E-value=0.00017  Score=46.25  Aligned_cols=85  Identities=20%  Similarity=0.189  Sum_probs=60.5

Q ss_pred             HHHHcCCHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCH
Q 027083           79 GCANIWDLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQ  157 (228)
Q Consensus        79 ~~~~~~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~  157 (228)
                      .+.+.|++++|...|++..+.   .| +...|..+-.++.+.|++++|...|++..+.. +-+...|..+-.+|...|+.
T Consensus        25 ~~~~~g~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQK---EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHhhhccc---ccccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCH
Confidence            455677888888888877763   23 46677777777788888888888887776653 23567777777777777888


Q ss_pred             HHHHHHHHHH
Q 027083          158 KAALSVIDEM  167 (228)
Q Consensus       158 ~~a~~~~~~m  167 (228)
                      ++|.+.+++.
T Consensus       101 ~~A~~~l~~~  110 (112)
T d1hxia_         101 NAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8887777664

>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=97.72  E-value=0.0045  Score=46.24  Aligned_cols=170  Identities=11%  Similarity=-0.015  Sum_probs=110.5

Q ss_pred             HHHHHHHHHhhChhcHHHH-HHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc---CCCCCC--HHh
Q 027083           35 LYPLVVACSRKGFETLDSV-YFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSS---FGLTPD--IHS  108 (228)
Q Consensus        35 ~~~ll~~~~~~g~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~p~--~~~  108 (228)
                      +..+-..+...|..+.+.. +.................++......+...++...+...+.+....   .+..+.  ...
T Consensus       136 ~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~  215 (366)
T d1hz4a_         136 VRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNA  215 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHH
T ss_pred             HHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHH
Confidence            3445566666664222222 2222222222222234556666677777889998888887765431   121121  234


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCC---CcHhhHHHHHHHHHccCCHHHHHHHHHHHHH----CCCCCCH-HHHH
Q 027083          109 YNALIYAFGKLKKTFEASRVFEHLVSLGVK---PNAMSYSLLVDAHLTNRDQKAALSVIDEMVN----AGFAPSK-ETLK  180 (228)
Q Consensus       109 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~---p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~~-~t~~  180 (228)
                      +..+...+...|+++.|...++........   .....+..+-..+...|++++|...+++...    .+..|+. .++.
T Consensus       216 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  295 (366)
T d1hz4a_         216 NKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLL  295 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHH
Confidence            566677888999999999999886554322   2244566678889999999999999988763    4555553 5667


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHH
Q 027083          181 KVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       181 ~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      .+-..+.+.|+.++|...+....+
T Consensus       296 ~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         296 LLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            777889999999999998877654

>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=97.68  E-value=0.0047  Score=45.97  Aligned_cols=173  Identities=8%  Similarity=-0.045  Sum_probs=111.6

Q ss_pred             hHHHHHHHHHhhCh-hcHHHHHHHHhchhhcCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc---CC-CCCCHH
Q 027083           34 SLYPLVVACSRKGF-ETLDSVYFQLENLSRAEP-PYKSVAAINCVILGCANIWDLDRAYQTFEAVGSS---FG-LTPDIH  107 (228)
Q Consensus        34 ~~~~ll~~~~~~g~-~~~~~~~~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~-~~p~~~  107 (228)
                      .|......|...+. ......+........... +..-..+|+.+-.+|.+.|++++|...+++...-   .+ ......
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  118 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHH
Confidence            46666666666664 333444443333322221 1113467888889999999999999999975431   11 111244


Q ss_pred             hHHHHHHHHH-hcCCHHHHHHHHHHHHh----CCCCC-cHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCC-----CCH
Q 027083          108 SYNALIYAFG-KLKKTFEASRVFEHLVS----LGVKP-NAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFA-----PSK  176 (228)
Q Consensus       108 ~~~~li~~~~-~~~~~~~a~~~~~~m~~----~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-----p~~  176 (228)
                      ++..+...|. ..|++++|...+++..+    .+-.+ -..+|..+...+...|++++|.+++++.......     +..
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~  198 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhH
Confidence            5666666774 46999999999988643    22222 2456888899999999999999999998764321     121


Q ss_pred             -HHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          177 -ETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       177 -~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                       ..+......+...|+.+.|...++...+..
T Consensus       199 ~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         199 KDYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence             223334445667899999999988877654

>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=97.65  E-value=0.0013  Score=45.82  Aligned_cols=99  Identities=16%  Similarity=0.106  Sum_probs=68.4

Q ss_pred             HHHHcCCHHHHHHHHHHHhhcC-C-CCCC------------------HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 027083           79 GCANIWDLDRAYQTFEAVGSSF-G-LTPD------------------IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVK  138 (228)
Q Consensus        79 ~~~~~~~~~~a~~~~~~m~~~~-~-~~p~------------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~  138 (228)
                      .....|++++|.+.|.+...-. | +.++                  ...+..+...+.+.|++++|...+++..+.. .
T Consensus        20 ~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P   98 (179)
T d2ff4a2          20 HAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEH-P   98 (179)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhC-C
Confidence            4556778888877777765410 1 1111                  1345677777888888888888888877654 3


Q ss_pred             CcHhhHHHHHHHHHccCCHHHHHHHHHHHH-----HCCCCCCHHH
Q 027083          139 PNAMSYSLLVDAHLTNRDQKAALSVIDEMV-----NAGFAPSKET  178 (228)
Q Consensus       139 p~~~t~~~li~~~~~~g~~~~a~~~~~~m~-----~~g~~p~~~t  178 (228)
                      -+...|..++.+|.+.|+..+|.+.|+++.     +.|+.|+..+
T Consensus        99 ~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          99 YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            477778888888888888888888887764     3578887765

>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=97.64  E-value=0.00034  Score=44.72  Aligned_cols=88  Identities=13%  Similarity=0.020  Sum_probs=75.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcC
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAP-SKETLKKVRRRCVREM  190 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~  190 (228)
                      +-..+.+.|++++|...|++..+... -+...|..+-.++.+.|++++|+..|+...+.  .| +...|..+-..|...|
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccccc-ccchhhhhhhhhhhhhhhHHHhhccccccccc--ccccccchHHHHHHHHHCC
Confidence            34567889999999999999887642 26888999999999999999999999988764  34 4788888999999999


Q ss_pred             ChhhHHHHHHHH
Q 027083          191 DEESNDRVEALA  202 (228)
Q Consensus       191 ~~~~a~~~~~~m  202 (228)
                      +.++|.+.+++.
T Consensus        99 ~~~~A~~~l~~~  110 (112)
T d1hxia_          99 NANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            999999988764

>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=97.50  E-value=0.0022  Score=44.03  Aligned_cols=102  Identities=17%  Similarity=0.102  Sum_probs=74.5

Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCCC-------------CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhH
Q 027083           78 LGCANIWDLDRAYQTFEAVGSSFGLTP-------------DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSY  144 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~~~~~p-------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~  144 (228)
                      +.+.+.|++++|...|.+...-....+             -..+|+.+-.+|.+.|++++|...++...+.. +.++..|
T Consensus        21 ~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~   99 (170)
T d1p5qa1          21 TVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGL   99 (170)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhh
Confidence            456677888888888877654211111             13456777888999999999999999988764 2378889


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHH
Q 027083          145 SLLVDAHLTNRDQKAALSVIDEMVNAGFAP-SKETLKKV  182 (228)
Q Consensus       145 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~l  182 (228)
                      ..+-.+|...|++++|...|+...+.  .| +......+
T Consensus       100 ~~~g~~~~~~g~~~~A~~~~~~al~l--~P~n~~~~~~l  136 (170)
T d1p5qa1         100 SRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQL  136 (170)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            99999999999999999999988763  45 34444333

>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=97.45  E-value=0.0076  Score=42.04  Aligned_cols=134  Identities=7%  Similarity=-0.088  Sum_probs=94.2

Q ss_pred             HhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCH
Q 027083           43 SRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKT  122 (228)
Q Consensus        43 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~  122 (228)
                      ...|  +...++..+.+.   .+  |+..+|..+=.++...|++++|.+.|++..+. . +-+...|+.+=.+|.+.|++
T Consensus        16 ~~~~--d~~~Al~~~~~i---~~--~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l-d-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          16 ADKK--DWKGALDAFSAV---QD--PHSRICFNIGCMYTILKNMTEAEKAFTRSINR-D-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHTT--CHHHHHHHHHTS---SS--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHCC--CHHHHHHHHHhc---CC--CCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH-h-hhhhhhHHHHHHHHHhhccH
Confidence            4444  455555555442   23  36778888889999999999999999999873 2 34566888888999999999


Q ss_pred             HHHHHHHHHHHhCCCC--------------Cc-HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 027083          123 FEASRVFEHLVSLGVK--------------PN-AMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRR  185 (228)
Q Consensus       123 ~~a~~~~~~m~~~g~~--------------p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  185 (228)
                      ++|.+.|++.......              ++ ..++..+-.++.+.|++++|.+.|.........|+.......+..
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~~~Al~~  164 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKAMEC  164 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHHHHHHHH
Confidence            9999999987643111              11 244555666788899999999998877765555544444433433

>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=97.42  E-value=0.0038  Score=41.92  Aligned_cols=91  Identities=13%  Similarity=0.001  Sum_probs=58.0

Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCC---CC-----------CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhh
Q 027083           78 LGCANIWDLDRAYQTFEAVGSSFGL---TP-----------DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMS  143 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~~~~---~p-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t  143 (228)
                      +.+.+.|++.+|...|.+...-...   .+           ...+|+.+-.+|.+.|++++|...+++..... +.+..+
T Consensus        25 ~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka  103 (153)
T d2fbna1          25 NEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKA  103 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhh
Confidence            4555777888888777776542111   11           12355666667777777777777777766553 236667


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHH
Q 027083          144 YSLLVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       144 ~~~li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      |..+-.++...|++++|...|+...+
T Consensus       104 ~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1         104 LYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            77777777777777777777776655

>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=97.41  E-value=0.0039  Score=43.20  Aligned_cols=108  Identities=9%  Similarity=0.027  Sum_probs=85.1

Q ss_pred             CHHhHHHHH---HHHHhcCCHHHHHHHHHHHHhC--CC-CCc------------------HhhHHHHHHHHHccCCHHHH
Q 027083          105 DIHSYNALI---YAFGKLKKTFEASRVFEHLVSL--GV-KPN------------------AMSYSLLVDAHLTNRDQKAA  160 (228)
Q Consensus       105 ~~~~~~~li---~~~~~~~~~~~a~~~~~~m~~~--g~-~p~------------------~~t~~~li~~~~~~g~~~~a  160 (228)
                      |...|-.++   ......|++++|...|++....  |- .++                  ...+..+...+.+.|++++|
T Consensus         7 D~~~f~~~~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~A   86 (179)
T d2ff4a2           7 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAV   86 (179)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHH
Confidence            444455444   4578889999999999987764  21 111                  24578889999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH-----HcCCCcchhh
Q 027083          161 LSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAK-----KFDIRMNTEN  213 (228)
Q Consensus       161 ~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~-----~~g~~~~~~~  213 (228)
                      ...++...... .-+...|..++.++.+.|+.++|.+.|+...     +.|+.|+..+
T Consensus        87 l~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          87 IAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            99999988743 2378999999999999999999999998874     4799998765

>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=97.38  E-value=0.0027  Score=48.23  Aligned_cols=193  Identities=7%  Similarity=-0.058  Sum_probs=122.7

Q ss_pred             cHHHHHHHHHHHHHHhccchhhhhhhhCcchhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHH-HHHH
Q 027083            3 DLQRAFITLNEFETAYGDSIIDMEEIFSPFTSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVI-LGCA   81 (228)
Q Consensus         3 ~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll-~~~~   81 (228)
                      .+++|+..++...+..          +.....|..+..++.+.+..+...+.....+.....+.  +...+...+ ..+.
T Consensus        88 ~~~~al~~~~~~l~~~----------pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~--~~~~~~~~~~~~~~  155 (334)
T d1dcea1          88 LVKAELGFLESCLRVN----------PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER--NFHCWDYRRFVAAQ  155 (334)
T ss_dssp             HHHHHHHHHHHHHHHC----------TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhC----------CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCch--hhhhhhhHHHHHHH
Confidence            4556666666655441          22244577777777777765566666666665554443  566665444 5566


Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHH------------------------------HHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEA------------------------------SRVFEH  131 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a------------------------------~~~~~~  131 (228)
                      ..+..+.|...++..... . +-+...|+.+-..+.+.|++++|                              ...+..
T Consensus       156 ~~~~~~~Al~~~~~~i~~-~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~  233 (334)
T d1dcea1         156 AAVAPAEELAFTDSLITR-N-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHR  233 (334)
T ss_dssp             TCCCHHHHHHHHHTTTTT-T-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHH
T ss_pred             hccccHHHHHHHHHHHHc-C-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            789999999999988763 2 23556677777777777665433                              222222


Q ss_pred             HHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcc
Q 027083          132 LVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAP-SKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMN  210 (228)
Q Consensus       132 m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~  210 (228)
                      ..... .++...+..+...+...|+.++|.+.+.+....  .| +..++..+...+.+.|+.++|...+....+.  .|+
T Consensus       234 ~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~  308 (334)
T d1dcea1         234 WLLGR-AEPLFRCELSVEKSTVLQSELESCKELQELEPE--NKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPM  308 (334)
T ss_dssp             HHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGG
T ss_pred             HHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhh--CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--Ccc
Confidence            22221 233444555566666778888888888765543  23 3467777788899999999999999999875  454


Q ss_pred             hhhH
Q 027083          211 TENR  214 (228)
Q Consensus       211 ~~~~  214 (228)
                      ...|
T Consensus       309 ~~~y  312 (334)
T d1dcea1         309 RAAY  312 (334)
T ss_dssp             GHHH
T ss_pred             cHHH
Confidence            4444

>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=97.15  E-value=0.011  Score=40.14  Aligned_cols=104  Identities=12%  Similarity=0.065  Sum_probs=72.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcCC--CCC-----------CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHh
Q 027083           76 VILGCANIWDLDRAYQTFEAVGSSFG--LTP-----------DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAM  142 (228)
Q Consensus        76 ll~~~~~~~~~~~a~~~~~~m~~~~~--~~p-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  142 (228)
                      .=+.+.+.|++++|...|.+...-..  ..+           ...+|+.+-.+|.+.|++++|...++...+.. +.+..
T Consensus        21 ~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~   99 (168)
T d1kt1a1          21 KGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEK   99 (168)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHH
Confidence            34556667777777777766442111  111           12346667778899999999999999987764 45788


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH-HHHHHH
Q 027083          143 SYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSK-ETLKKV  182 (228)
Q Consensus       143 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~l  182 (228)
                      .|..+-.++...|++++|.+.|+.....  .|+. .....+
T Consensus       100 a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~~~~l  138 (168)
T d1kt1a1         100 GLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQI  138 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            8889999999999999999999988764  4544 444433

>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=97.12  E-value=0.0032  Score=40.93  Aligned_cols=90  Identities=10%  Similarity=0.136  Sum_probs=53.5

Q ss_pred             HHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-Cc-----HhhHHHHHHHH
Q 027083           78 LGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVK-PN-----AMSYSLLVDAH  151 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~-----~~t~~~li~~~  151 (228)
                      +.+...|++++|...|.+...-  -+.+...|..+-.+|.+.|++++|...+++....... ++     ..+|..+-..+
T Consensus        12 ~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~   89 (128)
T d1elra_          12 NDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSY   89 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHH
Confidence            4566667777777777776652  2234556666667777777777777777765442100 00     23455555556


Q ss_pred             HccCCHHHHHHHHHHHHH
Q 027083          152 LTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       152 ~~~g~~~~a~~~~~~m~~  169 (228)
                      ...+++++|.+.|+.-..
T Consensus        90 ~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          90 FKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHh
Confidence            666667777766665443

>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=97.11  E-value=0.0033  Score=40.85  Aligned_cols=92  Identities=8%  Similarity=-0.024  Sum_probs=60.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHC---CCC--CC-HHHHHHHHHHH
Q 027083          113 IYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNA---GFA--PS-KETLKKVRRRC  186 (228)
Q Consensus       113 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~--p~-~~t~~~li~~~  186 (228)
                      =..|.+.|++++|...|++..+... .+...|..+-.+|.+.|++++|.+.+++..+.   ...  +. ..+|..+-..+
T Consensus        11 G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~   89 (128)
T d1elra_          11 GNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSY   89 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHH
Confidence            3456777777777777777766542 35677777777777777777777777776531   111  11 24666666777


Q ss_pred             HhcCChhhHHHHHHHHHHc
Q 027083          187 VREMDEESNDRVEALAKKF  205 (228)
Q Consensus       187 ~~~~~~~~a~~~~~~m~~~  205 (228)
                      ...++++.|...+......
T Consensus        90 ~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          90 FKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHhc
Confidence            7777777777777666554

>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=97.04  E-value=0.021  Score=38.83  Aligned_cols=96  Identities=15%  Similarity=0.006  Sum_probs=76.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCC-CC-------------cHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC
Q 027083          110 NALIYAFGKLKKTFEASRVFEHLVSLGV-KP-------------NAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPS  175 (228)
Q Consensus       110 ~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p-------------~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  175 (228)
                      ...=+.+.+.|++++|...|++..+.-- .+             -..+|+.+-.+|.+.|++++|+..++...... +-+
T Consensus        17 ~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~   95 (170)
T d1p5qa1          17 KERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNN   95 (170)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-ccc
Confidence            3344578889999999999988764311 11             13567778888999999999999999888653 226


Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          176 KETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       176 ~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      ...|..+-.++...|+++.|...++...+..
T Consensus        96 ~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          96 EKGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            8889889999999999999999999998864

>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=96.91  E-value=0.021  Score=38.57  Aligned_cols=91  Identities=10%  Similarity=-0.011  Sum_probs=58.0

Q ss_pred             HHHHHcCCHHHHHHHHHHHhhc-------------CCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhh
Q 027083           78 LGCANIWDLDRAYQTFEAVGSS-------------FGLTP-DIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMS  143 (228)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~m~~~-------------~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t  143 (228)
                      ..+...|+++.|...|.+..+.             ..+.| +...|+.+-.+|.+.|++++|...+++..+.. +.++..
T Consensus        35 ~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a  113 (169)
T d1ihga1          35 NTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKA  113 (169)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhH
Confidence            3445566666666666554320             01112 33355666667777788888888887777654 236667


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHH
Q 027083          144 YSLLVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       144 ~~~li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      |..+-.++.+.|++++|.+.|+...+
T Consensus       114 ~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1         114 LYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHccCHHHHHHHHHHHHH
Confidence            77777777788888888877777665

>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=96.86  E-value=0.0011  Score=49.13  Aligned_cols=119  Identities=11%  Similarity=-0.032  Sum_probs=73.1

Q ss_pred             HHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-HhhHHHHHHHHHccCCHHH
Q 027083           81 ANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPN-AMSYSLLVDAHLTNRDQKA  159 (228)
Q Consensus        81 ~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~  159 (228)
                      .+.|++++|...+++..+.  -+-|...+..+...|+..|++++|.+.|+...+.  .|+ ...+..+-..+...+..++
T Consensus         7 L~~G~l~eAl~~l~~al~~--~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHH
Confidence            3568899999999988873  3446678888999999999999999999888765  344 3344433333332222222


Q ss_pred             HHHHHHHHHHCCC--CCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          160 ALSVIDEMVNAGF--APS-KETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       160 a~~~~~~m~~~g~--~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      +..   ......+  .|+ ...+......+.+.|+.++|...+....+..
T Consensus        83 a~~---~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          83 FAQ---GAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             HTT---SCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHH---HhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            111   1111111  122 2333333455677799999998888877643

>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=96.69  E-value=0.041  Score=37.05  Aligned_cols=94  Identities=10%  Similarity=-0.002  Sum_probs=72.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC--------------CCC-CcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSL--------------GVK-PNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSK  176 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~--------------g~~-p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  176 (228)
                      .-..+.+.|++++|...|++..+.              .+. .+...|+.+-.++.+.|++++|+..+++..+.. ..+.
T Consensus        33 ~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~  111 (169)
T d1ihga1          33 IGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNT  111 (169)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhh
Confidence            445567788888888888765421              011 244566777788899999999999999988643 3357


Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          177 ETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       177 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      ..|..+-.++.+.|+++.|...+....+..
T Consensus       112 ~a~~~~g~~~~~l~~~~~A~~~~~~al~l~  141 (169)
T d1ihga1         112 KALYRRAQGWQGLKEYDQALADLKKAQEIA  141 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hHHHhHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            888889999999999999999999999864

>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=96.58  E-value=0.046  Score=36.25  Aligned_cols=94  Identities=13%  Similarity=-0.024  Sum_probs=76.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCC----CC-----------cHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSLGV----KP-----------NAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSK  176 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~g~----~p-----------~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  176 (228)
                      -=+.+.+.|++++|...|++..+.-.    .+           ...+|+.+-.+|.+.|++++|++.++...... +.+.
T Consensus        23 ~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~  101 (153)
T d2fbna1          23 EGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNV  101 (153)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-chhh
Confidence            33567788999999999998765311    11           23567788889999999999999999987643 3468


Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          177 ETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       177 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      .+|..+-.++...|+++.|...+....+..
T Consensus       102 ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1         102 KALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             hhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999999999999999999999999998865

>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=96.42  E-value=0.06  Score=35.70  Aligned_cols=97  Identities=12%  Similarity=-0.034  Sum_probs=60.6

Q ss_pred             HHHHH--HHHHHHcCCHHHHHHHHHHHhhcCCCCCC----------HHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----
Q 027083           72 AINCV--ILGCANIWDLDRAYQTFEAVGSSFGLTPD----------IHSYNALIYAFGKLKKTFEASRVFEHLVSL----  135 (228)
Q Consensus        72 ~~~~l--l~~~~~~~~~~~a~~~~~~m~~~~~~~p~----------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----  135 (228)
                      +|..+  -..+...|++++|...|++...-..-.|+          ..+|+.+-.+|.+.|++++|..-+++..+.    
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~   88 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   88 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccc
Confidence            45544  33445668888888888887641111122          356777778888888888888777775431    


Q ss_pred             -CCCCc-----HhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 027083          136 -GVKPN-----AMSYSLLVDAHLTNRDQKAALSVIDEMV  168 (228)
Q Consensus       136 -g~~p~-----~~t~~~li~~~~~~g~~~~a~~~~~~m~  168 (228)
                       ...++     ...|+.+-.+|...|++++|.+.|++..
T Consensus        89 ~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          89 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence             11111     2245556677777788888877777654

>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=96.32  E-value=0.12  Score=38.00  Aligned_cols=133  Identities=13%  Similarity=-0.008  Sum_probs=92.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhc---CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC--cHh
Q 027083           72 AINCVILGCANIWDLDRAYQTFEAVGSS---FGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSL----GVKP--NAM  142 (228)
Q Consensus        72 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p--~~~  142 (228)
                      .+..+-..+...|+++.+...+......   .+.......+......+...+....+...+.+....    +..+  ...
T Consensus       135 ~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~  214 (366)
T d1hz4a_         135 LVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISN  214 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHH
T ss_pred             HHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHH
Confidence            4445556778899999999999887652   122233445666667788889999988887765432    2111  234


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          143 SYSLLVDAHLTNRDQKAALSVIDEMVNAGFA---PSKETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       143 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~---p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                      .+..+...+...|+++.|...++........   .....+..+...+...|+.+.|...++....
T Consensus       215 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  279 (366)
T d1hz4a_         215 ANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNE  279 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4666777788899999999998876543222   2345566677889999999999999887764

>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=96.17  E-value=0.027  Score=37.19  Aligned_cols=115  Identities=15%  Similarity=0.033  Sum_probs=70.6

Q ss_pred             HcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHh----------cCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHH
Q 027083           82 NIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGK----------LKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAH  151 (228)
Q Consensus        82 ~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----------~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~  151 (228)
                      +.+.+++|...|+...+.  -+-|...+..+=.+|..          .+.+++|...|++..+.. +-+..+|+.+=.+|
T Consensus         9 r~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y   85 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   85 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHH
Confidence            455677888888887663  12334455555455543          244577888888877654 23566777776666


Q ss_pred             HccC-----------CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCC
Q 027083          152 LTNR-----------DQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDI  207 (228)
Q Consensus       152 ~~~g-----------~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~  207 (228)
                      ...|           .+++|.+.|+...+  +.|+-..|..-+..+      ..+.+++....+.|+
T Consensus        86 ~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          86 TSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTHHHHHHHHHHSSS
T ss_pred             HHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH------HHHHHHHHHHHHHhc
Confidence            6543           34667777776664  567776666655554      345666666666553

>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=95.91  E-value=0.012  Score=43.36  Aligned_cols=120  Identities=12%  Similarity=0.036  Sum_probs=75.1

Q ss_pred             HhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHH-hHHHHHHHHHhcCC
Q 027083           43 SRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIH-SYNALIYAFGKLKK  121 (228)
Q Consensus        43 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~~~  121 (228)
                      .+.|  +..++...+.+.....|.  |...+..+...++..|++++|...++...+.   .|+.. .+..+-..+...+.
T Consensus         7 L~~G--~l~eAl~~l~~al~~~P~--d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~~ll~a~~~   79 (264)
T d1zbpa1           7 LSEG--QLQQALELLIEAIKASPK--DASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQA   79 (264)
T ss_dssp             TTTT--CHHHHHHHHHHHHHTCTT--CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHH
T ss_pred             HHCC--CHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhccc
Confidence            3445  466666666666665655  8999999999999999999999999999863   46544 33333333322222


Q ss_pred             HHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 027083          122 TFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       122 ~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      .+++..-...-...+-.++...+......+.+.|+.++|.+.+.+..+
T Consensus        80 ~~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1          80 RKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             HHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            222211111101111123344455556677889999999999988775

>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=95.87  E-value=0.13  Score=34.46  Aligned_cols=97  Identities=13%  Similarity=0.012  Sum_probs=75.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCC-----------cHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC
Q 027083          109 YNALIYAFGKLKKTFEASRVFEHLVSL---GVKP-----------NAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAP  174 (228)
Q Consensus       109 ~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~p-----------~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  174 (228)
                      +.-.-..+.+.|++++|...|++....   ...+           ....|+.+-.+|.+.|++++|+..++...... +.
T Consensus        18 ~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~   96 (168)
T d1kt1a1          18 VKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SA   96 (168)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cc
Confidence            444556788899999999999876532   1111           12446667778899999999999999987643 44


Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHHcC
Q 027083          175 SKETLKKVRRRCVREMDEESNDRVEALAKKFD  206 (228)
Q Consensus       175 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g  206 (228)
                      +..+|..+-.++...|++++|...+....+..
T Consensus        97 ~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          97 NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            67888889999999999999999999988754

>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=95.81  E-value=0.13  Score=33.98  Aligned_cols=98  Identities=13%  Similarity=-0.023  Sum_probs=72.4

Q ss_pred             HhHHHH--HHHHHhcCCHHHHHHHHHHHHhCCC-CC----------cHhhHHHHHHHHHccCCHHHHHHHHHHHHHC---
Q 027083          107 HSYNAL--IYAFGKLKKTFEASRVFEHLVSLGV-KP----------NAMSYSLLVDAHLTNRDQKAALSVIDEMVNA---  170 (228)
Q Consensus       107 ~~~~~l--i~~~~~~~~~~~a~~~~~~m~~~g~-~p----------~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~---  170 (228)
                      .+|..+  -..+.+.|++++|...|++..+... .|          ....|+.+-.+|...|++++|.+.+++....   
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            355655  4456778999999999999765311 12          2467999999999999999999988886631   


Q ss_pred             --CCCCCH-----HHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 027083          171 --GFAPSK-----ETLKKVRRRCVREMDEESNDRVEALAKK  204 (228)
Q Consensus       171 --g~~p~~-----~t~~~li~~~~~~~~~~~a~~~~~~m~~  204 (228)
                        ...++.     ..++.+-.+|...|+.++|...+....+
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence              223332     3456667889999999999999888665

>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=95.58  E-value=0.11  Score=31.57  Aligned_cols=65  Identities=18%  Similarity=0.191  Sum_probs=38.4

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHH
Q 027083          156 DQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNL  221 (228)
Q Consensus       156 ~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l  221 (228)
                      +.-++.+-++.+....+.|+.....+.+++|.|.+++..|.++++-+..+ +.++..+|.-++.-+
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilqel   85 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQEL   85 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHHHH
Confidence            44445555666666666677777677777777777777777666665532 222345565555544

>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=95.48  E-value=0.31  Score=36.12  Aligned_cols=144  Identities=8%  Similarity=0.016  Sum_probs=93.7

Q ss_pred             HHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHc---C-------CHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcC
Q 027083           51 DSVYFQLENLSRAEPPYKSVAAINCVILGCANI---W-------DLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLK  120 (228)
Q Consensus        51 ~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~---~-------~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~  120 (228)
                      ..++....+.....|-  +...|+..=..+...   +       ++++|+.+++...+.  -+-+...|..+-.++...+
T Consensus        46 ~~al~~~~~~l~~~P~--~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~--~pk~~~~~~~~~~~~~~~~  121 (334)
T d1dcea1          46 ESVLELTSQILGANPD--FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLP  121 (334)
T ss_dssp             HHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCS
T ss_pred             HHHHHHHHHHHHHCCC--cHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHh--CCCcHHHHHHhhHHHHHhc
Confidence            4455555555554443  555665544444332   2       267888888888763  2335556676766666665


Q ss_pred             --CHHHHHHHHHHHHhCCCCCcHhhHHH-HHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHH
Q 027083          121 --KTFEASRVFEHLVSLGVKPNAMSYSL-LVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDR  197 (228)
Q Consensus       121 --~~~~a~~~~~~m~~~g~~p~~~t~~~-li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~  197 (228)
                        ++++|...++...+... ++...+.. .-..+...|..++|...++...... .-+...|+.+-..+.+.|+.++|..
T Consensus       122 ~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~  199 (334)
T d1dcea1         122 EPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGP  199 (334)
T ss_dssp             SCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHH
Confidence              47889999988876532 34555544 3466677889999999888776643 2357788888888888888887765


Q ss_pred             HHH
Q 027083          198 VEA  200 (228)
Q Consensus       198 ~~~  200 (228)
                      .+.
T Consensus       200 ~~~  202 (334)
T d1dcea1         200 QGR  202 (334)
T ss_dssp             CCS
T ss_pred             HHH
Confidence            443

>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=94.91  E-value=0.5  Score=35.62  Aligned_cols=139  Identities=7%  Similarity=0.061  Sum_probs=91.0

Q ss_pred             HHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHH
Q 027083           38 LVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFG  117 (228)
Q Consensus        38 ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~  117 (228)
                      +.+-|.+.|..+.+..++..            ..-|..++..+.+.++.+.|.+++....       +..+|..+...+.
T Consensus        20 i~~~c~~~~lye~A~~lY~~------------~~d~~rl~~~~v~l~~~~~avd~~~k~~-------~~~~~k~~~~~l~   80 (336)
T d1b89a_          20 VGDRCYDEKMYDAAKLLYNN------------VSNFGRLASTLVHLGEYQAAVDGARKAN-------STRTWKEVCFACV   80 (336)
T ss_dssp             ---------CTTTHHHHHHH------------TTCHHHHHHHHHTTTCHHHHHHHHHHHT-------CHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHh------------CCCHHHHHHHHHhhccHHHHHHHHHHcC-------CHHHHHHHHHHHH
Confidence            66667777764444444331            1146778888888999998888765332       5668888888888


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHH
Q 027083          118 KLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDR  197 (228)
Q Consensus       118 ~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~  197 (228)
                      +......|     .+...+...++..-..++..|-..|.+++...++...... -.++...++.++..|++.+    ..+
T Consensus        81 ~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~----~~k  150 (336)
T d1b89a_          81 DGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK----PQK  150 (336)
T ss_dssp             HTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC----HHH
T ss_pred             hCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC----hHH
Confidence            88776554     2223334456667788999999999999999999876532 3567888999999999864    345


Q ss_pred             HHHHHHHc
Q 027083          198 VEALAKKF  205 (228)
Q Consensus       198 ~~~~m~~~  205 (228)
                      +.+.+...
T Consensus       151 l~e~l~~~  158 (336)
T d1b89a_         151 MREHLELF  158 (336)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhc
Confidence            66666654

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.48  E-value=0.35  Score=38.39  Aligned_cols=110  Identities=11%  Similarity=-0.003  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDA  150 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~  150 (228)
                      ..+..+-..+.+.|+.+.|...++....-   .| ..++..+=+.+...|++++|...|++..+.. +-+...|+.|=..
T Consensus       121 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~---~~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~  195 (497)
T d1ya0a1         121 VKSSQLGIISNKQTHTSAIVKPQSSSCSY---IC-QHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAIL  195 (497)
T ss_dssp             ----------------------CCHHHHH---HH-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHH
T ss_pred             HHHHHhHHHHHhCCCHHHHHHHHHHHhCC---CH-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHH
Confidence            33444444444455555555444333221   01 1234445555666666666666666655543 1244566666666


Q ss_pred             HHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 027083          151 HLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRC  186 (228)
Q Consensus       151 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~  186 (228)
                      +...|+..+|...|.+-.... .|-..++..|...+
T Consensus       196 ~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         196 ASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKAL  230 (497)
T ss_dssp             HHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHH
Confidence            666666666666555544322 23344444444433

>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=93.45  E-value=0.39  Score=28.56  Aligned_cols=60  Identities=17%  Similarity=-0.025  Sum_probs=32.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhcC----CCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027083           76 VILGCANIWDLDRAYQTFEAVGSSF----GLTPD-IHSYNALIYAFGKLKKTFEASRVFEHLVSL  135 (228)
Q Consensus        76 ll~~~~~~~~~~~a~~~~~~m~~~~----~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  135 (228)
                      +=..+.+.|+.+.|...|++..+..    ...++ ..+++.+-.+|.+.|++++|...+++..+.
T Consensus        11 lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_          11 LGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3344556666666666666554310    11122 335566666666666666666666665544

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=93.26  E-value=0.43  Score=28.86  Aligned_cols=42  Identities=17%  Similarity=0.222  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHHH
Q 027083          124 EASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVID  165 (228)
Q Consensus       124 ~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~  165 (228)
                      ++.+-++.+.....-|++....+-+.+|-|-+++..|.++|+
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE   65 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILE   65 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            344444444444444555555555555555555555555543

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=93.09  E-value=0.62  Score=29.80  Aligned_cols=120  Identities=14%  Similarity=0.066  Sum_probs=79.8

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHH
Q 027083           69 SVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLV  148 (228)
Q Consensus        69 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li  148 (228)
                      +..-||-+|--....-+-+-...+++.+.+-..+.|-. ..-.++.+|.+.+                  .+...++.-+
T Consensus        33 ~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~-Nlk~vv~C~~~~n------------------~~se~vdlAL   93 (161)
T d1wy6a1          33 TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQ-NLKSVVECGVINN------------------TLNEHVNKAL   93 (161)
T ss_dssp             CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCS-CTHHHHHHHHHTT------------------CCCHHHHHHH
T ss_pred             CccccceeeeecccccchHHHHHHHHHHhhhcCchhhh-cHHHHHHHHHHhc------------------chHHHHHHHH
Confidence            56677888877778888888888888887643322211 1233344444333                  2455666677


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCC
Q 027083          149 DAHLTNRDQKAALSVIDEMVNAGFAPSKETLKKVRRRCVREMDEESNDRVEALAKKFDIR  208 (228)
Q Consensus       149 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~  208 (228)
                      +....+|.-+.-.++.+++.+ +-+|++...-.+-.+|.+.|+..++..++...-+.|++
T Consensus        94 d~lv~~~kkd~Ld~i~~~l~k-n~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          94 DILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhccHHHHHHHHHHHHh-cCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            777777777777777777665 33667777777777888888888888888887777765

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=91.73  E-value=0.97  Score=28.86  Aligned_cols=47  Identities=13%  Similarity=0.030  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHHcCCCcchhhHHHHHHHHHh
Q 027083          176 KETLKKVRRRCVREMDEESNDRVEALAKKFDIRMNTENRKNILFNLEY  223 (228)
Q Consensus       176 ~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~l~~  223 (228)
                      ..-++..++.+...|.-+....+...+.+ +-+|+++..-.+-.++-.
T Consensus        86 se~vdlALd~lv~~~kkd~Ld~i~~~l~k-n~~i~~~~llkia~A~kk  132 (161)
T d1wy6a1          86 NEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRR  132 (161)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHh-cCCCCHHHHHHHHHHHHH
Confidence            34455566666667776776677666666 334555555555555443

>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=90.42  E-value=1.4  Score=28.31  Aligned_cols=78  Identities=17%  Similarity=0.192  Sum_probs=52.1

Q ss_pred             CCHHHHHHHHHHHhhcCCCCC-CHHhHHHHHHHHHhcC-----------CHHHHHHHHHHHHhCCCCCcHhhHHHHHHHH
Q 027083           84 WDLDRAYQTFEAVGSSFGLTP-DIHSYNALIYAFGKLK-----------KTFEASRVFEHLVSLGVKPNAMSYSLLVDAH  151 (228)
Q Consensus        84 ~~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~~-----------~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~  151 (228)
                      +.+++|...|++..+   +.| +...|..+=.+|...|           .+++|.+.|+...+.  .|+..+|..-+..+
T Consensus        55 ~~~~~Ai~~~~kAl~---l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L~~~  129 (145)
T d1zu2a1          55 QMIQEAITKFEEALL---IDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMT  129 (145)
T ss_dssp             HHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH---hcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHHHHH
Confidence            345678888887775   234 4456766666665543           357788888887764  68877777666665


Q ss_pred             HccCCHHHHHHHHHHHHHCCC
Q 027083          152 LTNRDQKAALSVIDEMVNAGF  172 (228)
Q Consensus       152 ~~~g~~~~a~~~~~~m~~~g~  172 (228)
                      .      +|.+++.+..++|+
T Consensus       130 ~------ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         130 A------KAPQLHAEAYKQGL  144 (145)
T ss_dssp             H------THHHHHHHHHHSSS
T ss_pred             H------HHHHHHHHHHHHhc
Confidence            3      46777777777664

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.38  E-value=0.81  Score=36.20  Aligned_cols=80  Identities=10%  Similarity=-0.006  Sum_probs=65.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHH
Q 027083           71 AAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPD-IHSYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVD  149 (228)
Q Consensus        71 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~  149 (228)
                      .++..+=..+...+++++|...|++...-   .|+ ...|+.+=..|...|+..+|...|.+..... .|...+++.|..
T Consensus       153 ~~~~~LG~l~~~~~~~~~A~~~y~~A~~l---~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~  228 (497)
T d1ya0a1         153 HCLVHLGDIARYRNQTSQAESYYRHAAQL---VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQK  228 (497)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHH---CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHH
Confidence            35566667778889999999999998863   454 4689999999999999999999999987765 578888888888


Q ss_pred             HHHcc
Q 027083          150 AHLTN  154 (228)
Q Consensus       150 ~~~~~  154 (228)
                      .+.+.
T Consensus       229 ~~~~~  233 (497)
T d1ya0a1         229 ALSKA  233 (497)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            77653

>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=88.36  E-value=3.8  Score=30.52  Aligned_cols=115  Identities=11%  Similarity=0.056  Sum_probs=65.3

Q ss_pred             hhHHHHHHHHHhhChhcHHHHHHHHhchhhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCCCCCHHhHHHH
Q 027083           33 TSLYPLVVACSRKGFETLDSVYFQLENLSRAEPPYKSVAAINCVILGCANIWDLDRAYQTFEAVGSSFGLTPDIHSYNAL  112 (228)
Q Consensus        33 ~~~~~ll~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~p~~~~~~~l  112 (228)
                      ..|..++..+.+.+.  ...++....+   ..    +..+|..+...|.+......+.     +.. .....+......+
T Consensus        41 ~d~~rl~~~~v~l~~--~~~avd~~~k---~~----~~~~~k~~~~~l~~~~e~~la~-----i~~-~~~~~~~d~l~~~  105 (336)
T d1b89a_          41 SNFGRLASTLVHLGE--YQAAVDGARK---AN----STRTWKEVCFACVDGKEFRLAQ-----MCG-LHIVVHADELEEL  105 (336)
T ss_dssp             TCHHHHHHHHHTTTC--HHHHHHHHHH---HT----CHHHHHHHHHHHHHTTCHHHHH-----HTT-TTTTTCHHHHHHH
T ss_pred             CCHHHHHHHHHhhcc--HHHHHHHHHH---cC----CHHHHHHHHHHHHhCcHHHHHH-----HHH-HHhhcCHHHHHHH
Confidence            345667777777663  2222222221   11    4457777777777766655432     222 1333455555677


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCHHHHHHHH
Q 027083          113 IYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQKAALSVI  164 (228)
Q Consensus       113 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~  164 (228)
                      +..|-..|.+++...+++..... -.++...++-++..|++.+ +++.++.+
T Consensus       106 v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-~~kl~e~l  155 (336)
T d1b89a_         106 INYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-PQKMREHL  155 (336)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-HHHHHHHH
T ss_pred             HHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-hHHHHHHH
Confidence            77777778877777777765432 2456666777777777754 34434333

>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=85.85  E-value=2.1  Score=25.03  Aligned_cols=58  Identities=12%  Similarity=0.006  Sum_probs=33.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC-----CCCC-cHhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 027083          112 LIYAFGKLKKTFEASRVFEHLVSL-----GVKP-NAMSYSLLVDAHLTNRDQKAALSVIDEMVN  169 (228)
Q Consensus       112 li~~~~~~~~~~~a~~~~~~m~~~-----g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  169 (228)
                      +=..+.+.|+++.|...|++..+.     ...+ ...+++.+-.++.+.|++++|.+.+++..+
T Consensus        11 lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_          11 LGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH
Confidence            344566666777776666665332     0111 134566666666666666666666666554

>d2nsza1 a.118.1.14 (A:322-450) Programmed cell death 4, PDCD4 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Programmed cell death 4, PDCD4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.70  E-value=4.8  Score=25.27  Aligned_cols=69  Identities=12%  Similarity=0.141  Sum_probs=46.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHhhHHHHHHHHHccCCH--HHHHHHHHHHHHCCCCCCHH
Q 027083          108 SYNALIYAFGKLKKTFEASRVFEHLVSLGVKPNAMSYSLLVDAHLTNRDQ--KAALSVIDEMVNAGFAPSKE  177 (228)
Q Consensus       108 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~--~~a~~~~~~m~~~g~~p~~~  177 (228)
                      ....+|+-|...++.++|.+.++++..... -....+..+..+.=+.+.-  +.+..++..+...|+-+...
T Consensus         9 k~~~ll~EY~~~~D~~Ea~~~l~eL~~p~~-~~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~is~~~   79 (129)
T d2nsza1           9 EIDMLLKEYLLSGDISEAEHCLKELEVPHF-HHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQ   79 (129)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTCGGG-HHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCchh-hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            467889999999999999999999853222 2345555555555555544  23566888888887654443